The disposition of repetitive elements consists either in arrays of tandemly repeated sequences, or in repeats dispersed throughout the genome (see below).
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Reg family members REG1A, REGL, PAP and this gene are tandemly clustered on chromosome 2p12 and may have arisen from the same ancestral gene by gene duplication.
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MOGAT2 has more than five tandemly duplicated copies in sheep with the first copy expressed in the duodenum and the last copy expressed in the skin, with no expression of any copy detected in the liver.
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Endocrinology, 148(3), 1359-66. Groves, Hanlon, Turowski, Hemmings, & Barford. (1999). The Structure of the Protein Phosphatase 2A PR65/A Subunit Reveals the Conformation of Its 15 Tandemly Repeated HEAT Motifs. Cell, 96(1), 99-110.
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C/D box snoRNAs were also identified in the rat non-coding Bsr (brain-specific repetitive) RNA. Another imprinted human locus 15q11q13 encodes tandemly repeated C/D box snoRNA genes which are expressed only from the paternal chromosome. Studies of human and mouse model systems have shown that deletion of the 29 copies of the C/D box snoRNA SNORD116 (HBII-85) from this locus has been shown to be the primary cause of Prader-Willi syndrome. A possible role for tandemly repeated C/D snoRNA genes in the evolution and/or mechanism of the epigenetic imprinting process has been suggested.
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Three genes encoding alpha, beta and gamma subunits are tandemly organized in a genomic segment as a gene cluster. This gene is monomorphic and predominant in fetal and infant livers, whereas the genes encoding beta and gamma subunits are polymorphic and strongly expressed in adult livers.
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The acetaldehyde is further metabolized to acetate by aldehyde dehydrogenase genes. Three genes encoding the closely related alpha, beta and gamma subunits are tandemly organized in a genomic segment as a gene cluster. The human gene is located on chromosome 4 in 4q22. Previously ADH1B was called ADH2.
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Transcriptional regulatory proteins containing tandemly repeated zinc finger domains are thought to be involved in both normal and abnormal cellular proliferation and differentiation. ZNF161 is a C2H2-type zinc finger protein (Koyano-Nakagawa et al., 1994 [PubMed 8035792]). See MIM 603971 for general information on zinc finger proteins.
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They are differentially regulated after early development. Four gamma-crystallin genes (gamma-A through gamma-D) and three pseudogenes (gamma-E, gamma-F, gamma-G) are tandemly organized in a genomic segment as a gene cluster. Whether due to aging or mutations in specific genes, gamma-crystallins have been involved in cataract formation.
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In humans, thrombomodulin is encoded by the THBD gene. The protein has a molecular mass of 74kDa, and consists of a single chain with six tandemly repeated EGF-like domains, a Serine/Threonine-rich spacer and a transmembrane domain. It is a member of the C-type lectin domain (CTLD) group 14 family.
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They are differentially regulated after early development. Four gamma-crystallin genes (gamma-A through gamma-D) and three pseudogenes (gamma-E, gamma-F, gamma-G) are tandemly organized in a genomic segment as a gene cluster. Whether due to aging or mutations in specific genes, gamma-crystallins have been involved in cataract formation.
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They are differentially regulated after early development. Four gamma-crystallin genes (gamma-A through gamma-D) and three pseudogenes (gamma-E, gamma-F, gamma-G) are tandemly organized in a genomic segment as a gene cluster. Whether due to aging or mutations in specific genes, gamma-crystallins have been involved in cataract formation.
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This region is mostly found to the C-terminus of the beta propellers (INTERPRO) in a family of two component regulators. However they are also found tandemly repeated in SWISSPROT without other signal conduction domains being present. The structure of this domain contains 8 beta strands organised into a beta sandwich Immunoglobulin-like fold.
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The leiomodin 1 protein has a putative membrane-spanning region and 2 types of tandemly repeated blocks. The transcript is expressed in all tissues tested, with the highest levels in thyroid, eye muscle, skeletal muscle, and ovary. Increased expression of leiomodin 1 may be linked to Graves' disease and thyroid-associated ophthalmopathy. [provided by RefSeq, Jul 2008].
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Filaggrin monomers are tandemly clustered into a large, 350kDa protein precursor known as profilaggrin. In the epidermis, these structures are present in the keratohyalin granules in cells of the stratum granulosum. Profilaggrin undergoes proteolytic processing to yield individual filaggrin monomers at the transition between the stratum granulosum and the stratum corneum, which may be facilitated by calcium-dependent enzymes.
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There is 99.97% likelihood that PRR21 enters the mitochondria. PRR21 may be involved in stress responses that are related to phosphorylation of mitochondrial proteins. The gene is ubiquitously expressed, as nearly all eukaryotic cells contain mitochondria. PRR21 may be a salivary protein, as the tandemly repeated sequence constitute almost the entire protein, which is a common feature of salivary proline-rich proteins.
