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Zbtb4 zinc finger and BTB domain containing 4 [ Rattus norvegicus (Norway rat) ]

Gene ID: 287441, updated on 11-Apr-2024

Summary

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Official Symbol
Zbtb4provided by RGD
Official Full Name
zinc finger and BTB domain containing 4provided by RGD
Primary source
RGD:1307184
See related
Ensembl:ENSRNOG00000014689 AllianceGenome:RGD:1307184
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 several functions, including DNA-binding transcription repressor activity, RNA polymerase II-specific; methyl-CpNpG binding activity; and sequence-specific DNA binding activity. Predicted to be involved in cellular response to DNA damage stimulus and negative regulation of transcription by RNA polymerase II. Predicted to be located in cytosol and nuclear body. Orthologous to human ZBTB4 (zinc finger and BTB domain containing 4). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Biased expression in Lung (RPKM 186.3), Brain (RPKM 148.0) and 9 other tissues See more
Orthologs
human mouse all
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Genomic context

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See Zbtb4 in Genome Data Viewer
Location:
10q24
Exon count:
6
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCr8 (GCF_036323735.1) 10 NC_086028.1 (54979421..55000215)
RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 10 NC_051345.1 (54480698..54501492)
106 previous assembly Rnor_6.0 (GCF_000001895.5) 10 NC_005109.4 (56367586..56388296)

Chromosome 10 - NC_086028.1Genomic Context describing neighboring genes Neighboring gene ribosomal protein L13, pseudogene 19 Neighboring gene RNA polymerase II subunit A Neighboring gene solute carrier family 35, member G3 Neighboring gene cholinergic receptor nicotinic beta 1 subunit Neighboring gene fibroblast growth factor 11 Neighboring gene transmembrane protein 102

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. Sequence-specific recognition of methylated DNA by human zinc-finger proteins. Sasai N, et al. Nucleic Acids Res, 2010 Aug. PMID 20403812, Free PMC Article
  2. The human protein kinase HIPK2 phosphorylates and downregulates the methyl-binding transcription factor ZBTB4. Yamada D, et al. Oncogene, 2009 Jul 9. PMID 19448668
  3. A family of human zinc finger proteins that bind methylated DNA and repress transcription. Filion GJ, et al. Mol Cell Biol, 2006 Jan. PMID 16354688, Free PMC Article
  4. On how mammalian transcription factors recognize methylated DNA. Buck-Koehntop BA, et al. Epigenetics, 2013 Feb. PMID 23324617, Free PMC Article
  5. Normalization and subtraction: two approaches to facilitate gene discovery. Bonaldo MF, et al. Genome Res, 1996 Sep. PMID 8889548

See all (6) citations in PubMed

GeneRIFs: Gene References Into Functions

General gene information

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Homology

Gene Ontology Provided by RGD

Function Evidence Code Pubs
enables DNA-binding transcription factor activity, RNA polymerase II-specific IBA
Inferred from Biological aspect of Ancestor
more info
  
enables DNA-binding transcription repressor activity, RNA polymerase II-specific ISO
Inferred from Sequence Orthology
more info
  
enables RNA polymerase II cis-regulatory region sequence-specific DNA binding IBA
Inferred from Biological aspect of Ancestor
more info
  
enables RNA polymerase II transcription regulatory region sequence-specific DNA binding ISO
Inferred from Sequence Orthology
more info
  
enables metal ion binding IEA
Inferred from Electronic Annotation
more info
  
enables methyl-CpG binding ISO
Inferred from Sequence Orthology
more info
  
enables methyl-CpNpG binding ISO
Inferred from Sequence Orthology
more info
  
enables protein homodimerization activity ISO
Inferred from Sequence Orthology
more info
  
enables protein kinase binding ISO
Inferred from Sequence Orthology
more info
  
enables sequence-specific DNA binding ISO
Inferred from Sequence Orthology
more info
  
Process Evidence Code Pubs
involved_in DNA damage response ISO
Inferred from Sequence Orthology
more info
  
involved_in biological_process ND
No biological Data available
more info
  
involved_in negative regulation of DNA-templated transcription ISO
Inferred from Sequence Orthology
more info
  
involved_in negative regulation of transcription by RNA polymerase II ISO
Inferred from Sequence Orthology
more info
  
involved_in regulation of DNA-templated transcription IBA
Inferred from Biological aspect of Ancestor
more info
  
