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    si:ch211-253b8.2 si:ch211-253b8.2 [ Danio rerio (zebrafish) ]

    Gene ID: 562114, updated on 9-Dec-2024

    Summary

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    Official Symbol
    si:ch211-253b8.2provided by ZNC
    Official Full Name
    si:ch211-253b8.2provided by ZNC
    Primary source
    ZFIN:ZDB-GENE-030131-4633
    See related
    Ensembl:ENSDARG00000089230 AllianceGenome:ZFIN:ZDB-GENE-030131-4633
    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
    fd44f01; wu:fd44f01
    Summary
    Predicted to enable DNA-binding transcription factor activity, RNA polymerase II-specific. Predicted to be involved in regulation of transcription by RNA polymerase II. Predicted to be active in nucleus. [provided by Alliance of Genome Resources, Dec 2024]
    Orthologs
    all
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    Genomic context

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    See si:ch211-253b8.2 in Genome Data Viewer
    Location:
    chromosome: 11
    Exon count:
    3
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCz11 (GCF_000002035.6) 11 NC_007122.7 (6980356..6985443, complement)
    105 previous assembly GRCz10 (GCF_000002035.5) 11 NC_007122.6 (6970517..6975604, complement)

    Chromosome 11 - NC_007122.7Genomic Context describing neighboring genes Neighboring gene CREB regulated transcription coactivator 1b Neighboring gene cartilage oligomeric matrix protein Neighboring gene zgc:173548 Neighboring gene cadherin 27

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • 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

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    Related articles in PubMed

    1. Structure, evolution and expression of zebrafish cartilage oligomeric matrix protein (COMP, TSP5). CRISPR-Cas mutants show a dominant phenotype in myosepta. Forte-Gomez HF, et al. Front Endocrinol (Lausanne), 2022. PMID 36452329, Free PMC Article
    2. RFX transcription factors are essential for hearing in mice. Elkon R, et al. Nat Commun, 2015 Oct 15. PMID 26469318, Free PMC Article
    3. 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 ZFIN

    Function Evidence Code Pubs
    enables DNA-binding transcription factor activity, RNA polymerase II-specific IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables metal ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    involved_in regulation of transcription by RNA polymerase II IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Component Evidence Code Pubs
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  

    General protein information

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    Preferred Names
    uncharacterized protein LOC562114

    NCBI Reference Sequences (RefSeq)

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    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_001201560.1 → NP_001188489.1  uncharacterized protein LOC562114

      Status: VALIDATED

      Source sequence(s)
      CR925817, EH548984, EH564269, EH570105
      UniProtKB/TrEMBL
      A0A8M1P3I7, E7F398
      Related
      ENSDARP00000107486.1, ENSDART00000129955.3
      Conserved Domains (3) summary
      COG5048
      Location:308 → 379
      COG5048; FOG: Zn-finger [General function prediction only]
      sd00017
      Location:299 → 319
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam13465
      Location:339 → 364
      zf-H2C2_2; Zinc-finger double domain

    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_007122.7 Reference GRCz11 Primary Assembly

      Range
      6980356..6985443 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein Strain
    Heading Accession and Version

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