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    Col18a1 collagen type XVIII alpha 1 chain [ Rattus norvegicus (Norway rat) ]

    Gene ID: 85251, updated on 2-Oct-2017
    Official Symbol
    Col18a1provided by RGD
    Official Full Name
    collagen type XVIII alpha 1 chainprovided by RGD
    Primary source
    RGD:70936
    See related
    Ensembl:ENSRNOG00000001229
    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
    intermediate filament protein; a precursor of the angiogenesis inhibitor endostatin [RGD, Feb 2006]
    Orthologs
    Location:
    20p12
    Exon count:
    41
    Annotation release Status Assembly Chr Location
    106 current Rnor_6.0 (GCF_000001895.5) 20 NC_005119.4 (12225202..12332858)
    104 previous assembly Rnor_5.0 (GCF_000001895.4) 20 NC_005119.3 (14388743..14495241)

    Chromosome 20 - NC_005119.4Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC102556115 Neighboring gene protein O-fucosyltransferase 2 Neighboring gene solute carrier family 19 member 1 Neighboring gene uncharacterized LOC100912209

    • 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

    GeneRIFs: Gene References Into FunctionsWhat's a GeneRIF?

    Markers

    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    molecular_function ND
    No biological Data available
    more info
     
    structural molecule activity IEA
    Inferred from Electronic Annotation
    more info
     
    Process Evidence Code Pubs
    angiogenesis IEA
    Inferred from Electronic Annotation
    more info
     
    angiogenesis ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    cell adhesion IEA
    Inferred from Electronic Annotation
    more info
     
    endothelial cell morphogenesis IEA
    Inferred from Electronic Annotation
    more info
     
    endothelial cell morphogenesis ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    extracellular matrix organization IEA
    Inferred from Electronic Annotation
    more info
     
    extracellular matrix organization ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    positive regulation of cell migration IEA
    Inferred from Electronic Annotation
    more info
     
    positive regulation of cell migration ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    positive regulation of cell proliferation IEA
    Inferred from Electronic Annotation
    more info
     
    positive regulation of cell proliferation ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    positive regulation of endothelial cell apoptotic process IEA
    Inferred from Electronic Annotation
    more info
     
    positive regulation of endothelial cell apoptotic process ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    response to drug IEP
    Inferred from Expression Pattern
    more info
    PubMed 
    response to hydrostatic pressure IEP
    Inferred from Expression Pattern
    more info
    PubMed 
    Component Evidence Code Pubs
    basement membrane ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    collagen type XVIII trimer TAS
    Traceable Author Statement
    more info
    PubMed 
    extracellular exosome IEA
    Inferred from Electronic Annotation
    more info
     
    extracellular exosome ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    extracellular matrix ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    colocalizes_with extracellular matrix ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    extracellular region ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    extracellular space IDA
    Inferred from Direct Assay
    more info
    PubMed 
    extracellular space ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    Preferred Names
    collagen alpha-1(XVIII) chain
    Names
    collagen, type XVIII, alpha 1
    procollagen, type XVIII, alpha 1

    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_053489.2NP_445941.2  collagen alpha-1(XVIII) chain precursor

      See identical proteins and their annotated locations for NP_445941.2

      Status: PROVISIONAL

      Source sequence(s)
      CH473988
      UniProtKB/TrEMBL
      F1LR02
      Related
      ENSRNOP00000047962.4, ENSRNOT00000045315.4
      Conserved Domains (3) summary
      pfam01391
      Location:605659
      Collagen; Collagen triple helix repeat (20 copies)
      smart00210
      Location:33221
      TSPN; Thrombospondin N-terminal -like domains
      cd00247
      Location:11351304
      Endostatin-like; Endostatin-like domain; the angiogenesis inhibitor endostatin is a C-terminal fragment of collagen XV/XVIII, a proteoglycan/collagen found in vessel walls and basement membranes; this domain has a compact globular fold similar to that of C-type lectins; ...

    RefSeqs of Annotated Genomes: Rattus norvegicus Annotation Release 106 details...Open this link in a new tab

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

    Reference Rnor_6.0 Primary Assembly

    Genomic

    1. NC_005119.4 Reference Rnor_6.0 Primary Assembly

      Range
      12225202..12332858
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate Rn_Celera

    Genomic

    1. AC_000088.1 Alternate Rn_Celera

      Range
      12974396..13081322
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
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