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    zgc:112083 zgc:112083 [ Danio rerio (zebrafish) ]

    Gene ID: 550461, updated on 9-Dec-2024

    Summary

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    Official Symbol
    zgc:112083provided by ZNC
    Official Full Name
    zgc:112083provided by ZNC
    Primary source
    ZFIN:ZDB-GENE-050417-284
    See related
    Ensembl:ENSDARG00000037405 AllianceGenome:ZFIN:ZDB-GENE-050417-284
    Gene type
    protein coding
    RefSeq status
    PREDICTED
    Organism
    Danio rerio
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
    Also known as
    im:7144560; wu:fb73f06
    Summary
    Predicted to enable DNA-binding transcription factor 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 located in nucleus. [provided by Alliance of Genome Resources, Dec 2024]
    Orthologs
    all
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    Genomic context

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    See zgc:112083 in Genome Data Viewer
    Location:
    chromosome: 15
    Exon count:
    10
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCz11 (GCF_000002035.6) 15 NC_007126.7 (19990088..20003872)
    105 previous assembly GRCz10 (GCF_000002035.5) 15 NC_007126.6 (20054341..20068140)

    Chromosome 15 - NC_007126.7Genomic Context describing neighboring genes Neighboring gene transfer RNA glutamic acid (anticodon CUC) Neighboring gene transfer RNA tyrosine (anticodon GUA) Neighboring gene activator of transcription and developmental regulator AUTS2 b Neighboring gene mediator complex subunit 13b

    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. Transcriptional Complexity and Distinct Expression Patterns of auts2 Paralogs in Danio rerio. Kondrychyn I, et al. G3 (Bethesda), 2017 Aug 7. PMID 28626003, 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. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, et al. Proc Natl Acad Sci U S A, 2002 Dec 24. PMID 12477932, Free PMC Article
    4. 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 IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables DNA-binding transcription factor 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 negative regulation of DNA-templated transcription IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in regulation of transcription by RNA polymerase II IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Component Evidence Code Pubs
    located_in nucleus IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    uncharacterized protein LOC550461
    Names
    MBD2 (methyl-CpG-binding protein)-interacting zinc finger protein

    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_001017764.1 → NP_001017764.1  uncharacterized protein LOC550461

      See identical proteins and their annotated locations for NP_001017764.1

      Status: PREDICTED

      Source sequence(s)
      BC093191
      UniProtKB/TrEMBL
      A0A2R8Q5E1, F6NGS7, Q567F5
      Related
      ENSDARP00000054427.3, ENSDART00000054428.5
      Conserved Domains (3) summary
      COG5236
      Location:234 → 356
      COG5236; Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
      sd00017
      Location:219 → 239
      ZF_C2H2; C2H2 Zn finger [structural motif]
      sd00019
      Location:302 → 320
      ZF_C2H2; C2H2 Zn finger [structural motif]

    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_007126.7 Reference GRCz11 Primary Assembly

      Range
      19990088..20003872
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_021481408.2 → XP_021337083.1  uncharacterized protein LOC550461 isoform X1

      UniProtKB/TrEMBL
      A0A2R8Q5E1, F6NGS7, Q567F5
      Conserved Domains (3) summary
      COG5236
      Location:234 → 356
      COG5236; Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
      sd00017
      Location:219 → 239
      ZF_C2H2; C2H2 Zn finger [structural motif]
      sd00019
      Location:302 → 320
      ZF_C2H2; C2H2 Zn finger [structural motif]
    Nucleotide Protein Strain
    Heading Accession and Version

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