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TFPI has a relative molecular mass of 34,000 to 40,000 depending on the degree of proteolysis of the C-terminal region. TFPI consists of a highly negatively charged amino-terminus, three tandemly linked Kunitz domains, and a highly positively charged carboxy-terminus. With its Kunitz domains, TFPI exhibits significant homology with human inter-alpha-trypsin inhibitor and bovine basic pancreatic trypsin inhibitor.
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This protein is a member of the White subfamily. The protein encoded by this gene functions as a half-transporter to limit intestinal absorption and promote biliary excretion of sterols. It is expressed in a tissue-specific manner in the liver, colon, and intestine. This gene is tandemly arrayed on chromosome 2, in a head-to-head orientation with family member ABCG5.
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PRR21 consists of 389 amino acids or 1170 base pairs, all found within one exon. Like other proline-rich proteins, it contains a repeated sequence of amino acids that contains several proline residues. The tandemly repeated sequence of PRR21 is 28 amino acids long and is repeated in full 11 times, with few variations. A logo displaying the variances of the repeat is shown below.
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Most of the members of the box C/D family direct site-specific 2'-O-methylation of substrate RNAs. TBR4 was one of seventeen snoRNAs identified in Trypanosoma brucei by immunoprecipitation with anti-fibrillarin antibodies. Together with TBR12, TBR6 and TBR2 it is a part of snoRNA gene cluster that is tandemly repeated. These 4 snoRNA genes are transcribed as a polycistronic RNA transcript.
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Most of the members of the box C/D family direct site-specific 2'-O-methylation of substrate RNAs. TBR2 was one of seventeen snoRNAs identified in Trypanosoma brucei by immunoprecipitation with anti-fibrillarin antibodies. Together with TBR12, TBR6 and TBR4 it is a part of snoRNA gene cluster that is tandemly repeated. These 4 snoRNA genes are transcribed as a polycistronic RNA transcript.
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DXZ4 is a variable number tandemly repeated DNA sequence. In humans it is composed of 3kb monomers containing a highly conserved CTCF binding site. CTCF is a transcription factor protein and the main insulator responsible for partitioning of chromatin domains in the vertebrate genome. In addition to being enriched in CpG-islands, DXZ4 transcribes long non-coding RNAs (lncRNAs) and small RNAs of unknown function.
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An armadillo repeat is the name of a characteristic, repetitive amino acid sequence of about 40 residues in length that is found in many proteins. Proteins that contain armadillo repeats typically contain several tandemly repeated copies. Each armadillo repeat is composed of a pair of alpha helices that form a hairpin structure. Multiple copies of the repeat form what is known as an alpha solenoid structure.
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Most of the members of the box C/D family direct site-specific 2'-O-methylation of substrate RNAs. TBR12 was one of seventeen snoRNAs identified in Trypanosoma brucei by immunoprecipitation with anti-fibrillarin antibodies. Together with TBR4, TBR6 and TBR2 it is a part of snoRNA gene cluster that is tandemly repeated. These 4 snoRNA genes are transcribed as a polycistronic RNA transcript.
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Most of the members of the box C/D family direct site-specific 2'-O-methylation of substrate RNAs. TBR6 was one of seventeen snoRNAs identified in Trypanosoma brucei by immunoprecipitation with anti-fibrillarin antibodies. Together with TBR12, TBR4 and TBR2 it is a part of snoRNA gene cluster that is tandemly repeated. These 4 snoRNA genes are transcribed as a polycistronic RNA transcript.
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Spacer DNA is a region of non-coding DNA between genes. The terms intergenic spacer (IGS) or non-transcribed spacer (NGS) are used particularly for the spacer DNA between the many tandemly repeated copies of the ribosomal RNA genes. In bacteria, spacer DNA sequences are only a few nucleotides long. In eukaryotes, they can be extensive and include repetitive DNA, comprising the majority of the DNA of the genome.
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Protocadherin gamma-B7 is a protein that in humans is encoded by the PCDHGB7 gene. This gene is a member of the protocadherin gamma gene cluster, one of three related clusters tandemly linked on chromosome five. These gene clusters have an immunoglobulin-like organization, suggesting that a novel mechanism may be involved in their regulation and expression. The gamma gene cluster includes 22 genes divided into 3 subfamilies.
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Protocadherin gamma-A11 is a protein that in humans is encoded by the PCDHGA11 gene. This gene is a member of the protocadherin gamma gene cluster, one of three related clusters tandemly linked on chromosome 5. These gene clusters have an immunoglobulin-like organization, suggesting that a novel mechanism may be involved in their regulation and expression. The gamma gene cluster includes 22 genes divided into 3 subfamilies.
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Protocadherin gamma-A12 is a protein that in humans is encoded by the PCDHGA12 gene. This gene is a member of the protocadherin gamma gene cluster, one of three related clusters tandemly linked on chromosome five. These gene clusters have an immunoglobulin-like organization, suggesting that a novel mechanism may be involved in their regulation and expression. The gamma gene cluster includes 22 genes divided into 3 subfamilies.
