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Gatad1 GATA zinc finger domain containing 1 [ Rattus norvegicus (Norway rat) ]

Gene ID: 500005, updated on 2-Nov-2024

Summary

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Official Symbol
Gatad1provided by RGD
Official Full Name
GATA zinc finger domain containing 1provided by RGD
Primary source
RGD:1562004
See related
EnsemblRapid:ENSRNOG00000008613 AllianceGenome:RGD:1562004
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
Predicted to enable sequence-specific DNA binding activity and zinc ion binding activity. Predicted to be involved in chromatin remodeling. Predicted to be located in nucleoplasm. Predicted to be active in nucleus. Human ortholog(s) of this gene implicated in dilated cardiomyopathy 2B. Orthologous to human GATAD1 (GATA zinc finger domain containing 1). [provided by Alliance of Genome Resources, Nov 2024]
Expression
Biased expression in Heart (RPKM 165.4), Muscle (RPKM 148.2) and 9 other tissues See more
Orthologs
human mouse all
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Genomic context

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See Gatad1 in Genome Data Viewer
Location:
4q13
Exon count:
6
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCr8 (GCF_036323735.1) 4 NC_086022.1 (31462251..31473827)
RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 4 NC_051339.1 (30507530..30519107)
106 previous assembly Rnor_6.0 (GCF_000001895.5) 4 NC_005103.4 (27647005..27658533)

Chromosome 4 - NC_086022.1Genomic Context describing neighboring genes Neighboring gene ankyrin repeat and IBR domain containing 1 Neighboring gene DND microRNA-mediated repression inhibitor 1, pseudogene 2 Neighboring gene transmembrane BAX inhibitor motif containing 7 Neighboring gene peroxisomal biogenesis factor 1 Neighboring gene RIKEN cDNA 1700109H08 gene like Neighboring gene RNA binding motif protein 48

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages 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

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Related articles in PubMed

  1. Homozygosity mapping and exome sequencing reveal GATAD1 mutation in autosomal recessive dilated cardiomyopathy. Theis JL, et al. Circ Cardiovasc Genet, 2011 Dec. PMID 21965549, Free PMC Article
  2. Epigenetic regulation of puberty via Zinc finger protein-mediated transcriptional repression. Lomniczi A, et al. Nat Commun, 2015 Dec 16. PMID 26671628, Free PMC Article
  3. Quantitative interaction proteomics and genome-wide profiling of epigenetic histone marks and their readers. Vermeulen M, et al. Cell, 2010 Sep 17. PMID 20850016
  4. 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
  5. 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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Homology

Gene Ontology Provided by RGD

Function Evidence Code Pubs
enables sequence-specific DNA binding IEA
Inferred from Electronic Annotation
more info
  
enables zinc ion binding IEA
Inferred from Electronic Annotation
more info
  
Process Evidence Code Pubs
involved_in chromatin organization IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in chromatin remodeling ISO
Inferred from Sequence Orthology
more info
  
involved_in regulation of DNA-templated transcription IEA
Inferred from Electronic Annotation
more info
  
Component Evidence Code Pubs
located_in nucleoplasm IEA
Inferred from Electronic Annotation
more info
  
located_in nucleoplasm ISO
Inferred from Sequence Orthology
more info
  
is_active_in nucleus IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in nucleus ISO
Inferred from Sequence Orthology
more info
  

General protein information

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Preferred Names
GATA zinc finger domain-containing protein 1

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_001399652.1 → NP_001386581.1  GATA zinc finger domain-containing protein 1

    Status: VALIDATED

    Source sequence(s)
    JAXUCZ010000004
    UniProtKB/TrEMBL
    A6K283, D3ZHD5, D4A3T2
    Related
    ENSRNOP00000060484.3, ENSRNOT00000067376.5

RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCr8

Genomic

  1. NC_086022.1 Reference GRCr8

    Range
    31462251..31473827
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006236076.4 → XP_006236138.1  GATA zinc finger domain-containing protein 1 isoform X1

    See identical proteins and their annotated locations for XP_006236138.1

    UniProtKB/TrEMBL
    A6K284
    Conserved Domains (1) summary
    cl00158
    Location:9 → 33
    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
Nucleotide Protein Strain
Heading Accession and Version

Gene LinkOut

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