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Col8a1 collagen type VIII alpha 1 chain [ Rattus norvegicus (Norway rat) ]

Gene ID: 304021, updated on 2-Nov-2024

Summary

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Official Symbol
Col8a1provided by RGD
Official Full Name
collagen type VIII alpha 1 chainprovided by RGD
Primary source
RGD:1309361
See related
EnsemblRapid:ENSRNOG00000039668 AllianceGenome:RGD:1309361
Gene type
protein coding
RefSeq status
PROVISIONAL
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 conferring tensile strength. Predicted to be involved in endodermal cell differentiation and extracellular matrix organization. Predicted to act upstream of or within camera-type eye morphogenesis; endothelial cell proliferation; and positive regulation of cell-substrate adhesion. Predicted to be active in collagen-containing extracellular matrix and extracellular space. Orthologous to human COL8A1 (collagen type VIII alpha 1 chain). [provided by Alliance of Genome Resources, Nov 2024]
Expression
Biased expression in Heart (RPKM 74.5), Muscle (RPKM 36.2) and 9 other tissues See more
Orthologs
human mouse all
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Genomic context

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See Col8a1 in Genome Data Viewer
Location:
11q12
Exon count:
8
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCr8 (GCF_036323735.1) 11 NC_086029.1 (56245998..56378586)
RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 11 NC_051346.1 (42776851..42906432)
106 previous assembly Rnor_6.0 (GCF_000001895.5) 11 NC_005110.4 (44877690..45006203)

Chromosome 11 - NC_086029.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC120095648 Neighboring gene small nucleolar RNA SNORA17 Neighboring gene filamin A interacting protein 1-like Neighboring gene cms1 ribosomal small subunit homolog Neighboring gene uncharacterized LOC134481062

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages 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

Bibliography

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Related articles in PubMed

  1. Oxidized phospholipids induce type VIII collagen expression and vascular smooth muscle cell migration. Cherepanova OA, et al. Circ Res, 2009 Mar 13. PMID 19168440, Free PMC Article
  2. Targeted disruption of Col8a1 and Col8a2 genes in mice leads to anterior segment abnormalities in the eye. Hopfer U, et al. FASEB J, 2005 Aug. PMID 16051690
  3. Regulation of endodermal differentiation of human embryonic stem cells through integrin-ECM interactions. Brafman DA, et al. Cell Death Differ, 2013 Mar. PMID 23154389, Free PMC Article
  4. FMRP recruitment of β-catenin to the translation pre-initiation complex represses translation. Ehyai S, et al. EMBO Rep, 2018 Dec. PMID 30361391, Free PMC Article
  5. Transcriptome-based systematic identification of extracellular matrix proteins. Manabe R, et al. Proc Natl Acad Sci U S A, 2008 Sep 2. PMID 18757743, Free PMC Article

See all (12) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. Oxidized phospholipids induce type VIII collagen expression and vascular smooth muscle cell migration.
    Title: Oxidized phospholipids induce type VIII collagen expression and vascular smooth muscle cell migration.
Submit: New GeneRIF Correction

Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Homology

Gene Ontology Provided by RGD

Function Evidence Code Pubs
enables extracellular matrix structural constituent conferring tensile strength IBA
Inferred from Biological aspect of Ancestor
more info
  
Process Evidence Code Pubs
acts_upstream_of_or_within camera-type eye morphogenesis ISO
Inferred from Sequence Orthology
more info
  
involved_in endodermal cell differentiation ISO
Inferred from Sequence Orthology
more info
  
acts_upstream_of_or_within endothelial cell proliferation ISO
Inferred from Sequence Orthology
more info
  
involved_in extracellular matrix organization IBA
Inferred from Biological aspect of Ancestor
more info
  
acts_upstream_of_or_within positive regulation of cell-substrate adhesion ISO
Inferred from Sequence Orthology
more info
  
Component Evidence Code Pubs
is_active_in collagen-containing extracellular matrix IBA
Inferred from Biological aspect of Ancestor
more info
  
is_active_in extracellular space IBA
Inferred from Biological aspect of Ancestor
more info
  

General protein information

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

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_001107100.1 → NP_001100570.1  collagen alpha-1(VIII) chain precursor

    See identical proteins and their annotated locations for NP_001100570.1

    Status: PROVISIONAL

    Source sequence(s)
    CH473967
    UniProtKB/TrEMBL
    A0A8I6AA24, A6IQM2
    Related
    ENSRNOP00000089355.1, ENSRNOT00000113782.2
    Conserved Domains (2) summary
    smart00110
    Location:612 → 743
    C1Q; Complement component C1q domain
    pfam01391
    Location:447 → 501
    Collagen; Collagen triple helix repeat (20 copies)

RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

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

Reference GRCr8

Genomic

  1. NC_086029.1 Reference GRCr8

    Range
    56245998..56378586
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006248208.5 → XP_006248270.1  collagen alpha-1(VIII) chain isoform X1

    See identical proteins and their annotated locations for XP_006248270.1

    UniProtKB/TrEMBL
    D4AC70
    Conserved Domains (2) summary
    smart00110
    Location:613 → 744
    C1Q; Complement component C1q domain
    pfam01391
    Location:448 → 502
    Collagen; Collagen triple helix repeat (20 copies)

  2. XM_039088381.2 → XP_038944309.1  collagen alpha-1(VIII) chain isoform X1

    UniProtKB/TrEMBL
    D4AC70
    Conserved Domains (2) summary
    smart00110
    Location:613 → 744
    C1Q; Complement component C1q domain
    pfam01391
    Location:448 → 502
    Collagen; Collagen triple helix repeat (20 copies)

  3. XM_039088382.2 → XP_038944310.1  collagen alpha-1(VIII) chain isoform X1

    UniProtKB/TrEMBL
    D4AC70
    Conserved Domains (2) summary
    smart00110
    Location:613 → 744
    C1Q; Complement component C1q domain
    pfam01391
    Location:448 → 502
    Collagen; Collagen triple helix repeat (20 copies)

  4. XM_017598011.3 → XP_017453500.1  collagen alpha-1(VIII) chain isoform X1

    UniProtKB/TrEMBL
    D4AC70
    Conserved Domains (2) summary
    smart00110
    Location:613 → 744
    C1Q; Complement component C1q domain
    pfam01391
    Location:448 → 502
    Collagen; Collagen triple helix repeat (20 copies)
Nucleotide Protein Strain
Heading Accession and Version

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