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Protocadherin gamma-C3 is a protein that in humans is encoded by the PCDHGC3 gene. This gene is a member of the protocadherin gamma gene cluster, one of three related clusters tandemly linked on chromosome five. These gene clusters have an immunoglobulin-like organization, suggesting that a novel mechanism may be involved in their regulation and expression. The gamma gene cluster includes 22 genes divided into 3 subfamilies.
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Most of the members of the box C/D family function in directing site-specific 2'-O-methylation of substrate RNAs. TBR17 was one of seventeen snoRNAs identified in Trypanosoma brucei by immunoprecipitation with anti-fibrillarin antibodies. Together with TBR5 and TBR7 it is a part of a tandemly repeated snoRNA gene cluster, located within the spliced leader RNA (SLA). The cluster genes are produced as polycistronic RNAs.
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The detailed sequence analysis of Doublecortin and Doublecortin-like proteins allowed the identification of a tandem repeat of evolutionarily conserved Doublecortin (DC) domains. These domains are found in the N terminus of proteins and consists of tandemly repeated copies of an around 80 amino acids region. It has been suggested that the first DC domain of Doublecortin binds tubulin and enhances microtubule polymerisation. Doublecortin has been shown to influence the structure of microtubules.
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This gene product belongs to the zinc finger protein superfamily, members of which are regulatory proteins characterized by nucleic acid-binding zinc finger domains. The encoded protein contains 20 tandemly arrayed C2H2-type zinc fingers, a Kruppel-associated box (KRAB) domain, and a SCAN box. This transcript turns over rapidly and contains 3' UTR AUUUA motifs, which are often a hallmark of rapid turnover. It is overexpressed in some thyroid papillary carcinomas.
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There are several kinds of proline-rich proteins, which can include either repetitive short sequences or tandemly repeated sequences. They have in common that the repeats, and the repeats only, contain unusual amounts of proline. They have a loose structure, which is caused by several features; the prolines have a shape that causes to chain to turn, and especially prevents alpha helices. Also, the proteins contain many positively charged residues that repel each other.
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Solute carrier family 25 (mitochondrial carrier; Graves disease autoantigen), member 16 is a protein in humans that is encoded by the SLC25A16 gene. This gene encodes a protein that contains three tandemly repeated mitochondrial carrier protein domains. The encoded protein is localized in the inner membrane and facilitates the rapid transport and exchange of molecules between the cytosol and the mitochondrial matrix space. This gene has a possible role in Graves' disease.
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TBR5 is a member of the C/D class of snoRNA which contain the C (UGAUGA) and D (CUGA) box motifs. Most of the members of the box C/D family function in directing site-specific 2'-O-methylation of substrate RNAs. Together with TBR7 and TBR17 it is a part of a tandemly repeated snoRNA gene cluster, located within the spliced leader RNA (SLA). The cluster genes are produced as polycistronic RNA.
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Most of the members of the box C/D family function in directing site-specific 2'-O-methylation of substrate RNAs. TBR7 was one of seventeen snoRNAs identified in Trypanosoma brucei by immunoprecipitation with anti-fibrillarin antibodies. It is predicted to guide the 2'O ribosose methylation of 18s ribosomal RNA (rRNA). Together with TBR5 and TBR17 it is a part of a tandemly repeated snoRNA gene cluster, located within the spliced leader RNA (SLA).
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This gene encodes a member of the fibulin family of extracellular matrix glycoproteins. Like all members of this family, the encoded protein contains tandemly repeated epidermal growth factor-like repeats followed by a C-terminus fibulin-type domain. This gene is upregulated in malignant gliomas and may play a role in the aggressive nature of these tumors. Mutations in this gene are associated with Doyne honeycomb retinal dystrophy and with predisposition to hernias.
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Subunit 1 has tandemly repeated SURP motifs in its amino-terminal half while its carboxy- terminal half contains a proline-rich region and a ubiquitin-like domain. Binding studies with truncated subunit 1 derivatives demonstrated that the two SURP motifs are necessary for binding to subunit 3 while contacts with subunit 2 may occur through sequences carboxy-terminal to the SURP motifs. Alternative splicing results in multiple transcript variants encoding different isoforms.
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The protein encoded by this gene functions as a half-transporter to limit intestinal absorption and promote biliary excretion of sterols. It is expressed in a tissue-specific manner in the liver, colon, and intestine. This gene is tandemly arrayed on chromosome 2, in a head-to-head orientation with family member ABCG8. Mutations in this gene may contribute to sterol accumulation and atherosclerosis, and have been observed in patients with sitosterolemia.
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Tandemly arrayed genes (TAGs) are a gene cluster created by tandem duplications, a process in which one gene is duplicated and the copy is found adjacent to the original. They serve to encode large numbers of genes at a time. TAGs represent a large proportion of genes in a genome, including between 14% to 17% of the human, mouse, and rat genomes. TAG clusters may have as few as two genes, with small clusters predominating, but may consist of hundreds of genes.
