U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination
    • Showing Current items.

    si:ch211-216p19.6 si:ch211-216p19.6 [ Danio rerio (zebrafish) ]

    Gene ID: 100006636, updated on 27-Mar-2024

    Summary

    Go to the top of the page Help
    Official Symbol
    si:ch211-216p19.6provided by ZNC
    Official Full Name
    si:ch211-216p19.6provided by ZNC
    Primary source
    ZFIN:ZDB-GENE-160728-7
    See related
    Ensembl:ENSDARG00000027907 AllianceGenome:ZFIN:ZDB-GENE-160728-7
    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
    Summary
    Predicted to enable zinc ion binding activity. Orthologous to several human genes including TRIM48 (tripartite motif containing 48); TRIM49B (tripartite motif containing 49B); and TRIM60 (tripartite motif containing 60). [provided by Alliance of Genome Resources, Apr 2022]
    Orthologs
    all
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    Go to the top of the page Help
    Location:
    chromosome: 7
    Exon count:
    7
    Annotation release Status Assembly Chr Location
    106 current GRCz11 (GCF_000002035.6) 7 NC_007118.7 (24187514..24198194, complement)
    105 previous assembly GRCz10 (GCF_000002035.5) 7 NC_007118.6 (23916357..23927013, complement)

    Chromosome 7 - NC_007118.7Genomic Context describing neighboring genes Neighboring gene leishmanolysin-like peptidase Neighboring gene zgc:153151 Neighboring gene guanosine monophosphate reductase 2 Neighboring gene NEDD8 ubiquitin like modifier Neighboring gene solute carrier family 7 member 8a

    Genomic regions, transcripts, and products

    Go to the top of the page Help

    Go to nucleotide: Graphics FASTA GenBank

    Expression

    Go to the top of the page Help
    • 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

    Bibliography

    Go to the top of the pageHelp

    Related articles in PubMed

    1. Gene evolution and gene expression after whole genome duplication in fish: the PhyloFish database. Pasquier J, et al. BMC Genomics, 2016 May 18. PMID 27189481, Free PMC Article

    GeneRIFs: Gene References Into Functions

    General gene information

    Go to the top of the page Help

    Homology

    Gene Ontology Provided by ZFIN

    Function Evidence Code Pubs
    enables metal ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables zinc ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    located_in cytoplasm IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

    Go to the top of the page Help
    Preferred Names
    E3 ubiquitin-protein ligase TRIM39
    XP_005172385.1

    NCBI Reference Sequences (RefSeq)

    Go to the top of the page Help

    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_001386813.1 → NP_001373742.1  E3 ubiquitin-protein ligase TRIM39

      Status: VALIDATED

      Source sequence(s)
      CR318603
      UniProtKB/TrEMBL
      A0A0G2KRG9, A0A8M2BJQ3
      Conserved Domains (6) summary
      COG0419
      Location:179 → 297
      SbcC; DNA repair exonuclease SbcCD ATPase subunit [Replication, recombination and repair]
      cd13733
      Location:356 → 530
      SPRY_PRY_C-I_1; PRY/SPRY domain in tripartite motif-containing (TRIM) proteins, including TRIM5, TRIM6, TRIM7, TRIM10, TRIM11, TRIM17, TRIM20, TRIM21, TRIM27, TRIM35, TRIM38, TRIM41, TRIM50, TRIM58, TRIM60, TRIM62, TRIM69, TRIM72, NF7 and bloodthirsty
      cd00162
      Location:15 → 54
      RING_Ubox; RING-HC finger (C3HC4-type) [structural motif]
      cd19769
      Location:143 → 187
      Bbox2_TRIM16-like; B-box-type 2 zinc finger found in tripartite motif-containing proteins, TRIM16, TRIM29, TRIM47 and similar proteins
      cl00034
      Location:91 → 139
      Bbox_SF; B-box-type zinc finger superfamily
      cl17238
      Location:13 → 56
      RING_Ubox; The superfamily of RING finger (Really Interesting New Gene) domain and U-box domain

    RefSeqs of Annotated Genomes: Danio rerio 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 GRCz11 Primary Assembly

    Genomic

    1. NC_007118.7 Reference GRCz11 Primary Assembly

      Range
      24187514..24198194 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_005172328.3 → XP_005172385.1  E3 ubiquitin-protein ligase TRIM39

      UniProtKB/TrEMBL
      A0A0G2KRG9
      Related
      ENSDARP00000134995.2, ENSDART00000171085.3
      Conserved Domains (6) summary
      COG0419
      Location:179 → 297
      SbcC; DNA repair exonuclease SbcCD ATPase subunit [Replication, recombination and repair]
      cd13733
      Location:356 → 530
      SPRY_PRY_C-I_1; PRY/SPRY domain in tripartite motif-containing (TRIM) proteins, including TRIM5, TRIM6, TRIM7, TRIM10, TRIM11, TRIM17, TRIM20, TRIM21, TRIM27, TRIM35, TRIM38, TRIM41, TRIM50, TRIM58, TRIM60, TRIM62, TRIM69, TRIM72, NF7 and bloodthirsty
      cd00162
      Location:15 → 54
      RING_Ubox; RING-HC finger (C3HC4-type) [structural motif]
      cd19769
      Location:143 → 187
      Bbox2_TRIM16-like; B-box-type 2 zinc finger found in tripartite motif-containing proteins, TRIM16, TRIM29, TRIM47 and similar proteins
      cl00034
      Location:91 → 139
      Bbox_SF; B-box-type zinc finger superfamily
      cl17238
      Location:13 → 56
      RING_Ubox; The superfamily of RING finger (Really Interesting New Gene) domain and U-box domain
    Nucleotide Protein
    Heading Accession and Version

    Gene LinkOut

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

    Molecular Biology Databases