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    si:dkey-89b17.4 si:dkey-89b17.4 [ Danio rerio (zebrafish) ]

    Gene ID: 336271, updated on 9-Dec-2024

    Summary

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    Official Symbol
    si:dkey-89b17.4provided by ZNC
    Official Full Name
    si:dkey-89b17.4provided by ZNC
    Primary source
    ZFIN:ZDB-GENE-030131-8215
    See related
    Ensembl:ENSDARG00000075545 AllianceGenome:ZFIN:ZDB-GENE-030131-8215
    Gene type
    protein coding
    RefSeq status
    MODEL
    Organism
    Danio rerio
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
    Also known as
    fj14g06; fj60g01; fk87f09; wu:fj14g06; wu:fj60g01; wu:fk87f09
    Summary
    Predicted to enable DNA-binding transcription activator activity, RNA polymerase II-specific and RNA polymerase II cis-regulatory region sequence-specific DNA binding activity. Predicted to be involved in regulation of transcription by RNA polymerase II. Predicted to be active in nucleus. Orthologous to human ZNF646 (zinc finger protein 646). [provided by Alliance of Genome Resources, Dec 2024]
    Orthologs
    all
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    Genomic context

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    See si:dkey-89b17.4 in Genome Data Viewer
    Location:
    chromosome: 19
    Exon count:
    6
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCz11 (GCF_000002035.6) 19 NC_007130.7 (5135140..5150875)
    105 previous assembly GRCz10 (GCF_000002035.5) 19 NC_007130.6 (5218556..5234386)

    Chromosome 19 - NC_007130.7Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC137488464 Neighboring gene triosephosphate isomerase 1a Neighboring gene guanine nucleotide binding protein (G protein), beta polypeptide 3b Neighboring gene syntaxin 1B Neighboring gene perforin 1.3

    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. Convergent extension movements and ciliary function are mediated by ofd1, a zebrafish orthologue of the human oral-facial-digital type 1 syndrome gene. Ferrante MI, et al. Hum Mol Genet, 2009 Jan 15. PMID 18971206, 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
    4. 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

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    Markers

    Homology

    Gene Ontology Provided by ZFIN

    Function Evidence Code Pubs
    enables DNA-binding transcription activator activity, RNA polymerase II-specific IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables RNA polymerase II cis-regulatory region sequence-specific DNA binding 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 LOC336271; zinc finger protein 646

    NCBI Reference Sequences (RefSeq)

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    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_007130.7 Reference GRCz11 Primary Assembly

      Range
      5135140..5150875
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_009293994.4 → XP_009292269.1  zinc finger protein 646 isoform X1

      See identical proteins and their annotated locations for XP_009292269.1

      UniProtKB/TrEMBL
      A0A8M3AKR9, H0WFD2
      Related
      ENSDARP00000125564.2, ENSDART00000138011.4
      Conserved Domains (3) summary
      sd00017
      Location:1431 → 1451
      ZF_C2H2; C2H2 Zn finger [structural motif]
      sd00019
      Location:1180 → 1197
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam13465
      Location:1443 → 1466
      zf-H2C2_2; Zinc-finger double domain

    2. XM_068215230.1 → XP_068071331.1  zinc finger protein 646 isoform X2

      UniProtKB/TrEMBL
      A0A8M9PNX6, A0A8M9PS76, H0WE41, I3IRY9
      Related
      ENSDARP00000125650.1, ENSDART00000151324.3

    3. XM_009293995.4 → XP_009292270.1  zinc finger protein 646 isoform X1

      See identical proteins and their annotated locations for XP_009292270.1

      UniProtKB/TrEMBL
      A0A8M3AKR9, H0WFD2
      Conserved Domains (3) summary
      sd00017
      Location:1431 → 1451
      ZF_C2H2; C2H2 Zn finger [structural motif]
      sd00019
      Location:1180 → 1197
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam13465
      Location:1443 → 1466
      zf-H2C2_2; Zinc-finger double domain
    Nucleotide Protein
    Heading Accession and Version

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