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    trim13 tripartite motif containing 13 [ Danio rerio (zebrafish) ]

    Gene ID: 553630, updated on 9-Dec-2024

    Summary

    Official Symbol
    trim13provided by ZNC
    Official Full Name
    tripartite motif containing 13provided by ZNC
    Primary source
    ZFIN:ZDB-GENE-050522-516
    See related
    AllianceGenome:ZFIN:ZDB-GENE-050522-516
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Danio rerio
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
    Also known as
    zgc:110578
    Summary
    Predicted to enable ubiquitin protein ligase activity. Predicted to be involved in innate immune response; positive regulation of type I interferon-mediated signaling pathway; and protein monoubiquitination. Predicted to be located in endoplasmic reticulum membrane. Is expressed in brain; male organism; muscle; ovary; and testis. Orthologous to human TRIM13 (tripartite motif containing 13). [provided by Alliance of Genome Resources, Dec 2024]
    Orthologs
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    Genomic context

    See trim13 in Genome Data Viewer
    Location:
    chromosome: 9
    Exon count:
    3
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCz11 (GCF_000002035.6) 9 NC_007120.7 (29643039..29649834)
    105 previous assembly GRCz10 (GCF_000002035.5) 9 NC_007120.6 (29832290..29839088)

    Chromosome 9 - NC_007120.7Genomic Context describing neighboring genes Neighboring gene mcf.2 cell line derived transforming sequence-like b Neighboring gene PHD finger protein 11 Neighboring gene SPRY domain containing 7b Neighboring gene microRNA 15a-2 Neighboring gene microRNA 16c

    Genomic regions, transcripts, and products

    Expression

    • Project title: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
    • Description: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
    • BioProject: PRJEB1986
    • Analysis date: Fri Dec 8 19:48:10 2017

    General gene information

    Markers

    Clone Names

    • MGC110578

    Gene Ontology Provided by ZFIN

    Function Evidence Code Pubs
    enables ligase activity IEA
    Inferred from Electronic Annotation
    more info
     
    enables metal ion binding IEA
    Inferred from Electronic Annotation
    more info
     
    enables ubiquitin protein ligase activity IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    enables zinc ion binding IEA
    Inferred from Electronic Annotation
    more info
     
    Component Evidence Code Pubs
    located_in endoplasmic reticulum IEA
    Inferred from Electronic Annotation
    more info
     
    located_in endoplasmic reticulum membrane IEA
    Inferred from Electronic Annotation
    more info
     
    located_in membrane IEA
    Inferred from Electronic Annotation
    more info
     

    General protein information

    Preferred Names
    tripartite motif-containing 13

    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_001020603.2NP_001018439.1  tripartite motif-containing 13

      Status: VALIDATED

      Source sequence(s)
      CU855930
      UniProtKB/Swiss-Prot
      F1R8C7, Q503I2
      UniProtKB/TrEMBL
      A0A8M2BF46, H9KUW1
      Conserved Domains (3) summary
      cd00162
      Location:959
      RING; RING-finger (Really Interesting New Gene) domain, a specialized type of Zn-finger of 40 to 60 residues that binds two atoms of zinc; defined by the 'cross-brace' motif C-X2-C-X(9-39)-C-X(1-3)- H-X(2-3)-(N/C/H)-X2-C-X(4-48)C-X2-C; probably involved in ...
      pfam00643
      Location:87129
      zf-B_box; B-box zinc finger
      cl12013
      Location:154242
      BAR; The Bin/Amphiphysin/Rvs (BAR) domain, a dimerization module that binds membranes and detects membrane curvature

    RefSeqs of Annotated Genomes: GCF_000002035.6-RS_2024_08

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

    Reference GRCz11 Primary Assembly

    Genomic

    1. NC_007120.7 Reference GRCz11 Primary Assembly

      Range
      29643039..29649834
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_009304742.4XP_009303017.1  tripartite motif-containing 13 isoform X1

      UniProtKB/Swiss-Prot
      F1R8C7, Q503I2
      UniProtKB/TrEMBL
      A0A8M2BF46, H9KUW1
      Conserved Domains (3) summary
      cd00162
      Location:959
      RING; RING-finger (Really Interesting New Gene) domain, a specialized type of Zn-finger of 40 to 60 residues that binds two atoms of zinc; defined by the 'cross-brace' motif C-X2-C-X(9-39)-C-X(1-3)- H-X(2-3)-(N/C/H)-X2-C-X(4-48)C-X2-C; probably involved in ...
      pfam00643
      Location:87129
      zf-B_box; B-box zinc finger
      cl12013
      Location:154242
      BAR; The Bin/Amphiphysin/Rvs (BAR) domain, a dimerization module that binds membranes and detects membrane curvature

    Reference GRCz11 ALT_DRER_TU_1

    Genomic

    1. NW_018394759.1 Reference GRCz11 ALT_DRER_TU_1

      Range
      248852..255154
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Reference GRCz11 ALT_DRER_TU_2

    Genomic

    1. NW_018395285.1 Reference GRCz11 ALT_DRER_TU_2

      Range
      7091..13883
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)