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ZBED3 zinc finger BED-type containing 3 [ Homo sapiens (human) ]

Gene ID: 84327, updated on 13-Mar-2020

Summary

Official Symbol
ZBED3provided by HGNC
Official Full Name
zinc finger BED-type containing 3provided by HGNC
Primary source
HGNC:HGNC:20711
See related
Ensembl:ENSG00000132846 MIM:615250
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
Summary
This gene belongs to a class of genes that arose through hAT DNA transposition and that encode regulatory proteins. This gene is upregulated in lung cancer tissues, where the encoded protein causes an accumulation of beta-catenin and enhanced lung cancer cell invasion. In addition, the encoded protein can be secreted and be involved in resistance to insulin. [provided by RefSeq, Jul 2016]
Expression
Ubiquitous expression in fat (RPKM 5.0), kidney (RPKM 4.8) and 25 other tissues See more
Orthologs

Genomic context

See ZBED3 in Genome Data Viewer
Location:
5q13.3
Exon count:
4
Annotation release Status Assembly Chr Location
109.20200228 current GRCh38.p13 (GCF_000001405.39) 5 NC_000005.10 (77072072..77087285, complement)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 5 NC_000005.9 (76372532..76383030, complement)

Chromosome 5 - NC_000005.10Genomic Context describing neighboring genes Neighboring gene S100 calcium binding protein Z Neighboring gene corticotropin releasing hormone binding protein Neighboring gene angiogenic factor with G-patch and FHA domains 1 Neighboring gene ZBED3 antisense RNA 1 Neighboring gene small nucleolar RNA, H/ACA box 47 Neighboring gene high mobility group box 1 pseudogene 35 Neighboring gene phosphodiesterase 8B Neighboring gene aldehyde dehydrogenase 7 family member A1 pseudogene 1

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?

Phenotypes

NHGRI GWAS Catalog

Description
Twelve type 2 diabetes susceptibility loci identified through large-scale association analysis.
NHGRI GWA Catalog

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Homology

Clone Names

  • MGC15435

Gene Ontology Provided by GOA

Function Evidence Code Pubs
DNA binding IEA
Inferred from Electronic Annotation
more info
 
DNA-binding transcription factor activity, RNA polymerase II-specific ISA
Inferred from Sequence Alignment
more info
 
DNA-binding transcription factor activity, RNA polymerase II-specific ISM
Inferred from Sequence Model
more info
PubMed 
metal ion binding IEA
Inferred from Electronic Annotation
more info
 
Process Evidence Code Pubs
Wnt signaling pathway IEA
Inferred from Electronic Annotation
more info
 
negative regulation of protein phosphorylation ISS
Inferred from Sequence or Structural Similarity
more info
 
positive regulation of canonical Wnt signaling pathway IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
positive regulation of canonical Wnt signaling pathway ISS
Inferred from Sequence or Structural Similarity
more info
 
positive regulation of transcription by RNA polymerase II IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
positive regulation of transcription by RNA polymerase II ISS
Inferred from Sequence or Structural Similarity
more info
 
protein stabilization ISS
Inferred from Sequence or Structural Similarity
more info
 
Component Evidence Code Pubs
cytosol ISS
Inferred from Sequence or Structural Similarity
more info
 
membrane ISS
Inferred from Sequence or Structural Similarity
more info
 
nuclear chromatin ISA
Inferred from Sequence Alignment
more info
 

General protein information

Preferred Names
zinc finger BED domain-containing protein 3
Names
2610005H11Rik
axin-interacting protein
zinc finger, BED domain containing 3

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.

mRNA and Protein(s)

  1. NM_001329564.2NP_001316493.1  zinc finger BED domain-containing protein 3

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) differs in the 5' UTR compared to variant 1. Variants 1 and 2 both encode the same protein.
    Source sequence(s)
    AC008581, BC007239, BF508552, BY798736, DN998543
    Consensus CDS
    CCDS4036.1
    UniProtKB/Swiss-Prot
    Q96IU2
    Conserved Domains (1) summary
    smart00614
    Location:47100
    ZnF_BED; BED zinc finger
  2. NM_032367.4NP_115743.1  zinc finger BED domain-containing protein 3

    See identical proteins and their annotated locations for NP_115743.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) represents the longest transcript. Variants 1 and 2 both encode the same protein.
    Source sequence(s)
    AC008581, BC007239, BF508552, DN998543
    Consensus CDS
    CCDS4036.1
    UniProtKB/Swiss-Prot
    Q96IU2
    Related
    ENSP00000255198.2, ENST00000255198.3
    Conserved Domains (1) summary
    smart00614
    Location:47100
    ZnF_BED; BED zinc finger

RNA

  1. NR_138050.2 RNA Sequence

    Status: REVIEWED

    Description
    Transcript Variant: This variant (3) differs in the 3' end compared to variant 1. This variant is represented as non-coding because it lacks the entire coding region compared to variant 1.
    Source sequence(s)
    AC008581

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_000005.10 Reference GRCh38.p13 Primary Assembly

    Range
    77072072..77087285 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
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