Format

Send to:

Choose Destination

Links from GEO Profiles

    • Showing Current items.

    Rad54b RAD54 homolog B (S. cerevisiae) [ Mus musculus (house mouse) ]

    Gene ID: 623474, updated on 9-Dec-2024

    Summary

    Go to the top of the page Help
    Official Symbol
    Rad54bprovided by MGI
    Official Full Name
    RAD54 homolog B (S. cerevisiae)provided by MGI
    Primary source
    MGI:MGI:3605986
    See related
    Ensembl:ENSMUSG00000078773 AllianceGenome:MGI:3605986
    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
    E130016E03Rik
    Summary
    Predicted to enable DNA translocase activity. Acts upstream of or within several processes, including determination of adult lifespan; double-strand break repair via homologous recombination; and response to ionizing radiation. Predicted to be active in nucleus. Is expressed in several structures, including alimentary system; brain; genitourinary system; respiratory system; and sensory organ. Human ortholog(s) of this gene implicated in colorectal cancer and non-Hodgkin lymphoma. Orthologous to human RAD54B (RAD54 homolog B). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in CNS E11.5 (RPKM 3.4), limb E14.5 (RPKM 2.3) and 14 other tissues See more
    Orthologs
    human all
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    Go to the top of the page Help
    See Rad54b in Genome Data Viewer
    Location:
    4 A1; 4 5.11 cM
    Exon count:
    16
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 4 NC_000070.7 (11558930..11615806)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 4 NC_000070.6 (11558920..11615808)

    Chromosome 4 - NC_000070.7Genomic Context describing neighboring genes Neighboring gene STARR-positive B cell enhancer ABC_E338 Neighboring gene vir like m6A methyltransferase associated Neighboring gene STARR-seq mESC enhancer starr_09600 Neighboring gene STARR-positive B cell enhancer ABC_E4614 Neighboring gene predicted gene, 53245 Neighboring gene predicted gene, 35693 Neighboring gene fibrinogen silencer binding protein Neighboring gene predicted gene 11832 Neighboring gene eukaryotic translation initiation factor pseudogene Neighboring gene STARR-seq mESC enhancer starr_09604 Neighboring gene predicted gene, 35884

    Genomic regions, transcripts, and products

    Go to the top of the page Help

    Go to nucleotide: Graphics FASTA GenBank

    Expression

    Go to the top of the page Help
    • 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

    Go to the top of the pageHelp

    Related articles in PubMed

    1. Susceptibility to DNA damage caused by abrogation of Rad54 homolog B: A putative mechanism for chemically induced cleft palate. Qiao W, et al. Toxicology, 2021 May 30. PMID 33823233
    2. RAD54B inhibits vascular endothelial senescence via suppression of CHK1/p53/p21 pathway. Mai Y, et al. Can J Physiol Pharmacol, 2024 Feb 1. PMID 37748205
    3. Somatic hypermutation does not require Rad54 and Rad54B-mediated homologous recombination. Bross L, et al. Eur J Immunol, 2003 Feb. PMID 12548566
    4. Genetic probing of homologous recombination and non-homologous end joining during meiotic prophase in irradiated mouse spermatocytes. Ahmed EA, et al. Mutat Res, 2010 Jun 1. PMID 20167225
    5. DNA double-strand break repair in parental chromatin of mouse zygotes, the first cell cycle as an origin of de novo mutation. Derijck A, et al. Hum Mol Genet, 2008 Jul 1. PMID 18353795

    See all (32) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. RAD54B inhibits vascular endothelial senescence via suppression of CHK1/p53/p21 pathway.
      Title: RAD54B inhibits vascular endothelial senescence via suppression of CHK1/p53/p21 pathway.
    2. Susceptibility to DNA damage caused by abrogation of Rad54 homolog B: A putative mechanism for chemically induced cleft palate.
      Title: Susceptibility to DNA damage caused by abrogation of Rad54 homolog B: A putative mechanism for chemically induced cleft palate.
    3. Rad54/Rad54B deficiency may impact on the DNA integrity of developing mouse gametes.
      Title: Rad54/Rad54B deficiency is associated to increased chromosome breakage in mouse spermatocytes.
    Submit: New GeneRIF Correction

