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    Col4a6 collagen, type IV, alpha 6 [ Mus musculus (house mouse) ]

    Gene ID: 94216, updated on 23-Jun-2021

    Summary

    Official Symbol
    Col4a6provided by MGI
    Official Full Name
    collagen, type IV, alpha 6provided by MGI
    Primary source
    MGI:MGI:2152695
    See related
    Ensembl:ENSMUSG00000031273
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Mus musculus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
    Also known as
    BB116301
    Expression
    Broad expression in bladder adult (RPKM 12.0), ovary adult (RPKM 3.7) and 15 other tissues See more
    Orthologs
    NEW
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    Genomic context

    See Col4a6 in Genome Data Viewer
    Location:
    X; X F1- F2
    Exon count:
    46
    Annotation release Status Assembly Chr Location
    109 current GRCm39 (GCF_000001635.27) X NC_000086.8 (139948399..140257091, complement)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) X NC_000086.7 (141165403..141474095, complement)
    Build 37.2 previous assembly MGSCv37 (GCF_000001635.18) X NC_000086.6 (137599946..137908619, complement)

    Chromosome X - NC_000086.8Genomic Context describing neighboring genes Neighboring gene V-set and immunoglobulin domain containing 1 Neighboring gene proteasome (prosome, macropain) 26S subunit, non-ATPase, 10 Neighboring gene autophagy related 4A, cysteine peptidase Neighboring gene predicted gene, 39539 Neighboring gene prohibitin pseudogene Neighboring gene collagen, type IV, alpha 5 Neighboring gene predicted gene 15295 Neighboring gene insulin receptor substrate 4

    Genomic regions, transcripts, and products

    Expression

    • Project title: Mouse ENCODE transcriptome data
    • Description: RNA profiling data sets generated by the Mouse ENCODE project.
    • BioProject: PRJNA66167
    • Publication: PMID 25409824
    • Analysis date: n/a

    Bibliography

    Variation

    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)

    Pathways from PubChem

    General gene information

    Markers

    Homology

    Gene Ontology Provided by MGI

    Component Evidence Code Pubs
    located_in basement membrane IDA
    Inferred from Direct Assay
    more info
    PubMed 
    part_of collagen type IV trimer IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    part_of collagen type IV trimer IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in collagen-containing extracellular matrix HDA PubMed 
    is_active_in extracellular matrix IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    is_active_in extracellular space IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 

    General protein information

    Preferred Names
    collagen alpha-6(IV) chain
    Names
    procollagen, type IV, alpha 6

    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_053185.2NP_444415.2  collagen alpha-6(IV) chain precursor

      Status: VALIDATED

      Source sequence(s)
      AB041351, AL691493, CF538953, CF539876, CF747750, CN535678, CV555853
      Consensus CDS
      CCDS41153.1
      UniProtKB/TrEMBL
      B1AVK5, Q9ESQ1
      Related
      ENSMUSP00000098765.3, ENSMUST00000101205.3
      Conserved Domains (2) summary
      pfam01391
      Location:14011460
      Collagen; Collagen triple helix repeat (20 copies)
      pfam01413
      Location:15761688
      C4; C-terminal tandem repeated domain in type 4 procollagen

    RefSeqs of Annotated Genomes: Mus musculus Annotation Release 109 details...Open this link in a new tab

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

    Reference GRCm39 C57BL/6J

    Genomic

    1. NC_000086.8 Reference GRCm39 C57BL/6J

      Range
      139948399..140257091 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_011247883.4XP_011246185.1  collagen alpha-6(IV) chain isoform X1

      Conserved Domains (3) summary
      pfam01391
      Location:13771436
      Collagen; Collagen triple helix repeat (20 copies)
      pfam09606
      Location:10801439
      Med15; ARC105 or Med15 subunit of Mediator complex non-fungal
      pfam01413
      Location:15521664
      C4; C-terminal tandem repeated domain in type 4 procollagen

    RNA

    1. XR_003953035.1 RNA Sequence

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