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ZBTB39 zinc finger and BTB domain containing 39 [ Homo sapiens (human) ]

Gene ID: 9880, updated on 27-Nov-2024

Summary

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Official Symbol
ZBTB39provided by HGNC
Official Full Name
zinc finger and BTB domain containing 39provided by HGNC
Primary source
HGNC:HGNC:29014
See related
Ensembl:ENSG00000166860 MIM:619384; AllianceGenome:HGNC:29014
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
ZNF922
Summary
Predicted to enable DNA-binding transcription repressor activity, RNA polymerase II-specific and RNA polymerase II cis-regulatory region sequence-specific DNA binding activity. Predicted to be involved in negative regulation of transcription by RNA polymerase II; regulation of cytokine production; and regulation of immune system process. Predicted to be located in nucleus. Predicted to be active in nucleoplasm. [provided by Alliance of Genome Resources, Nov 2024]
Expression
Broad expression in testis (RPKM 5.1), ovary (RPKM 2.2) and 25 other tissues See more
Orthologs
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Genomic context

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See ZBTB39 in Genome Data Viewer
Location:
12q13.3
Exon count:
2
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 12 NC_000012.12 (56998836..57006546, complement)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 12 NC_060936.1 (56966705..56974415, complement)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 12 NC_000012.11 (57392620..57400330, complement)

Chromosome 12 - NC_000012.12Genomic Context describing neighboring genes Neighboring gene retinol dehydrogenase 16 Neighboring gene origin of replication ori6 Neighboring gene uncharacterized LOC124902945 Neighboring gene retinol dehydrogenase 16 (all-trans) pseudogene Neighboring gene CRISPRi-validated cis-regulatory element chr12.2240 Neighboring gene G protein-coupled receptor 182 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 4567 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 4568 Neighboring gene tachykinin precursor 3 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr12:57423222-57424059 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 6520 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 6521 Neighboring gene myosin IA Neighboring gene BRD4-independent group 4 enhancer GRCh37_chr12:57440635-57441834

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: HPA RNA-seq normal tissues
  • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
  • BioProject: PRJEB4337
  • Publication: PMID 24309898
  • Analysis date: Wed Apr 4 07:08:55 2018

Bibliography

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Related articles in PubMed

  1. Proteomic analysis of FOXP proteins reveals interactions between cortical transcription factors associated with neurodevelopmental disorders. Estruch SB, et al. Hum Mol Genet, 2018 Apr 1. PMID 29365100
  2. Prediction of the coding sequences of unidentified human genes. VII. The complete sequences of 100 new cDNA clones from brain which can code for large proteins in vitro. Nagase T, et al. DNA Res, 1997 Apr 28. PMID 9205841
  3. The p97/VCP segregase is essential for arsenic-induced degradation of PML and PML-RARA. Jaffray EG, et al. J Cell Biol, 2023 Apr 3. PMID 36880596, Free PMC Article
  4. The functional interactome of PYHIN immune regulators reveals IFIX is a sensor of viral DNA. Diner BA, et al. Mol Syst Biol, 2015 Feb 9. PMID 25665578, Free PMC Article
  5. The histone acetyltransferase KAT6A is recruited to unmethylated CpG islands via a DNA binding winged helix domain. Weber LM, et al. Nucleic Acids Res, 2023 Jan 25. PMID 36537216, Free PMC Article

See all (15) citations in PubMed

GeneRIFs: Gene References Into Functions

Phenotypes

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Find tests for this gene in the NIH Genetic Testing Registry (GTR)

Review eQTL and phenotype association data in this region using PheGenI

Variation

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See variants in ClinVar

See studies and variants in dbVar

See Variation Viewer (GRCh37.p13)

See Variation Viewer (GRCh38)

Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Markers

Potential readthrough

Included gene: RDH16

Homology

Clone Names

  • KIAA0352

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables DNA-binding transcription repressor activity, RNA polymerase II-specific IBA
Inferred from Biological aspect of Ancestor
more info
  
enables RNA polymerase II cis-regulatory region sequence-specific DNA binding IBA
Inferred from Biological aspect of Ancestor
more info
  
enables metal ion binding IEA
Inferred from Electronic Annotation
more info
  
enables protein binding IPI
Inferred from Physical Interaction
more info
 PubMed 
Process Evidence Code Pubs
involved_in negative regulation of transcription by RNA polymerase II IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in regulation of cytokine production IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in regulation of immune system process IBA
Inferred from Biological aspect of Ancestor
more info
  
Component Evidence Code Pubs
is_active_in nucleoplasm IBA
Inferred from Biological aspect of Ancestor
more info
  

General protein information

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Preferred Names
zinc finger and BTB domain-containing protein 39

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_014830.3 → NP_055645.1  zinc finger and BTB domain-containing protein 39

    See identical proteins and their annotated locations for NP_055645.1

    Status: VALIDATED

    Source sequence(s)
    AC026120, AK292468, BC152461
    Consensus CDS
    CCDS31839.1
    UniProtKB/Swiss-Prot
    A7MD38, O15060, Q9UD98
    Related
    ENSP00000300101.2, ENST00000300101.3
    Conserved Domains (3) summary
    sd00017
    Location:607 → 627
    ZF_C2H2; C2H2 Zn finger [structural motif]
    pfam00651
    Location:20 → 119
    BTB; BTB/POZ domain
    pfam13465
    Location:619 → 643
    zf-H2C2_2; Zinc-finger double domain

RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2024_08

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

Reference GRCh38.p14 Primary Assembly

Genomic

  1. NC_000012.12 Reference GRCh38.p14 Primary Assembly

    Range
    56998836..57006546 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060936.1 Alternate T2T-CHM13v2.0

    Range
    56966705..56974415 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
O15060.1 GenPept UniProtKB/Swiss-Prot:O15060

Gene LinkOut

The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

Chemical Information
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