    Variation

    Go to the top of the page Help

    Alleles

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

    Pathways from PubChem

    Go to the top of the page

    Interactions

    Go to the top of the page Help
    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Go to the top of the page Help

    Markers

    Homology

    Clone Names

    • MGC67261

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables ATP binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables DNA binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables DNA translocase activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables DNA translocase activity ISO
    Inferred from Sequence Orthology
    more info
    		 PubMed 
    enables helicase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables hydrolase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    acts_upstream_of_or_within DNA damage response IGI
    Inferred from Genetic Interaction
    more info
    		 PubMed 
    acts_upstream_of_or_within DNA damage response IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within determination of adult lifespan IGI
    Inferred from Genetic Interaction
    more info
    		 PubMed 
    involved_in double-strand break repair via homologous recombination IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    acts_upstream_of_or_within double-strand break repair via homologous recombination IGI
    Inferred from Genetic Interaction
    more info
    		 PubMed 
    acts_upstream_of_or_within double-strand break repair via homologous recombination IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within double-strand break repair via homologous recombination ISO
    Inferred from Sequence Orthology
    more info
    		 PubMed 
    involved_in reciprocal meiotic recombination IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    acts_upstream_of_or_within response to ionizing radiation IGI
    Inferred from Genetic Interaction
    more info
    		 PubMed 
    acts_upstream_of_or_within response to ionizing radiation IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within response to xenobiotic stimulus IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    Component Evidence Code Pubs
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in nucleus IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

    Go to the top of the page Help
    Preferred Names
    DNA repair and recombination protein RAD54B

    NCBI Reference Sequences (RefSeq)

    Go to the top of the page Help

    NEW Try the new Transcript table

    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_001039556.4 → NP_001034645.1  DNA repair and recombination protein RAD54B isoform 1

      See identical proteins and their annotated locations for NP_001034645.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (1).
      Source sequence(s)
      AL732538
      Consensus CDS
      CCDS17970.1
      UniProtKB/Swiss-Prot
      A2AIV0, Q6PFE3
      Related
      ENSMUSP00000066977.7, ENSMUST00000070755.13
      Conserved Domains (4) summary
      cd00046
      Location:299 → 440
      DEXDc; DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.
      pfam00176
      Location:277 → 576
      SNF2_N; SNF2 family N-terminal domain
      pfam00271
      Location:619 → 736
      Helicase_C; Helicase conserved C-terminal domain
      pfam11496
      Location:531 → 807
      HDA2-3; Class II histone deacetylase complex subunits 2 and 3

    2. NM_001256145.2 → NP_001243074.1  DNA repair and recombination protein RAD54B isoform 2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) lacks several 3' exons but has an alternate 3' exon, and it thus differs in the 3' coding region and 3' UTR, compared to variant 1. The encoded isoform (2) has a distinct C-terminus and is significantly shorter than isoform 1.
      Source sequence(s)
      AL732538
      Consensus CDS
      CCDS57262.1
      UniProtKB/TrEMBL
      A0A0A0MQB1, A2AIU9
      Related
      ENSMUSP00000092767.6, ENSMUST00000095145.12

    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_000070.7 Reference GRCm39 C57BL/6J

      Range
      11558930..11615806
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Suppressed Reference Sequence(s)

    The following Reference Sequences have been suppressed. Explain

    1. NM_177285.1: Suppressed sequence

      Description
      NM_177285.1: This RefSeq was permanently suppressed because currently there is insufficient support for the transcript and the protein.
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q6PFE3.1 GenPept UniProtKB/Swiss-Prot:Q6PFE3

    Gene LinkOut

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

    Chemical Information
    Molecular Biology Databases
    Research Materials
    Tools