U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination
    • Showing Current items.

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

    Gene ID: 319583, updated on 27-Nov-2024

    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 AllianceGenome:MGI:1335098
    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
    tiny; 5830471N16Rik
    Summary
    Enables ATP binding activity and DNA ligase (ATP) activity. Involved in double-strand break repair via nonhomologous end joining. Acts upstream of or within several processes, including DNA metabolic process; hemopoiesis; and response to gamma radiation. Part of DNA-dependent protein kinase-DNA ligase 4 complex. Is expressed in liver and metanephros. Used to study DNA ligase IV deficiency. Human ortholog(s) of this gene implicated in several diseases, including DNA ligase IV deficiency; colorectal cancer; multiple myeloma; pancreatic cancer; and prostate cancer. Orthologous to human LIG4 (DNA ligase 4). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Ubiquitous expression in thymus adult (RPKM 7.2), testis adult (RPKM 3.8) and 28 other tissues See more
    Orthologs
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    See Lig4 in Genome Data Viewer
    Location:
    8 A1.1; 8 4.52 cM
    Exon count:
    3
    Annotation release Status Assembly Chr Location
    RS_2024_02 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)

    Chromosome 8 - NC_000074.7Genomic Context describing neighboring genes Neighboring gene STARR-seq mESC enhancer starr_20682 Neighboring gene predicted gene, 39128 Neighboring gene NALCN channel auxiliary factor 1 Neighboring gene STARR-seq mESC enhancer starr_20686 Neighboring gene STARR-seq mESC enhancer starr_20687 Neighboring gene STARR-seq mESC enhancer starr_20688 Neighboring gene STARR-seq mESC enhancer starr_20691 Neighboring gene STARR-seq mESC enhancer starr_20692 Neighboring gene STARR-seq mESC enhancer starr_20693 Neighboring gene CapStarr-seq enhancer MGSCv37_chr8:9912234-9912417 Neighboring gene STARR-seq mESC enhancer starr_20694 Neighboring gene STARR-positive B cell enhancer ABC_E8225 Neighboring gene STARR-positive B cell enhancer ABC_E10489 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)
    • Chemically induced (ENU) (3) 
    • Endonuclease-mediated (1) 
    • Targeted (6)  1 citation

    Pathways from PubChem

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables ATP binding IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    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
     
    enables DNA binding IEA
    Inferred from Electronic Annotation
    more info
     
    enables DNA binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables DNA ligase (ATP) activity IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    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 magnesium ion binding IEA
    Inferred from Electronic Annotation
    more info
     
    enables magnesium ion binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    Process Evidence Code Pubs
    acts_upstream_of_or_within DN2 thymocyte differentiation IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    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 
    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 repair 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
     
    involved_in cell division IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in cellular response to ionizing radiation IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in cellular response to ionizing radiation ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in cellular response to lithium ion IEA
    Inferred from Electronic Annotation
    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 IEA
    Inferred from Electronic Annotation
    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
     
    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
     
    acts_upstream_of fibroblast proliferation IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    acts_upstream_of_or_within fibroblast proliferation IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in immunoglobulin V(D)J recombination IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    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 neurogenesis IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    acts_upstream_of neuron apoptotic process IGI
    Inferred from Genetic Interaction
    more info
    PubMed 
    acts_upstream_of_or_within neuron apoptotic process IGI
    Inferred from Genetic Interaction
    more info
    PubMed 
    acts_upstream_of neuron apoptotic process IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in nucleotide-excision repair, DNA gap filling IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in nucleotide-excision repair, DNA gap filling IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in nucleotide-excision repair, DNA gap filling ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in positive regulation of chromosome organization IEA
    Inferred from Electronic Annotation
    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 IEA
    Inferred from Electronic Annotation
    more info
     
    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 IEA
    Inferred from Electronic Annotation
    more info
     
    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 
    acts_upstream_of_or_within stem cell proliferation 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
     
    part_of DNA ligase IV complex IEA
    Inferred from Electronic Annotation
    more info
     
    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
     
    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 IEA
    Inferred from Electronic Annotation
    more info
     
    located_in condensed chromosome ISO
    Inferred from Sequence Orthology
    more info
     
    located_in intracellular membrane-bounded organelle ISO
    Inferred from Sequence Orthology
    more info
     
    part_of nonhomologous end joining complex ISO
    Inferred from Sequence Orthology
    more info
     
    part_of nonhomologous end joining complex ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    located_in nucleoplasm IEA
    Inferred from Electronic Annotation
    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
      UniProtKB/Swiss-Prot
      G3UWC4, Q3UG76, Q8BTF7
      UniProtKB/TrEMBL
      Q8BTF5
      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
      G3UWC4, Q3UG76, Q8BTF7
      UniProtKB/TrEMBL
      Q8BTF5
      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: 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_000074.7 Reference GRCm39 C57BL/6J

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