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Col3a1 collagen type III alpha 1 chain [ Rattus norvegicus (Norway rat) ]

Gene ID: 84032, updated on 4-Jan-2025

Summary

Official Symbol
Col3a1provided by RGD
Official Full Name
collagen type III alpha 1 chainprovided by RGD
Primary source
RGD:71029
See related
EnsemblRapid:ENSRNOG00000003357 AllianceGenome:RGD:71029
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 enable several functions, including integrin binding activity; platelet-derived growth factor binding activity; and protease binding activity. Predicted to be an extracellular matrix structural constituent conferring tensile strength. Involved in response to mechanical stimulus and skeletal system development. Located in collagen-containing extracellular matrix. Biomarker of several diseases, including bladder neck obstruction; glomerulosclerosis; obesity; rheumatic heart disease; and type 2 diabetes mellitus. Human ortholog(s) of this gene implicated in Ehlers-Danlos syndrome; Ehlers-Danlos syndrome hypermobility type; end stage renal disease; and vascular type Ehlers-Danlos syndrome. Orthologous to human COL3A1 (collagen type III alpha 1 chain). [provided by Alliance of Genome Resources, Jan 2025]
Expression
Biased expression in Uterus (RPKM 5601.8), Muscle (RPKM 4795.9) and 8 other tissues See more
Orthologs
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Genomic context

See Col3a1 in Genome Data Viewer
Location:
9q22
Exon count:
51
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCr8 (GCF_036323735.1) 9 NC_086027.1 (54866646..54902578)
RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 9 NC_051344.1 (47374611..47410547)
106 previous assembly Rnor_6.0 (GCF_000001895.5) 9 NC_005108.4 (52023295..52059221)

Chromosome 9 - NC_086027.1Genomic Context describing neighboring genes Neighboring gene adenosylhomocysteinase, pseudogene 5 Neighboring gene ribosomal protein S3, pseudogene 8 Neighboring gene collagen type V alpha 2 chain Neighboring gene U2 spliceosomal RNA Neighboring gene uncharacterized LOC134480367 Neighboring gene CTP synthase 1, pseudogene 2

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

Bibliography

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Pathways from PubChem

Interactions

General gene information

Clone Names

  • MGC93704

Gene Ontology Provided by RGD

Function Evidence Code Pubs
enables SMAD binding  
enables extracellular matrix structural constituent  
enables extracellular matrix structural constituent conferring tensile strength  
enables integrin binding  
enables metal ion binding  
enables platelet-derived growth factor binding  
enables protease binding  
Items 1 - 25 of 45
Process Evidence Code Pubs
involved_in aorta development  
involved_in aorta smooth muscle tissue morphogenesis  
involved_in basement membrane organization  
acts_upstream_of_or_within blood vessel development  
involved_in cartilage development  
involved_in cell-matrix adhesion  
acts_upstream_of_or_within cellular response to amino acid stimulus  
involved_in cerebral cortex development  
involved_in cerebral cortex development  
involved_in chondrocyte differentiation  
acts_upstream_of_or_within collagen fibril organization  
involved_in collagen fibril organization  
acts_upstream_of_or_within digestive tract development  
involved_in digestive tract development  
involved_in elastic fiber assembly  
involved_in endochondral bone morphogenesis  
involved_in extracellular matrix organization  
involved_in extracellular matrix organization  
involved_in fibroblast proliferation  
involved_in gene expression  
involved_in heart development  
involved_in in utero embryonic development  
involved_in integrin-mediated signaling pathway  
involved_in layer formation in cerebral cortex  
involved_in limb joint morphogenesis  
involved_in lung development  
involved_in multicellular organism growth  
involved_in negative regulation of immune response  
involved_in negative regulation of neuron migration  
involved_in negative regulation of neuron migration  
involved_in neuron migration  
involved_in peptide cross-linking  
involved_in positive regulation of Rho protein signal transduction  
involved_in positive regulation of Rho protein signal transduction  
involved_in response to angiotensin  
involved_in response to cytokine  
involved_in response to mechanical stimulus PubMed 
involved_in response to radiation  
involved_in skeletal system development PubMed 
involved_in skin development  
involved_in supramolecular fiber organization  
involved_in tissue homeostasis  
involved_in transforming growth factor beta receptor signaling pathway  
involved_in transforming growth factor beta1 production  
involved_in wound healing  
Items 1 - 25 of 45
Component Evidence Code Pubs
part_of collagen trimer  
part_of collagen type III trimer  
is_active_in collagen-containing extracellular matrix  
located_in collagen-containing extracellular matrix PubMed 
located_in collagen-containing extracellular matrix  
located_in extracellular matrix  
is_active_in extracellular space  
located_in extracellular space  

General protein information

Preferred Names
collagen alpha-1(III) chain
Names
collagen, type III, alpha 1
procollagen, type III, 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_032085.1NP_114474.1  collagen alpha-1(III) chain precursor

    See identical proteins and their annotated locations for NP_114474.1

    Status: PROVISIONAL

    Source sequence(s)
    BC087039
    UniProtKB/Swiss-Prot
    O70604, P13941, Q5PQT6
    UniProtKB/TrEMBL
    A6INT2
    Related
    ENSRNOP00000109888.1, ENSRNOT00000127195.1
    Conserved Domains (3) summary
    pfam01391
    Location:413472
    Collagen; Collagen triple helix repeat (20 copies)
    pfam00093
    Location:3389
    VWC; von Willebrand factor type C domain
    pfam01410
    Location:12301462
    COLFI; Fibrillar collagen C-terminal domain

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_086027.1 Reference GRCr8

    Range
    54866646..54902578
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
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