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si:ch211-89o9.6 si:ch211-89o9.6 [ Danio rerio (zebrafish) ]

Gene ID: 559243, updated on 27-Mar-2024

Summary

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Official Symbol
si:ch211-89o9.6provided by ZNC
Official Full Name
si:ch211-89o9.6provided by ZNC
Primary source
ZFIN:ZDB-GENE-030131-7155
See related
Ensembl:ENSDARG00000075639 AllianceGenome:ZFIN:ZDB-GENE-030131-7155
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
fk90e02; wu:fk90e02
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 active in nucleus. [provided by Alliance of Genome Resources, Apr 2022]
Orthologs
all
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Genomic context

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Location:
chromosome: 1
Exon count:
8
Annotation release Status Assembly Chr Location
106 current GRCz11 (GCF_000002035.6) 1 NC_007112.7 (41487344..41492771)
105 previous assembly GRCz10 (GCF_000002035.5) 1 NC_007112.6 (40784557..40790702)

Chromosome 1 - NC_007112.7Genomic Context describing neighboring genes Neighboring gene poly(A) binding protein interacting protein 2B Neighboring gene docking protein 1a Neighboring gene transfer RNA lysine (anticodon CUU) Neighboring gene deltex 4, E3 ubiquitin ligase b

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. RFX transcription factors are essential for hearing in mice. Elkon R, et al. Nat Commun, 2015 Oct 15. PMID 26469318, Free PMC Article
  2. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article
  3. 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 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 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
si:ch211-89o9.6; zinc finger protein 354B

NCBI Reference Sequences (RefSeq)

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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_007112.7 Reference GRCz11 Primary Assembly

    Range
    41487344..41492771
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_682563.7 → XP_687655.4  zinc finger protein 354B

    UniProtKB/TrEMBL
    A0A8N7TCZ6, F1QV78
    Related
    ENSDARP00000097508.3, ENSDART00000114449.4
    Conserved Domains (4) summary
    COG5048
    Location:364 → 558
    COG5048; FOG: Zn-finger [General function prediction only]
    sd00017
    Location:501 → 521
    ZF_C2H2; C2H2 Zn finger [structural motif]
    pfam00096
    Location:499 → 521
    zf-C2H2; Zinc finger, C2H2 type
    pfam13465
    Location:541 → 565
    zf-H2C2_2; Zinc-finger double domain
Nucleotide Protein
Heading Accession and Version

Gene LinkOut

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