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tcf3b transcription factor 3b [ Danio rerio (zebrafish) ]

Gene ID: 664768, updated on 2-Nov-2024

Summary

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Official Symbol
tcf3bprovided by ZNC
Official Full Name
transcription factor 3bprovided by ZNC
Primary source
ZFIN:ZDB-GENE-051113-64
See related
Ensembl:ENSDARG00000099999 AllianceGenome:ZFIN:ZDB-GENE-051113-64
Gene type
protein coding
RefSeq status
PROVISIONAL
Organism
Danio rerio
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
Also known as
tcf3a; zgc:113045
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 chromatin. Predicted to be part of transcription regulator complex. Is expressed in margin and telencephalon. Human ortholog(s) of this gene implicated in agammaglobulinemia 8A; agammaglobulinemia 8B; and colorectal cancer. Orthologous to human TCF3 (transcription factor 3). [provided by Alliance of Genome Resources, Nov 2024]
Orthologs
all
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Genomic context

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See tcf3b in Genome Data Viewer
Location:
chromosome: 22
Exon count:
21
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCz11 (GCF_000002035.6) 22 NC_007133.7 (20313306..20342167, complement)
105 previous assembly GRCz10 (GCF_000002035.5) 22 NC_007133.6 (20288328..20317216, complement)

Chromosome 22 - NC_007133.7Genomic Context describing neighboring genes Neighboring gene si:dkey-110c1.10 Neighboring gene methyl-CpG binding domain protein 3b Neighboring gene zinc finger and BTB domain containing 7a Neighboring gene mitogen-activated protein kinase kinase 2a

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 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. TCF12 haploinsufficiency causes autosomal dominant Kallmann syndrome and reveals network-level interactions between causal loci. Davis EE, et al. Hum Mol Genet, 2020 Aug 11. PMID 32620954, Free PMC Article
  2. Gene expression cartography. Nitzan M, et al. Nature, 2019 Dec. PMID 31748748
  3. Quantitative proteomics identify DAB2 as a cardiac developmental regulator that inhibits WNT/β-catenin signaling. Hofsteen P, et al. Proc Natl Acad Sci U S A, 2016 Jan 26. PMID 26755607, Free PMC Article
  4. Wolf-Hirschhorn Syndrome Candidate 1 (whsc1) Functions as a Tumor Suppressor by Governing Cell Differentiation. Yu C, et al. Neoplasia, 2017 Aug. PMID 28654864, Free PMC Article
  5. Proteolysis regulates cardiomyocyte maturation and tissue integration. Fukuda R, et al. Nat Commun, 2017 Feb 17. PMID 28211472, Free PMC Article

See all (12) citations in PubMed

GeneRIFs: Gene References Into Functions

Pathways from PubChem

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General gene information

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Markers

Homology

Clone Names

  • MGC113045

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 protein dimerization activity 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
located_in chromatin IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in nucleus IEA
Inferred from Electronic Annotation
more info
  
part_of transcription regulator complex IBA
Inferred from Biological aspect of Ancestor
more info
  

General protein information

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Preferred Names
transcription factor 3b
Names
transcription factor 3
transcription factor E2-alpha

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_001172683.1 → NP_001166154.1  transcription factor 3b

    See identical proteins and their annotated locations for NP_001166154.1

    Status: PROVISIONAL

    Source sequence(s)
    BC160651
    UniProtKB/TrEMBL
    A0A8M1NUM3, B1H1L4
    Related
    ENSDARP00000135697.1, ENSDART00000161610.2
    Conserved Domains (1) summary
    smart00353
    Location:552 → 605
    HLH; helix loop helix 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_007133.7 Reference GRCz11 Primary Assembly

    Range
    20313306..20342167 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_005170494.5 → XP_005170551.1  transcription factor 3b isoform X3

    UniProtKB/TrEMBL
    A0A8M2BHT8
    Conserved Domains (1) summary
    smart00353
    Location:534 → 587
    HLH; helix loop helix domain

  2. XM_009296298.4 → XP_009294573.1  transcription factor 3b isoform X1

    UniProtKB/TrEMBL
    A0A8M3AMB2
    Conserved Domains (1) summary
    smart00353
    Location:551 → 604
    HLH; helix loop helix domain

  3. XM_005170492.5 → XP_005170549.1  transcription factor 3b isoform X2

    UniProtKB/TrEMBL
    A0A0R4IMI6, A0A8M2BHU9
    Related
    ENSDARP00000135672.2, ENSDART00000165667.2
    Conserved Domains (1) summary
    smart00353
    Location:535 → 588
    HLH; helix loop helix domain

  4. XM_009296299.4 → XP_009294574.1  transcription factor 3b isoform X4

    UniProtKB/TrEMBL
    A0A8M3B5J8
    Conserved Domains (1) summary
    smart00353
    Location:527 → 580
    HLH; helix loop helix domain

Reference GRCz11 ALT_DRER_TU_1

Genomic

  1. NW_018395103.1 Reference GRCz11 ALT_DRER_TU_1

    Range
    376635..405496 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein Strain
Heading Accession and Version

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