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Col15a1 collagen, type XV, alpha 1 [ Mus musculus (house mouse) ]

Gene ID: 12819, updated on 1-Mar-2024

Summary

Official Symbol
Col15a1provided by MGI
Official Full Name
collagen, type XV, alpha 1provided by MGI
Primary source
MGI:MGI:88449
See related
Ensembl:ENSMUSG00000028339 AllianceGenome:MGI:88449
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Mus musculus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Summary
Predicted to be an extracellular matrix structural constituent. Predicted to be involved in angiogenesis; endothelial cell morphogenesis; and extracellular matrix organization. Predicted to act upstream of or within cell adhesion. Located in basement membrane. Is expressed in several structures, including alimentary system; brain; genitourinary system; heart and pericardium; and musculoskeletal system. Orthologous to human COL15A1 (collagen type XV alpha 1 chain). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Biased expression in subcutaneous fat pad adult (RPKM 90.5), genital fat pad adult (RPKM 48.4) and 14 other tissues See more
Orthologs
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Genomic context

See Col15a1 in Genome Data Viewer
Location:
4 B1; 4 26.01 cM
Exon count:
41
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 4 NC_000070.7 (47207744..47313165)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 4 NC_000070.6 (47207655..47313167)

Chromosome 4 - NC_000070.7Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC118568655 Neighboring gene STARR-seq mESC enhancer starr_10140 Neighboring gene polypeptide N-acetylgalactosaminyltransferase 12 Neighboring gene predicted gene, 52731 Neighboring gene predicted gene 12426 Neighboring gene STARR-positive B cell enhancer ABC_E4624 Neighboring gene predicted gene, 32317 Neighboring gene predicted gene, 52733 Neighboring gene STARR-seq mESC enhancer starr_10142 Neighboring gene predicted gene, 52734 Neighboring gene CapStarr-seq enhancer MGSCv37_chr4:47323184-47323385 Neighboring gene CapStarr-seq enhancer MGSCv37_chr4:47332572-47332788 Neighboring gene predicted gene, 52732 Neighboring gene STARR-positive B cell enhancer ABC_E10235 Neighboring gene predicted gene, 42282 Neighboring gene predicted gene, 32435 Neighboring gene transforming growth factor, beta receptor I

Genomic regions, transcripts, and products

Expression

  • Project title: Mouse ENCODE transcriptome data
  • Description: RNA profiling data sets generated by the Mouse ENCODE project.
  • BioProject: PRJNA66167
  • Publication: PMID 25409824
  • Analysis date: n/a

Bibliography

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Variation

Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)
  • Targeted (3)  1 citation
  • Endonuclease-mediated (2) 

Pathways from PubChem

General gene information

Markers

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables extracellular matrix structural constituent conferring tensile strength IBA
Inferred from Biological aspect of Ancestor
more info
 
enables extracellular matrix structural constituent conferring tensile strength RCA
inferred from Reviewed Computational Analysis
more info
PubMed 
enables protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
Process Evidence Code Pubs
acts_upstream_of_or_within cell adhesion IEA
Inferred from Electronic Annotation
more info
 
involved_in extracellular matrix organization IBA
Inferred from Biological aspect of Ancestor
more info
 
Component Evidence Code Pubs
is_active_in basement membrane IBA
Inferred from Biological aspect of Ancestor
more info
 
located_in basement membrane IDA
Inferred from Direct Assay
more info
PubMed 
part_of collagen trimer IEA
Inferred from Electronic Annotation
more info
 
located_in collagen-containing extracellular matrix HDA PubMed 
located_in extracellular region IEA
Inferred from Electronic Annotation
more info
 
located_in extracellular space HDA PubMed 
is_active_in extracellular space IBA
Inferred from Biological aspect of Ancestor
more info
 

General protein information

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

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_009928.3NP_034058.2  collagen alpha-1(XV) chain precursor

    See identical proteins and their annotated locations for NP_034058.2

    Status: VALIDATED

    Source sequence(s)
    AF011450, AK134030, CJ099231
    Consensus CDS
    CCDS18159.1
    UniProtKB/Swiss-Prot
    A2AJY3, O35206, Q3UZ71, Q9EQD9
    UniProtKB/TrEMBL
    A2AJY2
    Related
    ENSMUSP00000099981.5, ENSMUST00000102917.11
    Conserved Domains (4) summary
    smart00210
    Location:42228
    TSPN; Thrombospondin N-terminal -like domains
    pfam05109
    Location:265541
    Herpes_BLLF1; Herpes virus major outer envelope glycoprotein (BLLF1)
    pfam01391
    Location:641690
    Collagen; Collagen triple helix repeat (20 copies)
    pfam06482
    Location:11141361
    Endostatin; Collagenase NC10 and Endostatin

RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

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

Reference GRCm39 C57BL/6J

Genomic

  1. NC_000070.7 Reference GRCm39 C57BL/6J

    Range
    47207744..47313165
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

RNA

  1. XR_001784085.3 RNA Sequence