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Gata6 GATA binding protein 6 [ Rattus norvegicus (Norway rat) ]

Gene ID: 29300, updated on 12-Aug-2018

Summary

Official Symbol
Gata6provided by RGD
Official Full Name
GATA binding protein 6provided by RGD
Primary source
RGD:2666
See related
Ensembl:ENSRNOG00000023433
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Rattus norvegicus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Summary
zinc-finger transcription factor that binds DNA at GATA regions; involved in gene regulation in the stomach [RGD, Feb 2006]
Annotation information
Annotation category: suggests misassembly
Expression
Biased expression in Heart (RPKM 211.1), Adrenal (RPKM 136.4) and 6 other tissues See more
Orthologs

Genomic context

See Gata6 in Genome Data Viewer
Location:
18p13
Exon count:
7
Annotation release Status Assembly Chr Location
106 current Rnor_6.0 (GCF_000001895.5) 18 NC_005117.4 (2415821..2447087)
104 previous assembly Rnor_5.0 (GCF_000001895.4) 18 NC_005117.3 (2436500..2465966)

Chromosome 18 - NC_005117.4Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC100909782 Neighboring gene transcription factor GATA-6-like Neighboring gene uncharacterized LOC100909810 Neighboring gene 40S ribosomal protein S10 pseudogene Neighboring gene uncharacterized LOC103694164

Genomic regions, transcripts, and products

Expression

  • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
  • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
  • BioProject: PRJNA238328
  • Publication: PMID 24510058
  • Analysis date: Mon Jun 6 17:44:12 2016

Bibliography

GeneRIFs: Gene References Into FunctionsWhat's a GeneRIF?

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Gene Ontology Provided by RGD

Function Evidence Code Pubs
DNA binding ISO
Inferred from Sequence Orthology
more info
 
DNA-binding transcription factor activity IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
DNA-binding transcription factor activity IEA
Inferred from Electronic Annotation
more info
 
DNA-binding transcription factor activity ISO
Inferred from Sequence Orthology
more info
 
DNA-binding transcription factor activity, RNA polymerase II-specific ISO
Inferred from Sequence Orthology
more info
 
RNA polymerase II proximal promoter sequence-specific DNA binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
RNA polymerase II proximal promoter sequence-specific DNA binding IEA
Inferred from Electronic Annotation
more info
 
RNA polymerase II proximal promoter sequence-specific DNA binding ISO
Inferred from Sequence Orthology
more info
 
RNA polymerase II repressing transcription factor binding IEA
Inferred from Electronic Annotation
more info
 
RNA polymerase II repressing transcription factor binding ISO
Inferred from Sequence Orthology
more info
 
chromatin binding IEA
Inferred from Electronic Annotation
more info
 
chromatin binding ISO
Inferred from Sequence Orthology
more info
 
double-stranded DNA binding IDA
Inferred from Direct Assay
more info
PubMed 
enhancer sequence-specific DNA binding IDA
Inferred from Direct Assay
more info
PubMed 
protein kinase binding IEA
Inferred from Electronic Annotation
more info
 
protein kinase binding ISO
Inferred from Sequence Orthology
more info
 
proximal promoter DNA-binding transcription activator activity, RNA polymerase II-specific IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
sequence-specific DNA binding IDA
Inferred from Direct Assay
more info
PubMed 
sequence-specific DNA binding IEA
Inferred from Electronic Annotation
more info
 
sequence-specific DNA binding ISO
Inferred from Sequence Orthology
more info
 
transcription factor activity, RNA polymerase II distal enhancer sequence-specific binding IEA
Inferred from Electronic Annotation
more info
 
transcription factor activity, RNA polymerase II distal enhancer sequence-specific binding ISO
Inferred from Sequence Orthology
more info
 
transcription factor binding IPI
Inferred from Physical Interaction
more info
PubMed 
transcription factor binding ISO
Inferred from Sequence Orthology
more info
 
transcription regulatory region DNA binding IDA
Inferred from Direct Assay
more info
PubMed 
transcription regulatory region DNA binding ISO
Inferred from Sequence Orthology
more info
 
zinc ion binding IEA
Inferred from Electronic Annotation
more info
 
Process Evidence Code Pubs
Clara cell differentiation IEA
Inferred from Electronic Annotation
more info
 