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This gene is a member of the protocadherin beta gene cluster, one of three related gene clusters tandemly linked on chromosome five. The gene clusters demonstrate an unusual genomic organization similar to that of B-cell and T-cell receptor gene clusters. The beta cluster contains 16 genes and 3 pseudogenes, each encoding 6 extracellular cadherin domains and a cytoplasmic tail that deviates from others in the cadherin superfamily. The extracellular domains interact in a homophilic manner to specify differential cell-cell connections.
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Rrm3p is also seen to play a role in replication forks around rDNA, including replication and regulatory regions for transcription of 35S and 5S rRNA's. Rrm3p reduces the accumulation of rDNA circles in yeast, and mutations to Rrmp3 results in increased recombination of ribosomal DNA. This increase in recombination has been attributed to interactions between the protein Rrm3p and actual nucleotide base sequence from rDNA regions, rather than interactions due to the secondary structure formed by tandemly repeated DNA regions.
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Minisatellites consist of repetitive, generally GC-rich, motifs that range in length from 10 to over 100 base pairs. These variant repeats are tandemly intermingled. Some minisatellites contain a central sequence (or "core unit") of nucleobases “GGGCAGGANG” (where N can be any base) or more generally consist of sequence motifs of purines (Adenine (A) and Guanine (G)) and pyrimidines (Cytosine (C) and Thymine (T)). Hypervariable minisatellites have core units 9–64 bp long and are found mainly at the centromeric regions.
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The protein encoded by this gene was initially identified as a molecule linking syndecan-mediated signaling to the cytoskeleton. The syntenin protein contains tandemly repeated PDZ domains that bind the cytoplasmic, C-terminal domains of a variety of transmembrane proteins. This protein may also affect cytoskeletal-membrane organization, cell adhesion, protein trafficking, and the activation of transcription factors. The protein is primarily localized to membrane-associated adherens junctions and focal adhesions but is also found at the endoplasmic reticulum and nucleus.
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Multiple loci VNTR analysis (MLVA) is a method employed for the genetic analysis of particular microorganisms, such as pathogenic bacteria, that takes advantage of the polymorphism of tandemly repeated DNA sequences. A "VNTR" is a "variable-number tandem repeat". This method is well known in forensic science since it is the basis of DNA fingerprinting in humans. When applied to bacteria, it contributes to forensic microbiology through which the source of a particular strain might eventually be traced back, making it a useful technique for outbreak surveillance.
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Protocadherin beta-9 is a protein that in humans is encoded by the PCDHB9 gene. This gene is a member of the protocadherin beta gene cluster, one of three related gene clusters tandemly linked on chromosome five. The gene clusters demonstrate an unusual genomic organization similar to that of B-cell and T-cell receptor gene clusters. The beta cluster contains 16 genes and 3 pseudogenes, each encoding 6 extracellular cadherin domains and a cytoplasmic tail that deviates from others in the cadherin superfamily.
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Protocadherin beta-7 is a protein that in humans is encoded by the PCDHB7 gene. This gene is a member of the protocadherin beta gene cluster, one of three related gene clusters tandemly linked on chromosome five. The gene clusters demonstrate an unusual genomic organization similar to that of B-cell and T-cell receptor gene clusters. The beta cluster contains 16 genes and 3 pseudogenes, each encoding 6 extracellular cadherin domains and a cytoplasmic tail that deviates from others in the cadherin superfamily.
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Protocadherin beta-4 is a protein that in humans is encoded by the PCDHB4 gene. This gene is a member of the protocadherin beta gene cluster, one of three related gene clusters tandemly linked on chromosome five. The gene clusters demonstrate an unusual genomic organization similar to that of B-cell and T-cell receptor gene clusters. The beta cluster contains 16 genes and 3 pseudogenes, each encoding 6 extracellular cadherin domains and a cytoplasmic tail that deviates from others in the cadherin superfamily.
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Protocadherin beta-15 is a protein that in humans is encoded by the PCDHB15 gene. This gene is a member of the protocadherin beta gene cluster, one of three related gene clusters tandemly linked on chromosome five. The gene clusters demonstrate an unusual genomic organization similar to that of B-cell and T-cell receptor gene clusters. The beta cluster contains 16 genes and 3 pseudogenes, each encoding 6 extracellular cadherin domains and a cytoplasmic tail that deviates from others in the cadherin superfamily.
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Protocadherin beta-12 is a protein that in humans is encoded by the PCDHB12 gene. This gene is a member of the protocadherin beta gene cluster, one of three related gene clusters tandemly linked on chromosome five. The gene clusters demonstrate an unusual genomic organization similar to that of B-cell and T-cell receptor gene clusters. The beta cluster contains 16 genes and 3 pseudogenes, each encoding 6 extracellular cadherin domains and a cytoplasmic tail that deviates from others in the cadherin superfamily.
