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

Gene ID: 304021, updated on 5-Jan-2022

Summary

Official Symbol
Col8a1provided by RGD
Official Full Name
collagen type VIII alpha 1 chainprovided by RGD
Primary source
RGD:1309361
See related
Ensembl:ENSRNOG00000039668
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. Predicted to be involved in endodermal cell differentiation and extracellular matrix organization. Predicted to act upstream of or within camera-type eye morphogenesis; epithelial cell proliferation; and positive regulation of cell-substrate adhesion. Predicted to be active in extracellular matrix and extracellular space. Orthologous to human COL8A1 (collagen type VIII alpha 1 chain). [provided by Alliance of Genome Resources, Nov 2021]
Expression
Biased expression in Heart (RPKM 74.5), Muscle (RPKM 36.2) and 9 other tissues See more
Orthologs
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Genomic context

See Col8a1 in Genome Data Viewer
Location:
11q12
Exon count:
8
Annotation release Status Assembly Chr Location
108 current 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_051346.1Genomic 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 transmembrane protein 30C

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

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

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 
Component Evidence Code Pubs
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(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_001107100.1NP_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
    Related
    ENSRNOP00000089355.1, ENSRNOT00000113782.1
    Conserved Domains (2) summary
    smart00110
    Location:612743
    C1Q; Complement component C1q domain
    pfam01391
    Location:447501
    Collagen; Collagen triple helix repeat (20 copies)

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_051346.1 Reference mRatBN7.2 Primary Assembly

    Range
    42776851..42906432
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006248208.4XP_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:613744
    C1Q; Complement component C1q domain
    pfam01391
    Location:448502
    Collagen; Collagen triple helix repeat (20 copies)
  2. XM_039088381.1XP_038944309.1  collagen alpha-1(VIII) chain isoform X1

    Conserved Domains (2) summary
    smart00110
    Location:613744
    C1Q; Complement component C1q domain
    pfam01391
    Location:448502
    Collagen; Collagen triple helix repeat (20 copies)
  3. XM_039088382.1XP_038944310.1  collagen alpha-1(VIII) chain isoform X1

    Related
    ENSRNOP00000057564.4, ENSRNOT00000060838.5
    Conserved Domains (2) summary
    smart00110
    Location:613744
    C1Q; Complement component C1q domain
    pfam01391
    Location:448502
    Collagen; Collagen triple helix repeat (20 copies)
  4. XM_017598011.2XP_017453500.1  collagen alpha-1(VIII) chain isoform X1

    UniProtKB/TrEMBL
    D4AC70
    Conserved Domains (2) summary
    smart00110
    Location:613744
    C1Q; Complement component C1q domain
    pfam01391
    Location:448502
    Collagen; Collagen triple helix repeat (20 copies)
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