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    Col1a1 collagen type I alpha 1 chain [ Rattus norvegicus (Norway rat) ]

    Gene ID: 29393, updated on 4-Jan-2025

    Summary

    Official Symbol
    Col1a1provided by RGD
    Official Full Name
    collagen type I alpha 1 chainprovided by RGD
    Primary source
    RGD:61817
    See related
    EnsemblRapid:ENSRNOG00000003897 AllianceGenome:RGD:61817
    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
    Also known as
    COLIA1
    Summary
    Predicted to enable identical protein 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 several processes, including cellular response to epidermal growth factor stimulus; cellular response to mechanical stimulus; and cellular response to vitamin E. Acts upstream of or within collagen-activated tyrosine kinase receptor signaling pathway. Located in extracellular space and secretory granule. Used to study cholestasis and metabolic dysfunction-associated steatotic liver disease. Biomarker of several diseases, including artery disease (multiple); bladder neck obstruction; liver disease (multiple); rheumatic heart disease; and ureteral obstruction. Human ortholog(s) of this gene implicated in several diseases, including Ehlers-Danlos syndrome arthrochalasia type 1; aggressive periodontitis; bone disease (multiple); cutaneous leishmaniasis; and dentinogenesis imperfecta. Orthologous to human COL1A1 (collagen type I alpha 1 chain). [provided by Alliance of Genome Resources, Jan 2025]
    Expression
    Biased expression in Muscle (RPKM 2843.4), Uterus (RPKM 1554.2) and 5 other tissues See more
    Orthologs
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    Genomic context

    See Col1a1 in Genome Data Viewer
    Location:
    10q26
    Exon count:
    51
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 10 NC_086028.1 (80380458..80397461)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 10 NC_051345.1 (79883622..79900625)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 10 NC_005109.4 (82745801..82762790)

    Chromosome 10 - NC_086028.1Genomic Context describing neighboring genes Neighboring gene peptidylprolyl isomerase D, pseudogene 13 Neighboring gene uncharacterized LOC102556395 Neighboring gene sarcoglycan, alpha Neighboring gene uncharacterized LOC102557019 Neighboring gene histone linker H1 domain, spermatid-specific 1

    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

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables extracellular matrix structural constituent  
    enables extracellular matrix structural constituent  
    enables extracellular matrix structural constituent conferring tensile strength  
    enables identical protein binding  
    enables metal ion binding  
    enables platelet-derived growth factor binding  
    enables protease binding  
    enables protein binding PubMed 
    Items 1 - 25 of 58
    Process Evidence Code Pubs
    involved_in blood vessel development  
    acts_upstream_of_or_within blood vessel development  
    involved_in blood vessel development  
    acts_upstream_of_or_within bone trabecula formation  
    acts_upstream_of_or_within cartilage development involved in endochondral bone morphogenesis  
    acts_upstream_of_or_within cellular response to amino acid stimulus  
    involved_in cellular response to epidermal growth factor stimulus PubMed 
    involved_in cellular response to fibroblast growth factor stimulus PubMed 
    involved_in cellular response to fluoride PubMed 
    involved_in cellular response to glucose stimulus PubMed 
    involved_in cellular response to mechanical stimulus PubMed 
    involved_in cellular response to mechanical stimulus  
    involved_in cellular response to retinoic acid PubMed 
    involved_in cellular response to transforming growth factor beta stimulus PubMed 
    involved_in cellular response to tumor necrosis factor PubMed 
    involved_in cellular response to vitamin E PubMed 
    involved_in collagen biosynthetic process  
    involved_in collagen fibril organization  
    acts_upstream_of_or_within collagen-activated tyrosine kinase receptor signaling pathway PubMed 
    involved_in embryonic skeletal system development  
    acts_upstream_of_or_within endochondral ossification  
    involved_in extracellular matrix organization  
    acts_upstream_of_or_within face morphogenesis  
    acts_upstream_of_or_within intramembranous ossification  
    acts_upstream_of_or_within negative regulation of cell-substrate adhesion  
    involved_in ossification  
    involved_in ossification PubMed 
    involved_in osteoblast differentiation  
    involved_in positive regulation of DNA-templated transcription  
    involved_in positive regulation of canonical Wnt signaling pathway  
    involved_in positive regulation of cell migration  
    involved_in positive regulation of epithelial to mesenchymal transition  
    involved_in protein localization to nucleus  
    acts_upstream_of_or_within protein transport  
    involved_in response to cAMP PubMed 
    involved_in response to estradiol PubMed 
    involved_in response to fluoride PubMed 
    involved_in response to hydrogen peroxide PubMed 
    involved_in response to hyperoxia PubMed 
    involved_in response to insulin PubMed 
    involved_in response to mechanical stimulus  
    involved_in response to mechanical stimulus PubMed 
    involved_in response to nutrient PubMed 
    involved_in response to nutrient levels PubMed 
    involved_in response to organic cyclic compound PubMed 
    involved_in response to peptide hormone PubMed 
    involved_in response to steroid hormone PubMed 
    involved_in response to xenobiotic stimulus PubMed 
    involved_in sensory perception of sound  
    involved_in skeletal system development  
    acts_upstream_of_or_within skeletal system development  
    involved_in skeletal system development  
    acts_upstream_of_or_within skeletal system morphogenesis  
    involved_in skin development  
    acts_upstream_of_or_within skin development  
    involved_in skin morphogenesis  
    involved_in tooth mineralization  
    involved_in visual perception  
    Items 1 - 25 of 58
    Component Evidence Code Pubs
    part_of collagen trimer  
    part_of collagen trimer  
    part_of collagen type I trimer  
    part_of collagen type I trimer  
    is_active_in collagen-containing extracellular matrix  
    located_in collagen-containing extracellular matrix  
    is_active_in cytoplasm  
    located_in cytoplasm  
    located_in extracellular matrix  
    located_in extracellular region  
    located_in extracellular region  
    is_active_in extracellular space  
    located_in extracellular space PubMed 
    located_in extracellular space  
    located_in secretory granule PubMed 

    General protein information

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

    NCBI Reference Sequences (RefSeq)

    NEW Try the new Transcript table

    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_053304.1NP_445756.1  collagen alpha-1(I) chain precursor

      See identical proteins and their annotated locations for NP_445756.1

      Status: VALIDATED

      Source sequence(s)
      BC133728, BQ206338, CB579389, CB693258, CO397981
      UniProtKB/Swiss-Prot
      A3KNA1, P02454, P02455, Q63079
      Related
      ENSRNOP00000081946.1, ENSRNOT00000115180.2
      Conserved Domains (3) summary
      pfam01391
      Location:225284
      Collagen; Collagen triple helix repeat (20 copies)
      smart00214
      Location:3186
      VWC; von Willebrand factor (vWF) type C domain
      pfam01410
      Location:12191452
      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_086028.1 Reference GRCr8

      Range
      80380458..80397461
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
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