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Protocadherin beta-3 is a protein that in humans is encoded by the PCDHB3 gene. This gene is a member of the protocadherin beta gene cluster, one of three related gene clusters tandemly linked on chromosome five. The gene clusters demonstrate an unusual genomic organization similar to that of B-cell and T-cell receptor gene clusters. The beta cluster contains 16 genes and 3 pseudogenes, each encoding 6 extracellular cadherin domains and a cytoplasmic tail that deviates from others in the cadherin superfamily.
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Protocadherin beta-16 is a protein that in humans is encoded by the PCDHB16 gene. This gene is a member of the protocadherin beta gene cluster, one of three related gene clusters tandemly linked on chromosome five. The gene clusters demonstrate an unusual genomic organization similar to that of B-cell and T-cell receptor gene clusters. The beta cluster contains 16 genes and 3 pseudogenes, each encoding 6 extracellular cadherin domains and a cytoplasmic tail that deviates from others in the cadherin superfamily.
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NmsRA and NmsRB (Neisseria metabolic switch regulator), RcoF1 and RcoF2 (RNA regulating colonization factor) as well as NgncR_162 and NgncR_163 (Neisseria gonorrhoeae non-coding RNA) are all names of neisserial sibling small regulatory RNAs described and independently named in three publications. NmsRB/RcoF1/NgncR_163 was shown to be the predominant sibling. The sRNAs are tandemly arranged, structurally nearly identical and share 70% sequence identity. They translationally down-regulate genes involved in basic metabolic processes including tricarboxylic acid cycle enzymes and amino acid uptake and degradation.
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Protocadherin beta-10 is a protein that in humans is encoded by the PCDHB10 gene. This gene is a member of the protocadherin beta gene cluster, one of three related gene clusters tandemly linked on chromosome five. The gene clusters demonstrate an unusual genomic organization similar to that of B-cell and T-cell receptor gene clusters. The beta cluster contains 16 genes and 3 pseudogenes, each encoding 6 extracellular cadherin domains and a cytoplasmic tail that deviates from others in the cadherin superfamily.
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Protocadherin beta-14 is a protein that in humans is encoded by the PCDHB14 gene. This gene is a member of the protocadherin beta gene cluster, one of three related gene clusters tandemly linked on chromosome 5. The gene clusters demonstrate an unusual genomic organization similar to that of B-cell and T-cell receptor gene clusters. The beta cluster contains 16 genes and 3 pseudogenes, each encoding 6 extracellular cadherin domains and a cytoplasmic tail that deviates from others in the cadherin superfamily.
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Protocadherin beta-11 is a protein that in humans is encoded by the PCDHB11 gene. This gene is a member of the protocadherin beta gene cluster, one of three related gene clusters tandemly linked on chromosome five. The gene clusters demonstrate an unusual genomic organization similar to that of B-cell and T-cell receptor gene clusters. The beta cluster contains 16 genes and 3 pseudogenes, each encoding 6 extracellular cadherin domains and a cytoplasmic tail that deviates from others in the cadherin superfamily.
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Protocadherin beta-2 is a protein that in humans is encoded by the PCDHB2 gene. This gene is a member of the protocadherin beta gene cluster, one of three related gene clusters tandemly linked on chromosome five. The gene clusters demonstrate an unusual genomic organization similar to that of B-cell and T-cell receptor gene clusters. The beta cluster contains 16 genes and 3 pseudogenes, each encoding 6 extracellular cadherin domains and a cytoplasmic tail that deviates from others in the cadherin superfamily.
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Protocadherin beta-5 is a protein that in humans is encoded by the PCDHB5 gene. This gene is a member of the protocadherin beta gene cluster, one of three related gene clusters tandemly linked on chromosome five. The gene clusters demonstrate an unusual genomic organization similar to that of B-cell and T-cell receptor gene clusters. The beta cluster contains 16 genes and 3 pseudogenes, each encoding 6 extracellular cadherin domains and a cytoplasmic tail that deviates from others in the cadherin superfamily.
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The gene loci including this gene, CDC2L2, as well as metalloprotease MMP21/22, consist of two identical, tandemly linked genomic regions which are thought to be a part of the larger region that has been duplicated. This gene and CDC2L2 were shown to be deleted or altered frequently in neuroblastoma with amplified MYCN genes. The protein kinase encoded by this gene could be cleaved by caspases and was demonstrated to play roles in cell apoptosis. Several alternatively spliced variants of this gene have been reported.
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The protein encoded by this gene is a transcription factor that binds to GC box elements located in the promoter. Binding of the encoded protein to a single GC box inhibits mRNA expression while binding to tandemly repeated GC box elements activates transcription. Oxidative stress increases expression of Klf9 and overexpression of Klf9 gene sensitizes the cell to oxidative stress and reactive oxygen species (ROS)]. , Using a short hairpin RNA (shRNA) to silence expression of Klf9 provides resistance for the cell to oxidative stress and ROS-related cell death.
