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    COL18A1 collagen type XVIII alpha 1 chain [ Pan troglodytes (chimpanzee) ]

    Gene ID: 474050, updated on 6-Oct-2018

    Summary

    Official Symbol
    COL18A1provided by VGNC
    Official Full Name
    collagen type XVIII alpha 1 chainprovided by VGNC
    Primary source
    VGNC:VGNC:10689
    Locus tag
    CK820_G0023010
    See related
    Ensembl:ENSPTRG00000014005
    Gene type
    protein coding
    RefSeq status
    MODEL
    Organism
    Pan troglodytes
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Pan
    Orthologs

    Genomic context

    See COL18A1 in Genome Data Viewer
    Location:
    chromosome: 21
    Exon count:
    47
    Annotation release Status Assembly Chr Location
    105 current Clint_PTRv2 (GCF_002880755.1) 21 NC_036900.1 (31911880..32027078)
    103 previous assembly Pan_troglodytes-2.1.4 (GCF_000001515.6) 21 NC_006488.3 (31417414..31532281)

    Chromosome 21 - NC_036900.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC112206647 Neighboring gene uncharacterized LOC104004773 Neighboring gene uncharacterized LOC104004783 Neighboring gene solute carrier family 19 member 1 Neighboring gene uncharacterized LOC107970192

    Genomic regions, transcripts, and products

    Expression

    • Project title: Tissue-specific RNA-sequencing for ten non-human primate species
    • Description: Total RNA sequencing of fifteen different tissues for ten non-human primates
    • BioProject: PRJNA271912
    • Publication: PMID 25392405
    • Analysis date: Tue Apr 3 07:13:10 2018

    Bibliography

    GeneRIFs: Gene References Into FunctionsWhat's a GeneRIF?

    Pathways from BioSystems

    • Protein digestion and absorption, organism-specific biosystem (from KEGG)
      Protein digestion and absorption, organism-specific biosystemProtein is a dietary component essential for nutritional homeostasis in humans. Normally, ingested protein undergoes a complex series of degradative processes following the action of gastric, pancrea...
    • Protein digestion and absorption, conserved biosystem (from KEGG)
      Protein digestion and absorption, conserved biosystemProtein is a dietary component essential for nutritional homeostasis in humans. Normally, ingested protein undergoes a complex series of degradative processes following the action of gastric, pancrea...

    General gene information

    Markers

    Homology

    General protein information

    Preferred Names
    collagen alpha-1(XVIII) chain
    Names
    alpha 1 type XVIII collagen
    collagen, type XVIII, alpha 1

    NCBI Reference Sequences (RefSeq)

    RefSeqs of Annotated Genomes: Pan troglodytes Annotation Release 105 details...Open this link in a new tab

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

    Reference Clint_PTRv2 Primary Assembly

    Genomic

    1. NC_036900.1 Reference Clint_PTRv2 Primary Assembly

      Range
      31911880..32027078
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_009441685.2XP_009439960.2  collagen alpha-1(XVIII) chain isoform X5

      Related
      ENSPTRP00000092192.1, ENSPTRT00000098662.1
    2. XM_009441667.3XP_009439942.2  collagen alpha-1(XVIII) chain isoform X1

      Related
      ENSPTRP00000053920.4
      Conserved Domains (5) summary
      cd07455
      Location:330452
      CRD_Collagen_XVIII; Cysteine-rich domain of the variant 3 of collagen XVIII (V3C18 )
      pfam01391
      Location:10571107
      Collagen; Collagen triple helix repeat (20 copies)
      smart00210
      Location:456644
      TSPN; Thrombospondin N-terminal -like domains
      cd00247
      Location:15781748
      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; ...
      pfam06121
      Location:23194
      DUF959; Domain of Unknown Function (DUF959)
    3. XM_009441679.3XP_009439954.2  collagen alpha-1(XVIII) chain isoform X4

    4. XM_009441669.3XP_009439944.2  collagen alpha-1(XVIII) chain isoform X2

    5. XM_009441675.3XP_009439950.2  collagen alpha-1(XVIII) chain isoform X3

      Conserved Domains (4) summary
      pfam01391
      Location:822872
      Collagen; Collagen triple helix repeat (20 copies)
      smart00210
      Location:221409
      TSPN; Thrombospondin N-terminal -like domains
      cd00247
      Location:13431513
      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; ...
      pfam06121
      Location:23194
      DUF959; Domain of Unknown Function (DUF959)
    6. XM_009441696.2XP_009439971.2  collagen alpha-1(XVIII) chain isoform X7

    7. XM_009441693.3XP_009439968.2  collagen alpha-1(XVIII) chain isoform X6

    8. XM_016938664.2XP_016794153.1  collagen alpha-1(XVIII) chain isoform X8

    9. XM_009441708.3XP_009439983.2  collagen alpha-1(XVIII) chain isoform X8

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