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    Gatad2b GATA zinc finger domain containing 2B [ Rattus norvegicus (Norway rat) ]

    Gene ID: 310614, updated on 9-Dec-2024

    Summary

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    Official Symbol
    Gatad2bprovided by RGD
    Official Full Name
    GATA zinc finger domain containing 2Bprovided by RGD
    Primary source
    RGD:1308533
    See related
    EnsemblRapid:ENSRNOG00000015553 AllianceGenome:RGD:1308533
    Gene type
    protein coding
    RefSeq status
    PROVISIONAL
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Also known as
    RGD1308533
    Summary
    Predicted to enable sequence-specific DNA binding activity and zinc ion binding activity. Predicted to be involved in chromatin remodeling and negative regulation of transcription by RNA polymerase II. Predicted to be located in chromosome, telomeric region and nucleoplasm. Predicted to be part of NuRD complex. Human ortholog(s) of this gene implicated in GAND syndrome. Orthologous to human GATAD2B (GATA zinc finger domain containing 2B). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in Thymus (RPKM 117.7), Spleen (RPKM 105.0) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Gatad2b in Genome Data Viewer
    Location:
    2q34
    Exon count:
    14
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 2 NC_086020.1 (178046192..178127633)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 2 NC_051337.1 (175748594..175829837)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 2 NC_005101.4 (189654871..189735056)

    Chromosome 2 - NC_086020.1Genomic Context describing neighboring genes Neighboring gene CREB regulated transcription coactivator 2 Neighboring gene uncharacterized LOC102551157 Neighboring gene DENN domain containing 4B Neighboring gene solute carrier family 27 member 3 Neighboring gene integrator complex subunit 3

    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
    • 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. The nucleosome remodeling and deacetylase complex in development and disease. Basta J, et al. Transl Res, 2015 Jan. PMID 24880148, Free PMC Article
    2. Heterogeneous nuclear ribonucleoprotein C1/C2, MeCP1, and SWI/SNF form a chromatin remodeling complex at the beta-globin locus control region. Mahajan MC, et al. Proc Natl Acad Sci U S A, 2005 Oct 18. PMID 16217013, Free PMC Article
    3. p38α MAPK proximity assay reveals a regulatory mechanism of alternative splicing in cardiomyocytes. Dumont AA, et al. Biochim Biophys Acta Mol Cell Res, 2019 Dec. PMID 31505169
    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

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    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 remodeling ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in negative regulation of transcription by RNA polymerase II IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Component Evidence Code Pubs
    part_of NuRD complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    part_of NuRD complex ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in chromosome, telomeric region ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nucleoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nucleus ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    transcriptional repressor p66-beta
    Names
    transcription repressor p66 beta component of the MeCP1 complex

    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_001024888.1 → NP_001020059.1  transcriptional repressor p66-beta

      See identical proteins and their annotated locations for NP_001020059.1

      Status: PROVISIONAL

      Source sequence(s)
      BC097428
      UniProtKB/TrEMBL
      A6J6L7, Q4V8E1
      Related
      ENSRNOP00000091300.2, ENSRNOT00000117370.2
      Conserved Domains (2) summary
      pfam00320
      Location:420 → 454
      GATA; GATA zinc finger
      pfam16563
      Location:159 → 194
      P66_CC; Coiled-coil and interaction region of P66A and P66B with MBD2

    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_086020.1 Reference GRCr8

      Range
      178046192..178127633
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_039102301.2 → XP_038958229.1  transcriptional repressor p66-beta isoform X1

      UniProtKB/TrEMBL
      A0A8I6AFB3, A6J6L7
      Related
      ENSRNOP00000071152.3, ENSRNOT00000086285.3

    2. XM_039102302.2 → XP_038958230.1  transcriptional repressor p66-beta isoform X2

      UniProtKB/TrEMBL
      A6J6L7

    3. XM_008761144.4 → XP_008759366.1  transcriptional repressor p66-beta isoform X3

      See identical proteins and their annotated locations for XP_008759366.1

      UniProtKB/TrEMBL
      A6J6L7, Q4V8E1
      Conserved Domains (2) summary
      pfam00320
      Location:420 → 454
      GATA; GATA zinc finger
      pfam16563
      Location:159 → 194
      P66_CC; Coiled-coil and interaction region of P66A and P66B with MBD2

    4. XM_063281824.1 → XP_063137894.1  transcriptional repressor p66-beta isoform X4

      UniProtKB/TrEMBL
      A6J6L7

    5. XM_063281823.1 → XP_063137893.1  transcriptional repressor p66-beta isoform X3

      UniProtKB/TrEMBL
      A6J6L7, Q4V8E1
    Nucleotide Protein Strain
    Heading Accession and Version

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