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A microsatellite is a tract of tandemly repeated (i.e. adjacent) DNA motifs that range in length from one to six or up to ten nucleotides (the exact definition and delineation to the longer minisatellites varies from author to author), and are typically repeated 5–50 times. For example, the sequence TATATATATA is a dinucleotide microsatellite, and GTCGTCGTCGTCGTC is a trinucleotide microsatellite (with A being Adenine, G Guanine, C Cytosine, and T Thymine). Repeat units of four and five nucleotides are referred to as tetra- and pentanucleotide motifs, respectively.
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Mutations in these repeating segments can affect the physical and chemical properties of proteins, with the potential for producing gradual and predictable changes in protein action. For example, length changes in tandemly repeating regions in the Runx2 gene lead to differences in facial length in domesticated dogs (Canis familiaris), with an association between longer sequence lengths and longer faces. This association also applies to a wider range of Carnivora species. Length changes in polyalanine tracts within the HoxA13 gene are linked to Hand-Foot-Genital Syndrome, a developmental disorder in humans.
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The entire protein domain is composed of HEAT repeat domains, similar to those found in other proteins. Twelve of the fourteen helices (αA-αN) pair in an antiparallel pattern, and form six tandemly repeated α-α motifs, such as αA/αC, αD/αE, αF/αG, αH/αI, αJ/αK, and αL/αM. These helical repeats are stacked into a superhelical solenoid in which helices B, C, E, G, I, K and M form a concave surface with an aromatic cleft at its center. Residues within this cleft are crucial for the base excision activity.
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This gene encodes class I alcohol dehydrogenase, gamma subunit, which is a member of the alcohol dehydrogenase family. Members of this enzyme family metabolize a wide variety of substrates, including ethanol (beverage alcohol), retinol, other aliphatic alcohols, hydroxysteroids, and lipid peroxidation products. Class I alcohol dehydrogenase, consisting of several homo- and heterodimers of alpha, beta, and gamma subunits, exhibit high activity for ethanol oxidation and play a major role in ethanol catabolism. Three genes encoding alpha, beta and gamma subunits are tandemly organized in a genomic segment as a gene cluster.
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Variable charge X-linked protein 1 is a protein that in humans is encoded by the VCX gene. This gene belongs to the VCX/Y gene family, which has multiple members on both X and Y chromosomes, and all are expressed exclusively in male germ cells. The X-linked members are clustered on chromosome Xp22 and Y-linked members are two identical copies of the gene within a palindromic region on Yq11. The family members share a high degree of sequence identity, with the exception that a 30-bp unit is tandemly repeated in X-linked members but occurs only once in Y-linked members.
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Multiple copies of the V, D and J gene segments exist, and are tandemly arranged in the genomes of mammals. In the bone marrow, each developing B cell will assemble an immunoglobulin variable region by randomly selecting and combining one V, one D and one J gene segment (or one V and one J segment in the light chain). As there are multiple copies of each type of gene segment, and different combinations of gene segments can be used to generate each immunoglobulin variable region, this process generates a huge number of antibodies, each with different paratopes, and thus different antigen specificities. The rearrangement of several subgenes (i.e.
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Unlike HSGAGs and CSGAGs, the third class of GAGs, those belonging to keratan sulfate types, are driven towards biosynthesis through particular protein sequence motifs. For example, in the cornea and cartilage, the keratan sulfate domain of aggrecan consists of a series of tandemly repeated hexapeptides with a consensus sequence of E(E/L)PFPS. Additionally, for three other keratan sulfated proteoglycans, lumican, keratocan, and mimecan (OGN), the consensus sequence NX(T/S) along with protein secondary structure was determined to be involved in N-linked oligosaccharide extension with keratan sulfate. Keratan sulfate elongation begins at the nonreducing ends of three linkage oligosaccharides, which define the three classes of keratan sulfate.
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The gene for carbonaria in B. betularia was thought to be in a region of chromosome 17, but it was later concluded that it could not contain it because none of the genes in the chromosome coded for either wing pattern or melaninization. The region that was used to find it was the first intron of the orthologue of the cortex gene in Drosophila. Through elimination of candidates within the region based on rarity, a 21,925 base pair insert remained. The insert, labeled carb-TE, is a class II transposable element that has an approximately 9-kb non-repetitive sequence that is tandemly repeated two and a third times.
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During her postdoctoral work at Yale, Blackburn was doing research on the protozoan Tetrahymena thermophila and noticed a repeating codon at the end of the linear rDNA which varied in size. Blackburn then noticed that this hexanucleotide at the end of the chromosome contained a TTAGGG sequence that was tandemly repeated, and the terminal end of the chromosomes were palindromic. These characteristics allowed Blackburn and colleagues to conduct further research on the protozoan. Using the telomeric repeated end of Tetrahymena, Blackburn and colleague Jack Szostak showed the unstable replicating plasmids of yeast were protected from degradation, proving that these sequences contained characteristics of telomeres.