Clara cell differentiation ISO
Inferred from Sequence Orthology
more info
 
anatomical structure formation involved in morphogenesis IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
animal organ formation IEA
Inferred from Electronic Annotation
more info
 
animal organ formation ISO
Inferred from Sequence Orthology
more info
 
animal organ morphogenesis IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
cardiac muscle cell differentiation IEA
Inferred from Electronic Annotation
more info
 
cardiac muscle cell differentiation ISO
Inferred from Sequence Orthology
more info
 
cardiac muscle hypertrophy in response to stress IEA
Inferred from Electronic Annotation
more info
 
cardiac muscle hypertrophy in response to stress ISO
Inferred from Sequence Orthology
more info
 
cardiac muscle tissue development ISO
Inferred from Sequence Orthology
more info
 
cardiac vascular smooth muscle cell differentiation IEA
Inferred from Electronic Annotation
more info
 
cardiac vascular smooth muscle cell differentiation ISO
Inferred from Sequence Orthology
more info
 
cell development IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
cellular response to BMP stimulus IEA
Inferred from Electronic Annotation
more info
 
cellular response to BMP stimulus ISO
Inferred from Sequence Orthology
more info
 
cellular response to gonadotropin stimulus IEA
Inferred from Electronic Annotation
more info
 
cellular response to gonadotropin stimulus ISO
Inferred from Sequence Orthology
more info
 
cellular response to hypoxia IEA
Inferred from Electronic Annotation
more info
 
cellular response to hypoxia ISO
Inferred from Sequence Orthology
more info
 
endodermal cell differentiation ISO
Inferred from Sequence Orthology
more info
 
endodermal cell fate determination IEA
Inferred from Electronic Annotation
more info
 
endodermal cell fate determination ISO
Inferred from Sequence Orthology
more info
 
epithelial cell differentiation ISO
Inferred from Sequence Orthology
more info
 
heart development IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
in utero embryonic development IEA
Inferred from Electronic Annotation
more info
 
in utero embryonic development ISO
Inferred from Sequence Orthology
more info
 
intestinal epithelial cell differentiation IEA
Inferred from Electronic Annotation
more info
 
intestinal epithelial cell differentiation ISO
Inferred from Sequence Orthology
more info
 
liver development IEA
Inferred from Electronic Annotation
more info
 
liver development ISO
Inferred from Sequence Orthology
more info
 
lung saccule development IEA
Inferred from Electronic Annotation
more info
 
lung saccule development ISO
Inferred from Sequence Orthology
more info
 
male gonad development IEA
Inferred from Electronic Annotation
more info
 
male gonad development ISO
Inferred from Sequence Orthology
more info
 
negative regulation of apoptotic process IEA
Inferred from Electronic Annotation
more info
 
negative regulation of apoptotic process ISO
Inferred from Sequence Orthology
more info
 
negative regulation of pri-miRNA transcription by RNA polymerase II IMP
Inferred from Mutant Phenotype
more info
PubMed 
negative regulation of transcription by RNA polymerase II IEA
Inferred from Electronic Annotation
more info
 
negative regulation of transcription by RNA polymerase II ISO
Inferred from Sequence Orthology
more info
 
negative regulation of transcription, DNA-templated ISO
Inferred from Sequence Orthology
more info
 
negative regulation of transforming growth factor beta1 production IEA
Inferred from Electronic Annotation
more info
 
negative regulation of transforming growth factor beta1 production ISO
Inferred from Sequence Orthology
more info
 
negative regulation of transforming growth factor beta2 production IEA
Inferred from Electronic Annotation
more info
 
negative regulation of transforming growth factor beta2 production ISO
Inferred from Sequence Orthology
more info
 
odontogenesis of dentin-containing tooth IEP
Inferred from Expression Pattern
more info
PubMed 
outflow tract septum morphogenesis IEA
Inferred from Electronic Annotation
more info
 
outflow tract septum morphogenesis ISO
Inferred from Sequence Orthology
more info
 
pancreas development ISO
Inferred from Sequence Orthology
more info
 
pancreatic A cell differentiation IEA
Inferred from Electronic Annotation
more info
 
pancreatic A cell differentiation ISO
Inferred from Sequence Orthology
more info
 
phospholipid metabolic process IEA
Inferred from Electronic Annotation
more info
 
phospholipid metabolic process ISO
Inferred from Sequence Orthology
more info
 
positive regulation of BMP signaling pathway IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
positive regulation of BMP signaling pathway IDA
Inferred from Direct Assay
more info
PubMed 
positive regulation of angiogenesis IEA
Inferred from Electronic Annotation
more info
 
positive regulation of angiogenesis ISO
Inferred from Sequence Orthology
more info
 
positive regulation of apoptotic process IMP
Inferred from Mutant Phenotype
more info
 
positive regulation of cardiac muscle cell apoptotic process IMP
Inferred from Mutant Phenotype
more info
PubMed 
positive regulation of cardiac muscle cell proliferation IEA
Inferred from Electronic Annotation
more info
 
positive regulation of cardiac muscle cell proliferation ISO
Inferred from Sequence Orthology
more info
 
