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    Col22a1 collagen type XXII alpha 1 chain [ Rattus norvegicus (Norway rat) ]

    Gene ID: 315071, updated on 14-Nov-2024

    Summary

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    Official Symbol
    Col22a1provided by RGD
    Official Full Name
    collagen type XXII alpha 1 chainprovided by RGD
    Primary source
    RGD:1309081
    See related
    EnsemblRapid:ENSRNOG00000024824 AllianceGenome:RGD:1309081
    Gene type
    protein coding
    RefSeq status
    MODEL
    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 conferring tensile strength. Predicted to be involved in extracellular matrix organization. Predicted to be part of collagen trimer. Predicted to be active in collagen-containing extracellular matrix and extracellular space. Human ortholog(s) of this gene implicated in intracranial aneurysm. Orthologous to human COL22A1 (collagen type XXII alpha 1 chain). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Biased expression in Muscle (RPKM 51.9), Testes (RPKM 43.8) and 7 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Col22a1 in Genome Data Viewer
    Location:
    7q34
    Exon count:
    72
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 7 NC_086025.1 (105619776..105857246, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 7 NC_051342.1 (103730939..103968452, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 7 NC_005106.4 (113014896..113251165, complement)

    Chromosome 7 - NC_086025.1Genomic Context describing neighboring genes Neighboring gene family with sequence similarity 135, member B Neighboring gene uncharacterized LOC134479747 Neighboring gene high mobility group nucleosomal binding domain 4, pseudogene 2 Neighboring gene uncharacterized LOC108351508 Neighboring gene uncharacterized LOC134479606 Neighboring gene uncharacterized LOC134479748 Neighboring gene small nucleolar RNA U3

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • 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

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    Related articles in PubMed

    1. Collagen COL22A1 maintains vascular stability and mutations in COL22A1 are potentially associated with intracranial aneurysms. Ton QV, et al. Dis Model Mech, 2018 Dec 12. PMID 30541770, Free PMC Article
    2. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article

    GeneRIFs: Gene References Into Functions

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables extracellular matrix structural constituent conferring tensile strength IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Process Evidence Code Pubs
    involved_in extracellular matrix organization IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Component Evidence Code Pubs
    is_active_in basement membrane IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    part_of collagen trimer IEA
    Inferred from Electronic Annotation
    more info
    		  
    is_active_in extracellular space IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  

    General protein information

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

    NCBI Reference Sequences (RefSeq)

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    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_086025.1 Reference GRCr8

      Range
      105619776..105857246 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_063264443.1 → XP_063120513.1  collagen alpha-1(XXII) chain isoform X2

    2. XM_039080218.2 → XP_038936146.1  collagen alpha-1(XXII) chain isoform X1

      UniProtKB/TrEMBL
      F1M897
      Related
      ENSRNOP00000029936.7, ENSRNOT00000034672.8
      Conserved Domains (3) summary
      pfam01391
      Location:763 → 817
      Collagen; Collagen triple helix repeat (20 copies)
      cl00057
      Location:47 → 228
      vWFA; Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of ...
      cl22861
      Location:248 → 435
      LamG; Laminin G domain; Laminin G-like domains are usually Ca++ mediated receptors that can have binding sites for steroids, beta1 integrins, heparin, sulfatides, fibulin-1, and alpha-dystroglycans. Proteins that contain LamG domains serve a variety of ...

    3. XM_039080220.2 → XP_038936148.1  collagen alpha-1(XXII) chain isoform X8

      Conserved Domains (1) summary
      pfam01391
      Location:208 → 262
      Collagen; Collagen triple helix repeat (20 copies)

    4. XM_063264444.1 → XP_063120514.1  collagen alpha-1(XXII) chain isoform X3

    5. XM_063264445.1 → XP_063120515.1  collagen alpha-1(XXII) chain isoform X4

    6. XM_063264447.1 → XP_063120517.1  collagen alpha-1(XXII) chain isoform X5

    7. XM_039080219.2 → XP_038936147.1  collagen alpha-1(XXII) chain isoform X6

      Conserved Domains (3) summary
      pfam01391
      Location:763 → 817
      Collagen; Collagen triple helix repeat (20 copies)
      cl00057
      Location:47 → 228
      vWFA; Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of ...
      cl22861
      Location:248 → 435
      LamG; Laminin G domain; Laminin G-like domains are usually Ca++ mediated receptors that can have binding sites for steroids, beta1 integrins, heparin, sulfatides, fibulin-1, and alpha-dystroglycans. Proteins that contain LamG domains serve a variety of ...

    8. XM_063264448.1 → XP_063120518.1  collagen alpha-1(XXII) chain isoform X7

    RNA

    1. XR_010053430.1 RNA Sequence

    Nucleotide Protein Strain
    Heading Accession and Version

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