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

Gene ID: 550461, updated on 4-Jan-2025

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, Jan 2025]
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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