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Gatad2b GATA zinc finger domain containing 2B [ Mus musculus (house mouse) ]

Gene ID: 229542, updated on 11-Apr-2024

Summary

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Official Symbol
Gatad2bprovided by MGI
Official Full Name
GATA zinc finger domain containing 2Bprovided by MGI
Primary source
MGI:MGI:2443225
See related
Ensembl:ENSMUSG00000042390 AllianceGenome:MGI:2443225
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Mus musculus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Also known as
P66beta; mKIAA1150; C430014D17Rik
Summary
Predicted to enable sequence-specific DNA binding activity and zinc ion binding activity. Predicted to be involved in negative regulation of transcription by RNA polymerase II. Predicted to be located in nucleoplasm. Predicted to be part of NuRD complex. Is expressed in early conceptus and genitourinary system. Human ortholog(s) of this gene implicated in autosomal dominant non-syndromic intellectual disability 18. Orthologous to human GATAD2B (GATA zinc finger domain containing 2B). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Ubiquitous expression in limb E14.5 (RPKM 10.2), CNS E14 (RPKM 8.9) and 28 other tissues See more
Orthologs
human all
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Genomic context

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Location:
3 F1; 3 39.21 cM
Exon count:
14
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 3 NC_000069.7 (90200488..90270712)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 3 NC_000069.6 (90293181..90363405)

Chromosome 3 - NC_000069.7Genomic Context describing neighboring genes Neighboring gene STARR-positive B cell enhancer ABC_E4558 Neighboring gene CREB regulated transcription coactivator 2 Neighboring gene DENN domain containing 4B Neighboring gene microRNA 7012 Neighboring gene STARR-positive B cell enhancer ABC_E28 Neighboring gene STARR-seq mESC enhancer starr_08281 Neighboring gene STARR-positive B cell enhancer ABC_E9009 Neighboring gene STARR-seq mESC enhancer starr_08284 Neighboring gene solute carrier family 27 (fatty acid transporter), member 3 Neighboring gene integrator complex subunit 3 Neighboring gene STARR-seq mESC enhancer starr_08286 Neighboring gene CapStarr-seq enhancer MGSCv37_chr3:90237240-90237349 Neighboring gene CapStarr-seq enhancer MGSCv37_chr3:90237716-90237903 Neighboring gene STARR-seq mESC enhancer starr_08287 Neighboring gene STARR-seq mESC enhancer starr_08288 Neighboring gene natriuretic peptide receptor 1

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: Mouse ENCODE transcriptome data
  • Description: RNA profiling data sets generated by the Mouse ENCODE project.
  • BioProject: PRJNA66167
  • Publication: PMID 25409824
  • Analysis date: n/a

Bibliography

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Related articles in PubMed

  1. Regulation of Sufu activity by p66β and Mycbp provides new insight into vertebrate Hedgehog signaling. Lin C, et al. Genes Dev, 2014 Nov 15. PMID 25403183, Free PMC Article
  2. In vivo screening identifies GATAD2B as a metastasis driver in KRAS-driven lung cancer. Grzeskowiak CL, et al. Nat Commun, 2018 Jul 16. PMID 30013058, Free PMC Article
  3. CHD5, a brain-specific paralog of Mi2 chromatin remodeling enzymes, regulates expression of neuronal genes. Potts RC, et al. PLoS One, 2011. PMID 21931736, Free PMC Article
  4. Foxp1/2/4-NuRD interactions regulate gene expression and epithelial injury response in the lung via regulation of interleukin-6. Chokas AL, et al. J Biol Chem, 2010 Apr 23. PMID 20185820, Free PMC Article
  5. Identification and functional characterization of the p66/p68 components of the MeCP1 complex. Feng Q, et al. Mol Cell Biol, 2002 Jan. PMID 11756549, Free PMC Article

See all (49) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. Gatad2b, associated with the neurodevelopmental syndrome GAND, plays a critical role in neurodevelopment and cortical patterning.
    Title: Gatad2b, associated with the neurodevelopmental syndrome GAND, plays a critical role in neurodevelopment and cortical patterning.
  2. GATAD2B interacts with C-MYC to enhance KRAS driven tumor growth.
    Title: In vivo screening identifies GATAD2B as a metastasis driver in KRAS-driven lung cancer.
Submit: New GeneRIF Correction

Variation

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Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)
  • Targeted (2) 
  • Endonuclease-mediated (1) 

Pathways from PubChem

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Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Markers