Component Evidence Code Pubs
located_in chromosome IEA
Inferred from Electronic Annotation
more info
  
located_in cytosol IEA
Inferred from Electronic Annotation
more info
  
located_in cytosol ISO
Inferred from Sequence Orthology
more info
  
located_in nuclear body IEA
Inferred from Electronic Annotation
more info
  
located_in nuclear body ISO
Inferred from Sequence Orthology
more info
  
located_in nucleoplasm ISO
Inferred from Sequence Orthology
more info
  
located_in nucleus IEA
Inferred from Electronic Annotation
more info
  
located_in nucleus ISO
Inferred from Sequence Orthology
more info
  

General protein information

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Preferred Names
zinc finger and BTB domain-containing protein 4

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_001304352.1 → NP_001291281.1  zinc finger and BTB domain-containing protein 4

    See identical proteins and their annotated locations for NP_001291281.1

    Status: VALIDATED

    Source sequence(s)
    JAXUCZ010000010
    UniProtKB/Swiss-Prot
    D4A8X0
    Related
    ENSRNOP00000019687.4, ENSRNOT00000019687.7
    Conserved Domains (6) summary
    sd00017
    Location:287 → 307
    ZF_C2H2; C2H2 Zn finger [structural motif]
    sd00019
    Location:212 → 228
    ZF_C2H2; C2H2 Zn finger [structural motif]
    cd18195
    Location:12 → 160
    BTB_POZ_ZBTB4; BTB (Broad-Complex, Tramtrack and Bric a brac)/POZ (poxvirus and zinc finger) domain found in zinc finger and BTB domain-containing protein 4 (ZBTB4)
    pfam00096
    Location:736 → 758
    zf-C2H2; Zinc finger, C2H2 type
    pfam13894
    Location:341 → 364
    zf-C2H2_4; C2H2-type zinc finger
    pfam13913
    Location:211 → 233
    zf-C2HC_2; zinc-finger of a C2HC-type

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_086028.1 Reference GRCr8

    Range
    54979421..55000215
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006246844.4 → XP_006246906.1  zinc finger and BTB domain-containing protein 4 isoform X1

    See identical proteins and their annotated locations for XP_006246906.1

    UniProtKB/Swiss-Prot
    D4A8X0
    Conserved Domains (6) summary
    sd00017
    Location:287 → 307
    ZF_C2H2; C2H2 Zn finger [structural motif]
    sd00019
    Location:212 → 228
    ZF_C2H2; C2H2 Zn finger [structural motif]
    cd18195
    Location:12 → 160
    BTB_POZ_ZBTB4; BTB (Broad-Complex, Tramtrack and Bric a brac)/POZ (poxvirus and zinc finger) domain found in zinc finger and BTB domain-containing protein 4 (ZBTB4)
    pfam00096
    Location:736 → 758
    zf-C2H2; Zinc finger, C2H2 type
    pfam13894
    Location:341 → 364
    zf-C2H2_4; C2H2-type zinc finger
    pfam13913
    Location:211 → 233
    zf-C2HC_2; zinc-finger of a C2HC-type

  2. XM_039085459.2 → XP_038941387.1  zinc finger and BTB domain-containing protein 4 isoform X1

    UniProtKB/Swiss-Prot
    D4A8X0
    Conserved Domains (6) summary
    sd00017
    Location:287 → 307
    ZF_C2H2; C2H2 Zn finger [structural motif]
    sd00019
    Location:212 → 228
    ZF_C2H2; C2H2 Zn finger [structural motif]
    cd18195
    Location:12 → 160
    BTB_POZ_ZBTB4; BTB (Broad-Complex, Tramtrack and Bric a brac)/POZ (poxvirus and zinc finger) domain found in zinc finger and BTB domain-containing protein 4 (ZBTB4)
    pfam00096
    Location:736 → 758
    zf-C2H2; Zinc finger, C2H2 type
    pfam13894
    Location:341 → 364
    zf-C2H2_4; C2H2-type zinc finger
    pfam13913
    Location:211 → 233
    zf-C2HC_2; zinc-finger of a C2HC-type
Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
D4A8X0.1 GenPept UniProtKB/Swiss-Prot:D4A8X0

Gene LinkOut

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