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ZBED1 zinc finger BED-type containing 1 [ Homo sapiens (human) ]

Gene ID: 9189, updated on 24-Jun-2020

Summary

Official Symbol
ZBED1provided by HGNC
Official Full Name
zinc finger BED-type containing 1provided by HGNC
Primary source
HGNC:HGNC:447
See related
Ensembl:ENSG00000214717 MIM:300178
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
ALTE; DREF; TRAMP; hDREF
Summary
This gene is located in the pseudoautosomal region 1 (PAR1) of X and Y chromosomes. It was earlier identified as a gene with similarity to Ac transposable elements, however, was found not to have transposase activity. Later studies show that this gene product is localized in the nucleus and functions as a transcription factor. It binds to DNA elements found in the promoter regions of several genes related to cell proliferation, such as histone H1, hence may have a role in regulating genes related to cell proliferation. Alternatively spliced transcript variants with different 5' untranslated region have been found for this gene. [provided by RefSeq, Jan 2010]
Expression
Ubiquitous expression in kidney (RPKM 10.8), colon (RPKM 10.6) and 25 other tissues See more
Orthologs

Genomic context

See ZBED1 in Genome Data Viewer
Location:
Xp22.33 and Yp11
Exon count:
3
Annotation release Status Assembly Chr Location
109.20200522 current GRCh38.p13 (GCF_000001405.39) X NC_000023.11 (2486414..2500976, complement)
109.20200522 current GRCh38.p13 (GCF_000001405.39) Y NC_000024.10 (2486414..2500976, complement)
105 previous assembly GRCh37.p13 (GCF_000001405.25) X NC_000023.10 (2404455..2419008, complement)
105 previous assembly GRCh37.p13 (GCF_000001405.25) Y NC_000024.9 (2354455..2369008, complement)

Chromosome X - NC_000023.11Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC105379413 Neighboring gene uncharacterized LOC107985677 Neighboring gene dehydrogenase/reductase X-linked Neighboring gene uncharacterized LOC101928092 Neighboring gene microRNA 6089

Chromosome Y - NC_000024.10Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC105379413 Neighboring gene uncharacterized LOC107985677 Neighboring gene dehydrogenase/reductase X-linked Neighboring gene uncharacterized LOC101928092 Neighboring gene microRNA 6089

Genomic regions, transcripts, and products

Expression

  • 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

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Clone Names

  • KIAA0785

Gene Ontology Provided by GOA

Process Evidence Code Pubs
positive regulation of transcription by RNA polymerase II IDA
Inferred from Direct Assay
more info
PubMed 
protein sumoylation IEA
Inferred from Electronic Annotation
more info
 
Component Evidence Code Pubs
centrosome IDA
Inferred from Direct Assay
more info
 
nuclear chromatin ISA
Inferred from Sequence Alignment
more info
 
nuclear membrane IDA
Inferred from Direct Assay
more info
 
nucleoplasm IDA
Inferred from Direct Assay
more info
 
nucleoplasm TAS
Traceable Author Statement
more info
 

General protein information

Preferred Names
zinc finger BED domain-containing protein 1
Names
Ac-like transposable element
BED-type zinc finger domain-containing protein 1
DNA replication-related element binding factor
dREF homolog

NCBI Reference Sequences (RefSeq)

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.

Genomic

  1. NG_016364.1 RefSeqGene

    Range
    4992..19533
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NM_001171135.1NP_001164606.1  zinc finger BED domain-containing protein 1

    See identical proteins and their annotated locations for NP_001164606.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (3) contains an alternate 5' terminal exon compared to variant 1. Variants 1-3 encode the same protein.
    Source sequence(s)
    AB018328, AC079176, BC015030, BM980254, DA625185
    Consensus CDS
    CCDS14118.1
    UniProtKB/Swiss-Prot
    O96006
    UniProtKB/TrEMBL
    A0A024RBU4
    Related
    ENSP00000370616.3, ENST00000381218.8
    Conserved Domains (3) summary
    pfam02892
    Location:2372
    zf-BED; BED zinc finger
    pfam05699
    Location:571650
    Dimer_Tnp_hAT; hAT family C-terminal dimerization region
    pfam14372
    Location:412480
    DUF4413; Domain of unknown function (DUF4413)
  2. NM_001171136.2NP_001164607.1  zinc finger BED domain-containing protein 1

    See identical proteins and their annotated locations for NP_001164607.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) represents the predominant transcript. Variants 1-3 encode the same protein.
    Source sequence(s)
    AB018328, AC079176, BC015030, BM980254, DA625185
    Consensus CDS
    CCDS14118.1
    UniProtKB/Swiss-Prot
    O96006
    UniProtKB/TrEMBL
    A0A024RBU4
    Related
    ENSP00000498725.1, ENST00000652001.1
    Conserved Domains (3) summary
    pfam02892
    Location:2372
    zf-BED; BED zinc finger
    pfam05699
    Location:571650
    Dimer_Tnp_hAT; hAT family C-terminal dimerization region
    pfam14372
    Location:412480
    DUF4413; Domain of unknown function (DUF4413)
  3. NM_004729.4NP_004720.1  zinc finger BED domain-containing protein 1

    See identical proteins and their annotated locations for NP_004720.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) uses an alternate acceptor splice site at the 3' terminal exon compared to variant 1. Variants 1-3 encode the same protein.
    Source sequence(s)
    AB018328, AC079176, BM980254, DA625185
    Consensus CDS
    CCDS14118.1
    UniProtKB/Swiss-Prot
    O96006
    UniProtKB/TrEMBL
    A0A024RBU4
    Related
    ENSP00000370620.2, ENST00000381222.8
    Conserved Domains (3) summary
    pfam02892
    Location:2372
    zf-BED; BED zinc finger
    pfam05699
    Location:571650
    Dimer_Tnp_hAT; hAT family C-terminal dimerization region
    pfam14372
    Location:412480
    DUF4413; Domain of unknown function (DUF4413)

RefSeqs of Annotated Genomes: Homo sapiens Updated Annotation Release 109.

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

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000023.11 Reference GRCh38.p13 Primary Assembly

    Range
    2486414..2500976 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000024.10 Reference GRCh38.p13 Primary Assembly

    Range
    2486414..2500976 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
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