Description: Homo sapiens collagen, type XIII, alpha 1 (COL13A1), transcript variant 21, mRNA. RefSeq Summary (NM_080798): This gene encodes the alpha chain of one of the nonfibrillar collagens. The function of this gene product is not known, however, it has been detected at low levels in all connective tissue-producing cells so it may serve a general function in connective tissues. Unlike most of the collagens, which are secreted into the extracellular matrix, collagen XIII contains a transmembrane domain and the protein has been localized to the plasma membrane. The transcripts for this gene undergo complex and extensive splicing involving at least eight exons. Like other collagens, collagen XIII is a trimer; it is not known whether this trimer is composed of one or more than one alpha chain isomer. A number of alternatively spliced transcript variants have been described, but the full length nature of some of them has not been determined. [provided by RefSeq, Jul 2008]. Transcript (Including UTRs) Position: hg19 chr10:71,561,644-71,718,904 Size: 157,261 Total Exon Count: 35 Strand: + Coding Region Position: hg19 chr10:71,562,180-71,718,457 Size: 156,278 Coding Exon Count: 35
Hip Douglas P Kiel et al. BMC medical genetics 2007, Genome-wide association with bone mass and geometry in the Framingham Heart Study., BMC medical genetics.
[PubMed 17903296]
The FHS 100K SNP project offers an unbiased genome-wide strategy to identify new candidate loci and to replicate previously suggested candidate genes for osteoporosis.
Hip Douglas P Kiel et al. BMC medical genetics 2007, Genome-wide association with bone mass and geometry in the Framingham Heart Study., BMC medical genetics.
[PubMed 17903296]
The FHS 100K SNP project offers an unbiased genome-wide strategy to identify new candidate loci and to replicate previously suggested candidate genes for osteoporosis.
The RNAfold program from the Vienna RNA Package is used to perform the secondary structure predictions and folding calculations. The estimated folding energy is in kcal/mol. The more negative the energy, the more secondary structure the RNA is likely to have.
ModBase Predicted Comparative 3D Structure on Q5TAT6-10
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Orthologous Genes in Other Species
Orthologies between human, mouse, and rat are computed by taking the best BLASTP hit, and filtering out non-syntenic hits. For more distant species reciprocal-best BLASTP hits are used. Note that the absence of an ortholog in the table below may reflect incomplete annotations in the other species rather than a true absence of the orthologous gene.
BC139913 - Homo sapiens cDNA clone IMAGE:40147712. AJ293624 - Homo sapiens mRNA for type XIII collagen (COLXIIIA1 gene). BC136385 - Homo sapiens collagen, type XIII, alpha 1, mRNA (cDNA clone MGC:167995 IMAGE:9020372), complete cds. M59217 - Human collagen type XIII alpha-1 mRNA, complete cds. M33653 - Human (clones HT-[125,133]) alpha-2 type IV collagen (COL4A2) mRNA, complete cds. M15524 - Human collagen type IV mRNA. JD210503 - Sequence 191527 from Patent EP1572962. JD430631 - Sequence 411655 from Patent EP1572962. JD425776 - Sequence 406800 from Patent EP1572962. JD555613 - Sequence 536637 from Patent EP1572962. AK124476 - Homo sapiens cDNA FLJ42485 fis, clone BRACE2032329. JD434631 - Sequence 415655 from Patent EP1572962. JD059424 - Sequence 40448 from Patent EP1572962.
Biochemical and Signaling Pathways
Reactome (by CSHL, EBI, and GO)
Protein Q5TAT6 (Reactome details) participates in the following event(s):
R-HSA-8944261 Association of procollagen type XIII R-HSA-2002460 P4HB binds Collagen chains R-HSA-8948230 P3HB binds 4-Hyp-collagen propeptides R-HSA-1650808 Prolyl 4-hydroxylase converts collagen prolines to 4-hydroxyprolines R-HSA-1980233 Collagen prolyl 3-hydroxylase converts 4-Hyp collagen to 3,4-Hyp collagen R-HSA-8948219 PLOD3 binds Lysyl hydroxylated collagen propeptides R-HSA-8948228 COLGALT1,COLGALT2 bind Lysyl hydroxylated collagen propeptides R-HSA-2484965 Collagen type XIII binds Integrin alpha1beta1 R-HSA-2022073 Procollagen triple helix formation R-HSA-1981104 Procollagen lysyl hydroxylases convert collagen lysines to 5-hydroxylysines R-HSA-1981120 Galactosylation of collagen propeptide hydroxylysines by procollagen galactosyltransferases 1, 2. R-HSA-1981128 Galactosylation of collagen propeptide hydroxylysines by PLOD3 R-HSA-1981157 Glucosylation of collagen propeptide hydroxylysines R-HSA-8948216 Collagen chain trimerization R-HSA-1650814 Collagen biosynthesis and modifying enzymes R-HSA-1442490 Collagen degradation R-HSA-1474290 Collagen formation R-HSA-216083 Integrin cell surface interactions R-HSA-1474228 Degradation of the extracellular matrix R-HSA-1474244 Extracellular matrix organization
US Server