positive regulation of cardiac muscle myoblast proliferation IEA
Inferred from Electronic Annotation
more info
 
positive regulation of cardiac muscle myoblast proliferation ISO
Inferred from Sequence Orthology
more info
 
positive regulation of cardioblast differentiation IEA
Inferred from Electronic Annotation
more info
 
positive regulation of cardioblast differentiation ISO
Inferred from Sequence Orthology
more info
 
positive regulation of cell cycle arrest IEA
Inferred from Electronic Annotation
more info
 
positive regulation of cell cycle arrest ISO
Inferred from Sequence Orthology
more info
 
positive regulation of transcription by RNA polymerase II IEA
Inferred from Electronic Annotation
more info
 
positive regulation of transcription by RNA polymerase II IMP
Inferred from Mutant Phenotype
more info
PubMed 
positive regulation of transcription by RNA polymerase II ISO
Inferred from Sequence Orthology
more info
 
positive regulation of transcription, DNA-templated IEA
Inferred from Electronic Annotation
more info
 
positive regulation of transcription, DNA-templated ISO
Inferred from Sequence Orthology
more info
 
positive regulation of transcription, DNA-templated ISS
Inferred from Sequence or Structural Similarity
more info
 
regulation of gene expression ISO
Inferred from Sequence Orthology
more info
 
response to cAMP IEP
Inferred from Expression Pattern
more info
PubMed 
response to drug IEA
Inferred from Electronic Annotation
more info
 
response to drug IEP
Inferred from Expression Pattern
more info
PubMed 
response to drug ISO
Inferred from Sequence Orthology
more info
 
response to estrogen IEA
Inferred from Electronic Annotation
more info
 
response to estrogen ISO
Inferred from Sequence Orthology
more info
 
response to growth factor ISO
Inferred from Sequence Orthology
more info
 
response to toxic substance IEP
Inferred from Expression Pattern
more info
PubMed 
smooth muscle cell differentiation ISO
Inferred from Sequence Orthology
more info
 
tissue development IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
transcription by RNA polymerase II IEA
Inferred from Electronic Annotation
more info
 
transcription by RNA polymerase II ISO
Inferred from Sequence Orthology
more info
 
tube morphogenesis IEA
Inferred from Electronic Annotation
more info
 
tube morphogenesis ISO
Inferred from Sequence Orthology
more info
 
type B pancreatic cell differentiation IEA
Inferred from Electronic Annotation
more info
 
type B pancreatic cell differentiation ISO
Inferred from Sequence Orthology
more info
 
type II pneumocyte differentiation IEA
Inferred from Electronic Annotation
more info
 
type II pneumocyte differentiation ISO
Inferred from Sequence Orthology
more info
 
Component Evidence Code Pubs
nuclear membrane IEA
Inferred from Electronic Annotation
more info
 
nuclear membrane ISO
Inferred from Sequence Orthology
more info
 
nucleus IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
nucleus IDA
Inferred from Direct Assay
more info
PubMed 
nucleus IEA
Inferred from Electronic Annotation
more info
 
nucleus ISO
Inferred from Sequence Orthology
more info
 
transcription factor complex IEA
Inferred from Electronic Annotation
more info
 
transcription factor complex ISO
Inferred from Sequence Orthology
more info
 

General protein information

Preferred Names
transcription factor GATA-6
Names
DNA-binding protein GATA-GT2
GATA-binding factor 6

NCBI Reference Sequences (RefSeq)

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_019185.2NP_062058.2  transcription factor GATA-6

    See identical proteins and their annotated locations for NP_062058.2

    Status: VALIDATED

    Source sequence(s)
    AABR07031164, AI712574, L22760
    UniProtKB/Swiss-Prot
    P46153
    Related
    ENSRNOP00000036967.5, ENSRNOT00000030726.6
    Conserved Domains (3) summary
    smart00401
    Location:435482
    ZnF_GATA; zinc finger binding to DNA consensus sequence [AT]GATA[AG]
    cd00202
    Location:437488
    ZnF_GATA; Zinc finger DNA binding domain; binds specifically to DNA consensus sequence [AT]GATA[AG] promoter elements; a subset of family members may also bind protein; zinc-finger consensus topology is C-X(2)-C-X(17)-C-X(2)-C
    pfam05349
    Location:147371
    GATA-N; GATA-type transcription activator, N-terminal

RefSeqs of Annotated Genomes: Rattus norvegicus 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 Rnor_6.0 Primary Assembly

Genomic

  1. NC_005117.4 Reference Rnor_6.0 Primary Assembly

    Range
    2415821..2447087
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate Rn_Celera

Genomic

  1. AC_000086.1 Alternate Rn_Celera

    Range
    2065111..2096513
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
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