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Protocadherin alpha-5 is a protein that in humans is encoded by the PCDHA5 gene. This gene is a member of the protocadherin alpha gene cluster, one of three related gene clusters tandemly linked on chromosome 5 that demonstrate an unusual genomic organization similar to that of B-cell and T-cell receptor gene clusters. The alpha gene cluster is composed of 15 cadherin superfamily genes related to the mouse CNR genes and consists of 13 highly similar and 2 more distantly related coding sequences. The tandem array of 15 N-terminal exons, or variable exons, are followed by downstream C-terminal exons, or constant exons, which are shared by all genes in the cluster.
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Protocadherin alpha-C2 is a protein that in humans is encoded by the PCDHAC2 gene. This gene is a member of the protocadherin alpha gene cluster, one of three related gene clusters tandemly linked on chromosome five that demonstrate an unusual genomic organization similar to that of B-cell and T-cell receptor gene clusters. The alpha gene cluster is composed of 15 cadherin superfamily genes related to the mouse CNR genes and consists of 13 highly similar and 2 more distantly related coding sequences. The tandem array of 15 N-terminal exons, or variable exons, are followed by downstream C-terminal exons, or constant exons, which are shared by all genes in the cluster.
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Protocadherin alpha-3 is a protein that in humans is encoded by the PCDHA3 gene. This gene is a member of the protocadherin alpha gene cluster, one of three related gene clusters tandemly linked on chromosome 5 that demonstrate an unusual genomic organization similar to that of B-cell and T-cell receptor gene clusters. The alpha gene cluster is composed of 15 cadherin superfamily genes related to the mouse CNR genes and consists of 13 highly similar and 2 more distantly related coding sequences. The tandem array of 15 N-terminal exons, or variable exons, are followed by downstream C-terminal exons, or constant exons, which are shared by all genes in the cluster.
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Protocadherin alpha-1 is a protein that in humans is encoded by the PCDHA1 gene. This gene is a member of the protocadherin alpha gene cluster, one of three related gene clusters tandemly linked on chromosome five that demonstrate an unusual genomic organization similar to that of B-cell and T-cell receptor gene clusters. The alpha gene cluster is composed of 15 cadherin superfamily genes related to the mouse CNR genes and consists of 13 highly similar and 2 more distantly related coding sequences. The tandem array of 15 N-terminal exons, or variable exons, are followed by downstream C-terminal exons, or constant exons, which are shared by all genes in the cluster.
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Small nucleolar RNA SNORD113 (also known as C/D box snoRNA 14q(I)) is a small nucleolar RNA molecule which is located in the imprinted human 14q32 locus and may play a role in the evolution and/or mechanism of the epigenetic imprinting process. In humans the imprinted domain at 14q32 contains two clusters of tandemly repeated small nucleolar RNAs named 14q(I) and 14q(II) snoRNAs. These two clusters contain 9 and 31 highly related snoRNAs respectively. These two related snoRNAs are known as SNORD113 and SNORD114 respectively in the HGNC approved gene symbol nomenclature. The snoRNAs found in each cluster are clearly related and are simply referred to with a 1-9 or 1-31 suffix.
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Protocadherin alpha-12 is a protein that in humans is encoded by the PCDHA12 gene. This gene is a member of the protocadherin alpha gene cluster, one of three related gene clusters tandemly linked on chromosome 5 that demonstrate an unusual genomic organization similar to that of B-cell and T-cell receptor gene clusters. The alpha gene cluster is composed of 15 cadherin superfamily genes related to the mouse CNR genes and consists of 13 highly similar and 2 more distantly related coding sequences. The tandem array of 15 N-terminal exons, or variable exons, are followed by downstream C-terminal exons, or constant exons, which are shared by all genes in the cluster.
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Protocadherin alpha-6 is a protein that in humans is encoded by the PCDHA6 gene. This gene is a member of the protocadherin alpha gene cluster, one of three related gene clusters tandemly linked on chromosome five that demonstrate an unusual genomic organization similar to that of B-cell and T-cell receptor gene clusters. The alpha gene cluster is composed of 15 cadherin superfamily genes related to the mouse CNR genes and consists of 13 highly similar and 2 more distantly related coding sequences. The tandem array of 15 N-terminal exons, or variable exons, are followed by downstream C-terminal exons, or constant exons, which are shared by all genes in the cluster.
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Protocadherin alpha-4 is a protein that in humans is encoded by the PCDHA4 gene. This gene is a member of the protocadherin alpha gene cluster, one of three related gene clusters tandemly linked on chromosome five that demonstrate an unusual genomic organization similar to that of B-cell and T-cell receptor gene clusters. The alpha gene cluster is composed of 15 cadherin superfamily genes related to the mouse CNR genes and consists of 13 highly similar and 2 more distantly related coding sequences. The tandem array of 15 N-terminal exons, or variable exons, are followed by downstream C-terminal exons, or constant exons, which are shared by all genes in the cluster.
