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    Lig4 ligase IV, DNA, ATP-dependent [ Mus musculus (house mouse) ]

    Gene ID: 319583, updated on 8-Jul-2021

    Summary

    Official Symbol
    Lig4provided by MGI
    Official Full Name
    ligase IV, DNA, ATP-dependentprovided by MGI
    Primary source
    MGI:MGI:1335098
    See related
    Ensembl:ENSMUSG00000049717
    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
    ti; tiny; 5830471N16Rik
    Expression
    Ubiquitous expression in thymus adult (RPKM 7.2), testis adult (RPKM 3.8) and 28 other tissues See more
    Orthologs
    NEW
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    Genomic context

    See Lig4 in Genome Data Viewer
    Location:
    8; 8 A1.1
    Exon count:
    3
    Annotation release Status Assembly Chr Location
    109 current GRCm39 (GCF_000001635.27) 8 NC_000074.7 (10020020..10027680, complement)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 8 NC_000074.6 (9970020..9977680, complement)
    Build 37.2 previous assembly MGSCv37 (GCF_000001635.18) 8 NC_000074.5 (9970020..9976323, complement)

    Chromosome 8 - NC_000074.7Genomic Context describing neighboring genes Neighboring gene predicted gene, 39128 Neighboring gene NALCN channel auxiliary factor 1 Neighboring gene abhydrolase domain containing 13 Neighboring gene tumor necrosis factor (ligand) superfamily, member 13b

    Genomic regions, transcripts, and products

    Expression

    • 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

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?

    Variation

    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)
    • Targeted (5)  1 citation
    • Chemically induced (ENU) (3) 

    Pathways from PubChem

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Homology

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables ATP binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    enables ATP binding IDA
    Inferred from Direct Assay
    more info
    PubMed 
    enables ATP binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables DNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    enables DNA binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables DNA ligase (ATP) activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    enables DNA ligase (ATP) activity IDA
    Inferred from Direct Assay
    more info
    PubMed 
    enables DNA ligase (ATP) activity ISO
    Inferred from Sequence Orthology
    more info
     
    enables DNA ligase activity ISO
    Inferred from Sequence Orthology
    more info
     
    enables ligase activity ISO
    Inferred from Sequence Orthology
    more info
     
    enables metal ion binding IEA
    Inferred from Electronic Annotation
    more info
     
    enables nucleotide binding IEA
    Inferred from Electronic Annotation
    more info
     
    enables protein C-terminus binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    Process Evidence Code Pubs
    involved_in DNA biosynthetic process IEA
    Inferred from Electronic Annotation
    more info
     
    acts_upstream_of_or_within DNA ligation IDA
    Inferred from Direct Assay
    more info
    PubMed 
    acts_upstream_of_or_within DNA ligation IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in DNA ligation ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within DNA ligation involved in DNA recombination IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in DNA ligation involved in DNA repair IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    acts_upstream_of_or_within DNA ligation involved in DNA repair IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in DNA ligation involved in DNA repair ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within DNA recombination IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in DNA recombination IEA
    Inferred from Electronic Annotation
    more info
     
    acts_upstream_of_or_within DNA repair IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    acts_upstream_of_or_within DNA replication IEA
    Inferred from Electronic Annotation
    more info
     
    acts_upstream_of_or_within T cell differentiation in thymus IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    acts_upstream_of_or_within T cell receptor V(D)J recombination IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    acts_upstream_of_or_within V(D)J recombination IDA
    Inferred from Direct Assay
    more info
    PubMed 
    acts_upstream_of_or_within V(D)J recombination IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in V(D)J recombination ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within cell cycle IEA
    Inferred from Electronic Annotation
    more info
     
    acts_upstream_of_or_within cell division IEA
    Inferred from Electronic Annotation
    more info
     