Homology

Clone Names

  • KIAA1150

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables metal ion binding IEA
Inferred from Electronic Annotation
more info
  
enables protein binding IPI
Inferred from Physical Interaction
more info
 PubMed 
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 DNA-templated transcription NAS
Non-traceable Author Statement
more info
 PubMed 
involved_in negative regulation of transcription by RNA polymerase II IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in positive regulation of DNA-templated transcription NAS
Non-traceable Author Statement
more info
 PubMed 
involved_in regulation of DNA-templated transcription IEA
Inferred from Electronic Annotation
more info
  
involved_in regulation of cell fate specification NAS
Non-traceable Author Statement
more info
 PubMed 
involved_in regulation of stem cell differentiation NAS
Non-traceable Author Statement
more info
 PubMed 
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
  
part_of NuRD complex NAS
Non-traceable Author Statement
more info
 PubMed 
located_in chromosome IEA
Inferred from Electronic Annotation
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
GATA zinc finger domain-containing protein 2B
p66/p68
transcription repressor p66 beta component of the MeCP1 complex
transcription repressor p66 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_001379655.1 → NP_001366584.1  transcriptional repressor p66-beta isoform a

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longest transcript and encodes the longer isoform (a). Variants 1-3 all encode the same isoform (a).
    Source sequence(s)
    AC119825, AC145082
    UniProtKB/Swiss-Prot
    Q8C9Q3, Q8VHR5
    UniProtKB/TrEMBL
    A1L3S7
    Conserved Domains (2) summary
    pfam00320
    Location:421 → 455
    GATA; GATA zinc finger
    pfam16563
    Location:161 → 195
    P66_CC; Coiled-coil and interaction region of P66A and P66B with MBD2

  2. NM_001379656.1 → NP_001366585.1  transcriptional repressor p66-beta isoform a

    Status: VALIDATED

    Description
    Transcript Variant: This variant (3), as well as variants 1 and 2, encodes the longer isoform (a).
    Source sequence(s)
    AC119825, AC145082
    UniProtKB/Swiss-Prot
    Q8C9Q3, Q8VHR5
    UniProtKB/TrEMBL
    A1L3S7
    Related
    ENSMUSP00000142617.2, ENSMUST00000199607.5
    Conserved Domains (2) summary
    pfam00320
    Location:421 → 455
    GATA; GATA zinc finger
    pfam16563
    Location:161 → 195
    P66_CC; Coiled-coil and interaction region of P66A and P66B with MBD2

  3. NM_001379657.1 → NP_001366586.1  transcriptional repressor p66-beta isoform b

    Status: VALIDATED

    Source sequence(s)
    AC119825, AC145082
    UniProtKB/TrEMBL
    A1L3S7
    Conserved Domains (2) summary
    pfam00320
    Location:420 → 454
    GATA; GATA zinc finger
    pfam16563
    Location:161 → 195
    P66_CC; Coiled-coil and interaction region of P66A and P66B with MBD2

  4. NM_139304.3 → NP_647465.1  transcriptional repressor p66-beta isoform a

    See identical proteins and their annotated locations for NP_647465.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2), as well as variants 1 and 3, encodes the longer isoform (a).
    Source sequence(s)
    AC119825, AC145082
    Consensus CDS
    CCDS17526.1
    UniProtKB/Swiss-Prot
    Q8C9Q3, Q8VHR5
    UniProtKB/TrEMBL
    A1L3S7
    Related
    ENSMUSP00000142514.2, ENSMUST00000199754.5
    Conserved Domains (2) summary
    pfam00320
    Location:421 → 455
    GATA; GATA zinc finger
    pfam16563
    Location:161 → 195
    P66_CC; Coiled-coil and interaction region of P66A and P66B with MBD2

RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

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

Reference GRCm39 C57BL/6J

Genomic

  1. NC_000069.7 Reference GRCm39 C57BL/6J

    Range
    90200488..90270712
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006501360.5 → XP_006501423.3  transcriptional repressor p66-beta isoform X2

    UniProtKB/TrEMBL
    A1L3S7
    Conserved Domains (2) summary
    pfam00320
    Location:497 → 530
    GATA; GATA zinc finger
    pfam16563
    Location:238 → 272
    P66_CC; Coiled-coil and interaction region of P66A and P66B with MBD2

  2. XM_006501359.5 → XP_006501422.3  transcriptional repressor p66-beta isoform X1

    UniProtKB/TrEMBL
    A1L3S7
    Conserved Domains (2) summary
    pfam00320
    Location:498 → 531
    GATA; GATA zinc finger
    pfam16563
    Location:238 → 272
    P66_CC; Coiled-coil and interaction region of P66A and P66B with MBD2

  3. XM_036163055.1 → XP_036018948.1  transcriptional repressor p66-beta isoform X3

    UniProtKB/Swiss-Prot
    Q8C9Q3, Q8VHR5
    UniProtKB/TrEMBL
    A1L3S7
    Conserved Domains (2) summary
    pfam00320
    Location:421 → 455
    GATA; GATA zinc finger
    pfam16563
    Location:161 → 195
    P66_CC; Coiled-coil and interaction region of P66A and P66B with MBD2
Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q8VHR5.1 GenPept UniProtKB/Swiss-Prot:Q8VHR5

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