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Protocadherin alpha-2 is a protein that in humans is encoded by the PCDHA2 gene. This gene is a member of the protocadherin alpha gene cluster, one of three related gene clusters tandemly linked on chromosome five that demonstrate an unusual genomic organization similar to that of B-cell and T-cell receptor gene clusters. The alpha gene cluster is composed of 15 cadherin superfamily genes related to the mouse CNR genes and consists of 13 highly similar and 2 more distantly related coding sequences. The tandem array of 15 N-terminal exons, or variable exons, are followed by downstream C-terminal exons, or constant exons, which are shared by all genes in the cluster.
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Protocadherin alpha-9 is a protein that in humans is encoded by the PCDHA9 gene. This gene is a member of the protocadherin alpha gene cluster, one of three related gene clusters tandemly linked on chromosome 5 that demonstrate an unusual genomic organization similar to that of B-cell and T-cell receptor gene clusters. The alpha gene cluster is composed of 15 cadherin superfamily genes related to the mouse CNR genes and consists of 13 highly similar and 2 more distantly related coding sequences. The tandem array of 15 N-terminal exons, or variable exons, are followed by downstream C-terminal exons, or constant exons, which are shared by all genes in the cluster.
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Satellite DNA consists of very large arrays of tandemly repeating, non-coding DNA. Satellite DNA is the main component of functional centromeres, and form the main structural constituent of heterochromatin. The name "satellite DNA" refers to the phenomenon that repetitions of a short DNA sequence tend to produce a different frequency of the bases adenine, cytosine, guanine and thymine, and thus have a different density from bulk DNA such that they form a second or 'satellite' band when genomic DNA is separated on a density gradient. Sequences with a greater ratio of A+T display a lower density while those with a greater ratio of G+C display a higher density than the bulk of genomic DNA.
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In molecular biology, Small Cajal body specific RNA 13 (also known as scaRNA13 or U93) is a small nucleolar RNA found in Cajal bodies and believed to be involved in the pseudouridylation of U2 and U5 spliceosomal RNA. scaRNAs are a specific class of small nucleolar RNAs that localise to the Cajal bodies and guide the modification of RNA polymerase II transcribed spliceosomal RNAs U1, U2, U4, U5 and U12. U93 is composed of two tandemly arranged box H/ACA box sequence motifs and belongs to the H/ACA box class of guide RNAs. U93 is predicted to guide pseudouridylation of U2 spliceosomal snRNA residue U54 and residue U53 of snRNA U5.
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The 5' UTR of the L1 element contains a strong, internal RNA Polymerase II transcription promoter in sense The 5' UTR of mouse L1s contain a variable number of GC-rich tandemly repeated monomers of around 200bp, followed by a short non-monomeric region. Human 5’ UTRs are ~900bp in length and do not contain repeated motifs. All families of human L1s harbor in their most 5’ extremity a binding motif for the transcription factor YY1. Younger families have also two binding sites for SOX-family transcription factors, and both YY1 and SOX sites were shown to be required for human L1 transcription initiation and activation. Both mouse and human 5’ UTRs contain as well a weak antisense promoter of unknown function.
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Pancreatic Stone Protein (PSP), also known as Lithostathine-1-alpha islet cells regeneration factor (ICRF) or islet of Langerhans regenerating protein (REG) is a protein that in humans is encoded by the REG1A gene as a single polypeptide of 144 amino acids further cleaved by trypsin to produced a 133 amino acid protein that is O-linked glycosylated on threonine 27. This protein is a type I subclass member of the Regenerating protein family. The Reg protein family is a multi protein family grouped into four subclasses, types I, II, III and IV based on the primary structures of the proteins. Reg family members REG1B, REGL, PAP and this gene are tandemly clustered on chromosome 2p12 and may have arisen from the same ancestral gene by gene duplication.. The PSP is mostly produced in Human by the acinar cells of the pancreas and is secreted in the duodenum by the same pathway that pancreatic exocrine enzymes.
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SNORD115 (also known as HBII-52) is a non-coding RNA (ncRNA) molecule known as a small nucleolar RNA which usually functions in guiding the modification of other non-coding RNAs. This type of modifying RNA is usually located in the nucleolus of the eukaryotic cell which is a major site of snRNA biogenesis. HBII-52 refers to the human gene, whereas RBII-52 is used for the rat gene and MBII-52 is used for naming the mouse gene. HBII-52 belongs to the C/D box class of snoRNAs which contain the conserved sequence motifs known as the C box (UGAUGA) and the D box (CUGA). Most of the members of the box C/D family function in directing site-specific 2'-O-methylation of substrate RNAs. In the human genome, HBII-52 is encoded in a tandemly repeated array with another C/D box snoRNA, HBII-85 (SNORD116), in the Prader-Willi syndrome (PWS) region of chromosome 15. However, a microdeletion in one family of the snoRNA HBII-52 cluster has excluded it from playing a major role in the disease. HBII-52 is found in 47 tandem near identical copies on human chromosome 15q11-13.
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