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ZBED6 zinc finger BED-type containing 6 [ Homo sapiens (human) ]

Gene ID: 100381270, updated on 8-Mar-2024

Summary

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Official Symbol
ZBED6provided by HGNC
Official Full Name
zinc finger BED-type containing 6provided by HGNC
Primary source
HGNC:HGNC:33273
See related
Ensembl:ENSG00000257315 MIM:613512; AllianceGenome:HGNC:33273
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
MGR
Summary
The protein encoded by this transposon-derived intronless gene is a transcriptional repressor that binds to the consensus sequence 5'-GCTCGC-3'. The encoded protein has been shown to repress IGF2 transcription. This gene is located within the first intron of the ZC3H11A gene. [provided by RefSeq, Jul 2016]
Orthologs
mouse all
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Genomic context

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See ZBED6 in Genome Data Viewer
Location:
1q32.1
Exon count:
17
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 1 NC_000001.11 (203795623..203854124)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 1 NC_060925.1 (203058813..203118077)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 1 NC_000001.10 (203764751..203823252)

Chromosome 1 - NC_000001.11Genomic Context describing neighboring genes Neighboring gene ATPase plasma membrane Ca2+ transporting 4 Neighboring gene uncharacterized LOC102723543 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:203722055-203722656 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 2354 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 2355 Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr1:203741871-203742446 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 2356 Neighboring gene lymphocyte transmembrane adaptor 1 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 2357 Neighboring gene uncharacterized LOC128031836 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:203772353-203772854 Neighboring gene charged multivesicular body protein 5 pseudogene Neighboring gene zinc finger CCCH-type containing 11A Neighboring gene MPRA-validated peak661 silencer Neighboring gene H3K27ac hESC enhancer GRCh37_chr1:203810670-203811170 Neighboring gene ribosomal protein L35a pseudogene 5 Neighboring gene Sharpr-MPRA regulatory region 5904 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:203831257-203831832 Neighboring gene small nuclear ribonucleoprotein polypeptide E Neighboring gene keratin 8 pseudogene 29

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Bibliography

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Related articles in PubMed

  1. Transcriptional modulator ZBED6 affects cell cycle and growth of human colorectal cancer cells. Akhtar Ali M, et al. Proc Natl Acad Sci U S A, 2015 Jun 23. PMID 26056301, Free PMC Article
  2. Studying phenotypic evolution in domestic animals: a walk in the footsteps of Charles Darwin. Andersson L. Cold Spring Harb Symp Quant Biol, 2009. PMID 20375320
  3. Transcription factor ZBED6 affects gene expression, proliferation, and cell death in pancreatic beta cells. Wang X, et al. Proc Natl Acad Sci U S A, 2013 Oct 1. PMID 24043816, Free PMC Article
  4. A domesticated transposon mediates the effects of a single-nucleotide polymorphism responsible for enhanced muscle growth. Butter F, et al. EMBO Rep, 2010 Apr. PMID 20134481, Free PMC Article
  5. ZBED6, a novel transcription factor derived from a domesticated DNA transposon regulates IGF2 expression and muscle growth. Markljung E, et al. PLoS Biol, 2009 Dec. PMID 20016685, Free PMC Article

See all (16) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. Loss of ZBED6 Protects Against Sepsis-Induced Muscle Atrophy by Upregulating DOCK3-Mediated RAC1/PI3K/AKT Signaling Pathway in Pigs.
    Title: Loss of ZBED6 Protects Against Sepsis-Induced Muscle Atrophy by Upregulating DOCK3-Mediated RAC1/PI3K/AKT Signaling Pathway in Pigs.
  2. results of this study show that the effect of ZBED6 on tumor development depends on the genetic background and the transcriptional state of its target genes
    Title: Transcriptional modulator ZBED6 affects cell cycle and growth of human colorectal cancer cells.
  3. Mouse MGR (Zbed6) is a repressor of Igf2.
    Title: A domesticated transposon mediates the effects of a single-nucleotide polymorphism responsible for enhanced muscle growth.
  4. Silencing of Zbed6 in mouse C2C12 myoblasts affected Igf2 expression, cell proliferation, wound healing, and myotube formation.
    Title: ZBED6, a novel transcription factor derived from a domesticated DNA transposon regulates IGF2 expression and muscle growth.
Submit: New GeneRIF Correction

