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Zbed4 zinc finger, BED type containing 4 [ Mus musculus (house mouse) ]

Gene ID: 223773, updated on 18-Apr-2024

Summary

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Official Symbol
Zbed4provided by MGI
Official Full Name
zinc finger, BED type containing 4provided by MGI
Primary source
MGI:MGI:2682302
See related
Ensembl:ENSMUSG00000034333 AllianceGenome:MGI:2682302
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Mus musculus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Also known as
1700009F06Rik
Summary
Enables RNA binding activity and transcription cis-regulatory region binding activity. Involved in positive regulation of transcription by RNA polymerase II. Located in cytoplasm and nucleus. Is expressed in several structures, including adipose tissue; alimentary system; genitourinary system; immune system; and nervous system. Orthologous to human ZBED4 (zinc finger BED-type containing 4). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Ubiquitous expression in thymus adult (RPKM 12.7), testis adult (RPKM 9.3) and 28 other tissues See more
Orthologs
human all
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Genomic context

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Location:
15 E3; 15 44.24 cM
Exon count:
4
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 15 NC_000081.7 (88635856..88668719)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 15 NC_000081.6 (88751662..88784516)

Chromosome 15 - NC_000081.7Genomic Context describing neighboring genes Neighboring gene predicted gene, 35997 Neighboring gene bromodomain containing 1 Neighboring gene STARR-seq mESC enhancer starr_39439 Neighboring gene STARR-positive B cell enhancer ABC_E9918 Neighboring gene STARR-positive B cell enhancer ABC_E5507 Neighboring gene STARR-seq mESC enhancer starr_39444 Neighboring gene STARR-positive B cell enhancer ABC_E391 Neighboring gene ALG12 alpha-1,6-mannosyltransferase Neighboring gene cysteine-rich with EGF-like domains 2

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: Mouse ENCODE transcriptome data
  • Description: RNA profiling data sets generated by the Mouse ENCODE project.
  • BioProject: PRJNA66167
  • Publication: PMID 25409824
  • Analysis date: n/a

Bibliography

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Related articles in PubMed

  1. ZBED4, a BED-type zinc-finger protein in the cones of the human retina. Saghizadeh M, et al. Invest Ophthalmol Vis Sci, 2009 Aug. PMID 19369242, Free PMC Article
  2. Sequence-specific binding of recombinant Zbed4 to DNA: insights into Zbed4 participation in gene transcription and its association with other proteins. Mokhonov VV, et al. PLoS One, 2012. PMID 22693546, Free PMC Article
  3. ZBED4, a cone and Müller cell protein in human retina, has a different cellular expression in mouse. Saghizadeh M, et al. Mol Vis, 2011. PMID 21850176, Free PMC Article
  4. Telencephalic embryonic subtractive sequences: a unique collection of neurodevelopmental genes. Bulfone A, et al. J Neurosci, 2005 Aug 17. PMID 16107646, Free PMC Article
  5. Prediction of the coding sequences of mouse homologues of KIAA gene: II. The complete nucleotide sequences of 400 mouse KIAA-homologous cDNAs identified by screening of terminal sequences of cDNA clones randomly sampled from size-fractionated libraries. Okazaki N, et al. DNA Res, 2003 Feb 28. PMID 12693553

See all (24) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. structural and functional properties of Zbed4
    Title: Sequence-specific binding of recombinant Zbed4 to DNA: insights into Zbed4 participation in gene transcription and its association with other proteins.
  2. The patterns of spatial and temporal expression of Zbed4 in the mouse retina suggest a possible involvement of this protein in retinal morphogenesis and Muller cell function.
    Title: ZBED4, a cone and Müller cell protein in human retina, has a different cellular expression in mouse.
Submit: New GeneRIF Correction

Variation

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Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)
  • Endonuclease-mediated (1) 
  • Targeted (2) 

General gene information

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Markers

Homology

Clone Names

  • MGC59429

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables DNA binding IEA
Inferred from Electronic Annotation
more info
  
enables DNA-binding transcription activator activity, RNA polymerase II-specific IDA
Inferred from Direct Assay
more info
 PubMed 
enables RNA binding IDA
Inferred from Direct Assay
more info
 PubMed 
enables RNA polymerase II transcription regulatory region sequence-specific DNA binding IDA
Inferred from Direct Assay
more info
 PubMed 
enables identical protein binding ISO
Inferred from Sequence Orthology
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 IDA
Inferred from Direct Assay
more info
 PubMed 
Process Evidence Code Pubs
involved_in positive regulation of transcription by RNA polymerase II IDA
Inferred from Direct Assay
more info
 PubMed 
Component Evidence Code Pubs
located_in cytoplasm IDA
Inferred from Direct Assay
more info
 PubMed 
located_in cytoplasm ISO
Inferred from Sequence Orthology
more info
  
located_in nucleoplasm ISO
Inferred from Sequence Orthology
more info
  
located_in nucleus IDA
Inferred from Direct Assay
more info
 PubMed 
located_in nucleus ISO
Inferred from Sequence Orthology
more info
  

General protein information

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Preferred Names
zinc finger BED domain-containing protein 4
Names
zinc finger, BED domain containing 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_181412.4 → NP_852077.1  zinc finger BED domain-containing protein 4

    See identical proteins and their annotated locations for NP_852077.1

    Status: VALIDATED

    Source sequence(s)
    AC117700
    Consensus CDS
    CCDS27731.1
    UniProtKB/Swiss-Prot
    Q3UPJ9, Q80TV3, Q80WQ9, Q8R329
    Related
    ENSMUSP00000035437.9, ENSMUST00000041297.15
    Conserved Domains (2) summary
    pfam02892
    Location:460 → 506
    zf-BED; BED zinc finger
    pfam05699
    Location:1085 → 1134
    Dimer_Tnp_hAT; hAT family C-terminal dimerization region

RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

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

Reference GRCm39 C57BL/6J

Genomic

  1. NC_000081.7 Reference GRCm39 C57BL/6J

    Range
    88635856..88668719
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006520840.5 → XP_006520903.1  zinc finger BED domain-containing protein 4 isoform X1

    See identical proteins and their annotated locations for XP_006520903.1

    UniProtKB/Swiss-Prot
    Q3UPJ9, Q80TV3, Q80WQ9, Q8R329
    Conserved Domains (2) summary
    pfam02892
    Location:460 → 506
    zf-BED; BED zinc finger
    pfam05699
    Location:1085 → 1134
    Dimer_Tnp_hAT; hAT family C-terminal dimerization region

  2. XM_006520841.5 → XP_006520904.1  zinc finger BED domain-containing protein 4 isoform X1

    See identical proteins and their annotated locations for XP_006520904.1

    UniProtKB/Swiss-Prot
    Q3UPJ9, Q80TV3, Q80WQ9, Q8R329
    Conserved Domains (2) summary
    pfam02892
    Location:460 → 506
    zf-BED; BED zinc finger
    pfam05699
    Location:1085 → 1134
    Dimer_Tnp_hAT; hAT family C-terminal dimerization region

  3. XM_030248511.1 → XP_030104371.1  zinc finger BED domain-containing protein 4 isoform X1

    UniProtKB/Swiss-Prot
    Q3UPJ9, Q80TV3, Q80WQ9, Q8R329
    Conserved Domains (2) summary
    pfam02892
    Location:460 → 506
    zf-BED; BED zinc finger
    pfam05699
    Location:1085 → 1134
    Dimer_Tnp_hAT; hAT family C-terminal dimerization region
Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q80WQ9.1 GenPept UniProtKB/Swiss-Prot:Q80WQ9

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