    acts_upstream_of_or_within cell population proliferation IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    acts_upstream_of_or_within cellular response to DNA damage stimulus IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in cellular response to ionizing radiation ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within central nervous system development IGI
    Inferred from Genetic Interaction
    more info
    PubMed 
    acts_upstream_of_or_within central nervous system development IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    acts_upstream_of_or_within chromosome organization IGI
    Inferred from Genetic Interaction
    more info
    PubMed 
    acts_upstream_of_or_within double-strand break repair IGI
    Inferred from Genetic Interaction
    more info
    PubMed 
    acts_upstream_of_or_within double-strand break repair IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in double-strand break repair ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in double-strand break repair via classical nonhomologous end joining ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in double-strand break repair via nonhomologous end joining IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    acts_upstream_of_or_within double-strand break repair via nonhomologous end joining IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in double-strand break repair via nonhomologous end joining IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in double-strand break repair via nonhomologous end joining ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in immunoglobulin V(D)J recombination IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    acts_upstream_of_or_within immunoglobulin V(D)J recombination IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    acts_upstream_of_or_within in utero embryonic development IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    acts_upstream_of_or_within isotype switching IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    acts_upstream_of_or_within negative regulation of neuron apoptotic process IGI
    Inferred from Genetic Interaction
    more info
    PubMed 
    acts_upstream_of_or_within negative regulation of neuron apoptotic process IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    acts_upstream_of_or_within neuron apoptotic process IGI
    Inferred from Genetic Interaction
    more info
    PubMed 
    involved_in nucleotide-excision repair, DNA gap filling IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    involved_in nucleotide-excision repair, DNA gap filling ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in positive regulation of chromosome organization ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within positive regulation of fibroblast proliferation IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    acts_upstream_of_or_within positive regulation of neurogenesis IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    acts_upstream_of_or_within pro-B cell differentiation IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in response to X-ray ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within response to gamma radiation IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    acts_upstream_of_or_within response to ionizing radiation IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in single strand break repair ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within somatic stem cell population maintenance IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    Component Evidence Code Pubs
    part_of DNA ligase IV complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    part_of DNA ligase IV complex ISO
    Inferred from Sequence Orthology
    more info
     
    part_of DNA-dependent protein kinase-DNA ligase 4 complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    part_of DNA-dependent protein kinase-DNA ligase 4 complex IDA
    Inferred from Direct Assay
    more info
    PubMed 
    part_of DNA-dependent protein kinase-DNA ligase 4 complex ISO
    Inferred from Sequence Orthology
    more info
     
    located_in condensed chromosome ISO
    Inferred from Sequence Orthology
    more info
     
    located_in cytoplasmic ribonucleoprotein granule ISO
    Inferred from Sequence Orthology
    more info
     
    part_of nonhomologous end joining complex ISO
    Inferred from Sequence Orthology
    more info
     
    located_in nucleoplasm ISO
    Inferred from Sequence Orthology
    more info
     
    is_active_in nucleus ISO
    Inferred from Sequence Orthology
    more info
     
    located_in nucleus ISO
    Inferred from Sequence Orthology
    more info
     

    General protein information

    Preferred Names
    DNA ligase 4
    Names
    DNA ligase IV
    polydeoxyribonucleotide synthase [ATP] 4
    NP_001363971.1
    NP_795927.2

    NCBI Reference Sequences (RefSeq)

    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_001377042.1NP_001363971.1  DNA ligase 4

      Status: VALIDATED

      Source sequence(s)
      AC138397, AK030029
      Related
      ENSMUSP00000130807.2, ENSMUST00000170033.2
      Conserved Domains (4) summary
      TIGR00574
      Location:81602
      dnl1; DNA ligase I, ATP-dependent (dnl1)
      cd17717
      Location:813900
      BRCT_DNA_ligase_IV_rpt2; second BRCT domain of DNA ligase 4 (LIG4) and similar proteins
      cd17722
      Location:658745
      BRCT_DNA_ligase_IV_rpt1; first BRCT domain of DNA ligase 4 (LIG4) and similar proteins
      pfam11411
      Location:750782
      DNA_ligase_IV; DNA ligase IV
    2. NM_176953.4NP_795927.2  DNA ligase 4

      See identical proteins and their annotated locations for NP_795927.2

      Status: VALIDATED

      Source sequence(s)
      AC138397, AK030966, CJ088420
      Consensus CDS
      CCDS22092.1
      UniProtKB/Swiss-Prot
      Q8BTF7
      Related
      ENSMUSP00000093130.5, ENSMUST00000095476.6
      Conserved Domains (4) summary
      TIGR00574
      Location:81602
      dnl1; DNA ligase I, ATP-dependent (dnl1)
      cd17717
      Location:813900
      BRCT_DNA_ligase_IV_rpt2; second BRCT domain of DNA ligase 4 (LIG4) and similar proteins
      cd17722
      Location:658745
      BRCT_DNA_ligase_IV_rpt1; first BRCT domain of DNA ligase 4 (LIG4) and similar proteins
      pfam11411
      Location:750782
      DNA_ligase_IV; DNA ligase IV

    RefSeqs of Annotated Genomes: Mus musculus Annotation Release 109 details...Open this link in a new tab

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

    Reference GRCm39 C57BL/6J

    Genomic

    1. NC_000074.7 Reference GRCm39 C57BL/6J

      Range
      10020020..10027680 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
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