Phenotypes

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Review eQTL and phenotype association data in this region using PheGenI

EBI GWAS Catalog

Description
Genome-wide association analysis in East Asians identifies breast cancer susceptibility loci at 1q32.1, 5q14.3 and 15q26.1.
EBI GWAS Catalog

Variation

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See variants in ClinVar

See studies and variants in dbVar

See Variation Viewer (GRCh37.p13)

See Variation Viewer (GRCh38)

Genotypes

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 GOA

Function Evidence Code Pubs
enables DNA-binding transcription factor activity, RNA polymerase II-specific ISA
Inferred from Sequence Alignment
more info
  
enables DNA-binding transcription repressor activity, RNA polymerase II-specific ISS
Inferred from Sequence or Structural Similarity
more info
  
enables metal ion binding IEA
Inferred from Electronic Annotation
more info
  
enables protein dimerization activity IEA
Inferred from Electronic Annotation
more info
  
enables transcription cis-regulatory region binding ISS
Inferred from Sequence or Structural Similarity
more info
  
Process Evidence Code Pubs
involved_in blastocyst hatching IEA
Inferred from Electronic Annotation
more info
  
involved_in negative regulation of DNA-templated transcription ISS
Inferred from Sequence or Structural Similarity
more info
  
involved_in negative regulation of muscle cell differentiation ISS
Inferred from Sequence or Structural Similarity
more info
  
involved_in negative regulation of transcription by RNA polymerase II ISS
Inferred from Sequence or Structural Similarity
more info
  
involved_in regulation of insulin secretion involved in cellular response to glucose stimulus IEA
Inferred from Electronic Annotation
more info
  
involved_in regulation of transcription by RNA polymerase II IBA
Inferred from Biological aspect of Ancestor
more info
  
Component Evidence Code Pubs
located_in centriolar satellite IDA
Inferred from Direct Assay
more info
  
part_of chromatin ISA
Inferred from Sequence Alignment
more info
  
located_in cytoplasm IDA
Inferred from Direct Assay
more info
 PubMed 
located_in cytoplasm ISS
Inferred from Sequence or Structural Similarity
more info
  
located_in nucleolus ISS
Inferred from Sequence or Structural Similarity
more info
  
located_in nucleoplasm IDA
Inferred from Direct Assay
more info
  
is_active_in nucleus IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in nucleus IDA
Inferred from Direct Assay
more info
 PubMed 
located_in nucleus ISS
Inferred from Sequence or Structural Similarity
more info
  

General protein information

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Preferred Names
zinc finger BED domain-containing protein 6

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_001174108.2 → NP_001167579.1  zinc finger BED domain-containing protein 6

    See identical proteins and their annotated locations for NP_001167579.1

    Status: REVIEWED

    Source sequence(s)
    AC114402
    Consensus CDS
    CCDS55673.1
    UniProtKB/Swiss-Prot
    P86452
    Conserved Domains (2) summary
    smart00614
    Location:135 → 182
    ZnF_BED; BED zinc finger
    pfam05699
    Location:868 → 948
    Dimer_Tnp_hAT; hAT family C-terminal dimerization region

  2. NM_001395895.1 → NP_001382824.1  zinc finger BED domain-containing protein 6

    Status: REVIEWED

    Source sequence(s)
    AC114402
    Consensus CDS
    CCDS55673.1
    UniProtKB/Swiss-Prot
    P86452
    Related
    ENSP00000447879.1, ENST00000550078.3
    Conserved Domains (2) summary
    smart00614
    Location:135 → 182
    ZnF_BED; BED zinc finger
    pfam05699
    Location:868 → 948
    Dimer_Tnp_hAT; hAT family C-terminal dimerization region

RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2023_10

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

Reference GRCh38.p14 Primary Assembly

Genomic

  1. NC_000001.11 Reference GRCh38.p14 Primary Assembly

    Range
    203795623..203854124
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060925.1 Alternate T2T-CHM13v2.0

    Range
    203058813..203118077
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
P86452.1 GenPept UniProtKB/Swiss-Prot:P86452

Gene LinkOut

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