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Col15a1 collagen type XV alpha 1 chain [ Rattus norvegicus (Norway rat) ]

Gene ID: 298069, updated on 19-May-2022

Summary

Symbol
Col15a1provided by RGD
Full Name
collagen type XV alpha 1 chainprovided by RGD
Primary source
RGD:1310820
See related
Ensembl:ENSRNOG00000060381 AllianceGenome:RGD:1310820
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Rattus norvegicus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Summary
Predicted to be an extracellular matrix structural constituent. Predicted to be involved in angiogenesis; endothelial cell morphogenesis; and extracellular matrix organization. Predicted to be located in basement membrane. Predicted to be part of collagen trimer. Predicted to be active in extracellular matrix and extracellular space. Orthologous to human COL15A1 (collagen type XV alpha 1 chain). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Biased expression in Heart (RPKM 635.6), Muscle (RPKM 370.5) and 7 other tissues See more
Orthologs
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Genomic context

See Col15a1 in Genome Data Viewer
Location:
5q22
Exon count:
40
Annotation release Status Assembly Chr Location
108 current mRatBN7.2 (GCF_015227675.2) 5 NC_051340.1 (61501963..61607591)
106 previous assembly Rnor_6.0 (GCF_000001895.5) 5 NC_005104.4 (62840360..62950240)

Chromosome 5 - NC_051340.1Genomic Context describing neighboring genes Neighboring gene developmental pluripotency-associated 3, pseudogene 4 Neighboring gene polypeptide N-acetylgalactosaminyltransferase 12 Neighboring gene uncharacterized LOC102551073 Neighboring gene uncharacterized LOC120102870 Neighboring gene transforming growth factor, beta receptor 1 Neighboring gene uncharacterized LOC120102871

Genomic regions, transcripts, and products

Expression

  • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
  • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
  • BioProject: PRJNA238328
  • Publication: PMID 24510058
  • Analysis date: Mon Jun 6 17:44:12 2016

General gene information

Markers

Homology

Gene Ontology Provided by RGD

Function Evidence Code Pubs
enables extracellular matrix structural constituent IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
Process Evidence Code Pubs
involved_in angiogenesis IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in endothelial cell morphogenesis IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in extracellular matrix organization IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
Component Evidence Code Pubs
located_in basement membrane ISO
Inferred from Sequence Orthology
more info
 
part_of collagen trimer IEA
Inferred from Electronic Annotation
more info
 
is_active_in extracellular matrix IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
is_active_in extracellular space IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 

General protein information

Preferred Names
collagen alpha-1(XV) chain
Names
collagen alpha-1(XV) chain-like
collagen, type XV, alpha 1
procollagen, type XV

NCBI Reference Sequences (RefSeq)

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RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

  1. NM_001100535.2NP_001094005.1  collagen alpha-1(XV) chain precursor

    See identical proteins and their annotated locations for NP_001094005.1

    Status: VALIDATED

    Source sequence(s)
    JACYVU010000161
    UniProtKB/TrEMBL
    A0A0G2JV12
    Related
    ENSRNOP00000069309.1, ENSRNOT00000088385.2
    Conserved Domains (3) summary
    pfam01391
    Location:616668
    Collagen; Collagen triple helix repeat (20 copies)
    smart00210
    Location:40228
    TSPN; Thrombospondin N-terminal -like domains
    cd00247
    Location:11721338
    Endostatin-like; Endostatin-like domain; the angiogenesis inhibitor endostatin is a C-terminal fragment of collagen XV/XVIII, a proteoglycan/collagen found in vessel walls and basement membranes; this domain has a compact globular fold similar to that of C-type lectins; ...

RefSeqs of Annotated Genomes: Rattus norvegicus Annotation Release 108 details...Open this link in a new tab

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference mRatBN7.2 Primary Assembly

Genomic

  1. NC_051340.1 Reference mRatBN7.2 Primary Assembly

    Range
    61501963..61607591
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)