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Bend3 BEN domain containing 3 [ Mus musculus (house mouse) ]

Gene ID: 331623, updated on 11-Apr-2024

Summary

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Official Symbol
Bend3provided by MGI
Official Full Name
BEN domain containing 3provided by MGI
Primary source
MGI:MGI:2677212
See related
Ensembl:ENSMUSG00000038214 AllianceGenome:MGI:2677212
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
mKIAA1553
Summary
Predicted to enable rDNA binding activity. Predicted to be involved in several processes, including histone modification; negative regulation of macromolecule metabolic process; and protein homooligomerization. Predicted to act upstream of or within chromatin organization. Predicted to be located in heterochromatin; nucleolus; and nucleoplasm. Orthologous to human BEND3 (BEN domain containing 3). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Ubiquitous expression in CNS E11.5 (RPKM 3.0), limb E14.5 (RPKM 2.1) and 28 other tissues See more
Orthologs
human all
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Genomic context

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See Bend3 in Genome Data Viewer
Location:
10 B2; 10 23.0 cM
Exon count:
8
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 10 NC_000076.7 (43355130..43391413)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 10 NC_000076.6 (43479134..43515417)

Chromosome 10 - NC_000076.7Genomic Context describing neighboring genes Neighboring gene prenyl (solanesyl) diphosphate synthase, subunit 2 Neighboring gene STARR-positive B cell enhancer mm9_chr10:43098751-43099051 Neighboring gene ribosomal protein S19, pseudogene 11 Neighboring gene STARR-seq mESC enhancer starr_26505 Neighboring gene STARR-positive B cell enhancer mm9_chr10:43137256-43137557 Neighboring gene STARR-positive B cell enhancer ABC_E9031 Neighboring gene STARR-seq mESC enhancer starr_26511 Neighboring gene ribosomal protein L41 pseudogene Neighboring gene predicted gene, 47889 Neighboring gene presequence translocase associated motor 16 like

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. Highly enriched BEND3 prevents the premature activation of bivalent genes during differentiation. Zhang J, et al. Science, 2022 Mar 4. PMID 35143257
  2. Redundant mechanisms to form silent chromatin at pericentromeric regions rely on BEND3 and DNA methylation. Saksouk N, et al. Mol Cell, 2014 Nov 20. PMID 25457167
  3. H3K27me3 at pericentromeric heterochromatin is a defining feature of the early mouse blastocyst. Pailles M, et al. Sci Rep, 2022 Aug 16. PMID 35974030, Free PMC Article
  4. An Oct4-centered protein interaction network in embryonic stem cells. van den Berg DLC, et al. Cell Stem Cell, 2010 Apr 2. PMID 20362541, 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 (22) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. Highly enriched BEND3 prevents the premature activation of bivalent genes during differentiation.
    Title: Highly enriched BEND3 prevents the premature activation of bivalent genes during differentiation.
  2. BEND3 is a key factor in mediating a switch from constitutive to facultative heterochromatin.
    Title: Redundant mechanisms to form silent chromatin at pericentromeric regions rely on BEND3 and DNA methylation.
Submit: New GeneRIF Correction

Variation

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Alleles

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

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 MGI

Function Evidence Code Pubs
enables DNA binding IEA
Inferred from Electronic Annotation
more info
  
enables rDNA binding IBA
Inferred from Biological aspect of Ancestor
more info
  
enables rDNA binding ISO
Inferred from Sequence Orthology
more info
  
Process Evidence Code Pubs
involved_in DNA methylation-dependent heterochromatin formation ISO
Inferred from Sequence Orthology
more info
  
acts_upstream_of_or_within chromatin organization IEA
Inferred from Electronic Annotation
more info
  
involved_in negative regulation of transcription by RNA polymerase II IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in negative regulation of transcription by RNA polymerase II ISO
Inferred from Sequence Orthology
more info
  
involved_in positive regulation of ATP metabolic process ISO
Inferred from Sequence Orthology
more info
  
involved_in protein homooligomerization ISO
Inferred from Sequence Orthology
more info
  
involved_in rDNA heterochromatin formation IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in rDNA heterochromatin formation ISO
Inferred from Sequence Orthology
more info
  
Component Evidence Code Pubs
part_of heterochromatin ISO
Inferred from Sequence Orthology
more info
  
located_in nucleolus ISO
Inferred from Sequence Orthology
more info
  
located_in nucleoplasm ISO
Inferred from Sequence Orthology
more info
  
located_in nucleus IEA
Inferred from Electronic Annotation
more info
  

General protein information

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Preferred Names
BEN domain-containing protein 3

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_001359600.1 → NP_001346529.1  BEN domain-containing protein 3

    Status: VALIDATED

    Source sequence(s)
    AK122525, AK143099, BY732040
    Consensus CDS
    CCDS35892.1
    UniProtKB/Swiss-Prot
    Q6PAL0, Q80TC0
    Conserved Domains (1) summary
    smart01025
    Location:734 → 813
    BEN; The BEN domain is found in diverse animal proteins

  2. NM_001359601.1 → NP_001346530.1  BEN domain-containing protein 3

    Status: VALIDATED

    Source sequence(s)
    AC121926, AK122525, AK143099, BY732040
    Consensus CDS
    CCDS35892.1
    UniProtKB/Swiss-Prot
    Q6PAL0, Q80TC0
    Conserved Domains (1) summary
    smart01025
    Location:734 → 813
    BEN; The BEN domain is found in diverse animal proteins

  3. NM_199028.2 → NP_950193.1  BEN domain-containing protein 3

    See identical proteins and their annotated locations for NP_950193.1

    Status: VALIDATED

    Source sequence(s)
    AK122525, BC060240
    Consensus CDS
    CCDS35892.1
    UniProtKB/Swiss-Prot
    Q6PAL0, Q80TC0
    Related
    ENSMUSP00000127351.2, ENSMUST00000167488.9
    Conserved Domains (1) summary
    smart01025
    Location:734 → 813
    BEN; The BEN domain is found in diverse animal proteins

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_000076.7 Reference GRCm39 C57BL/6J

    Range
    43355130..43391413
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_030245146.2 → XP_030101006.1  BEN domain-containing protein 3 isoform X1

    UniProtKB/Swiss-Prot
    Q6PAL0, Q80TC0
    Conserved Domains (1) summary
    smart01025
    Location:734 → 813
    BEN; The BEN domain is found in diverse animal proteins

  2. XM_006512770.5 → XP_006512833.1  BEN domain-containing protein 3 isoform X1

    See identical proteins and their annotated locations for XP_006512833.1

    UniProtKB/Swiss-Prot
    Q6PAL0, Q80TC0
    Conserved Domains (1) summary
    smart01025
    Location:734 → 813
    BEN; The BEN domain is found in diverse animal proteins

  3. XM_030245147.2 → XP_030101007.1  BEN domain-containing protein 3 isoform X1

    UniProtKB/Swiss-Prot
    Q6PAL0, Q80TC0
    Conserved Domains (1) summary
    smart01025
    Location:734 → 813
    BEN; The BEN domain is found in diverse animal proteins
Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q6PAL0.1 GenPept UniProtKB/Swiss-Prot:Q6PAL0

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