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LIG4 (DNA ligase 4)

Identity

Alias_namesligase IV
Other aliasLIG4S
HGNC (Hugo) LIG4
LocusID (NCBI) 3981
Atlas_Id 41156
Location 13q33.3  [Link to chromosome band 13q33]
Location_base_pair Starts at 108207444 and ends at 108218368 bp from pter ( according to hg38-Dec_2013)
Fusion genes
(updated 2016)
FKBP8 (19p13.11) / LIG4 (13q33.3)

Note

Non-annotated gene. Preliminary data : if you are an author
who wish to write a full paper/card on this gene, go to  How to contribute

DNA/RNA

 


External links

Nomenclature
HGNC (Hugo)LIG4   6601
LRG (Locus Reference Genomic)LRG_79
Cards
Entrez_Gene (NCBI)LIG4  3981  DNA ligase 4
AliasesLIG4S
GeneCards (Weizmann)LIG4
Ensembl hg19 (Hinxton)ENSG00000174405 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000174405 [Gene_View]  chr13:108207444-108218368 [Contig_View]  LIG4 [Vega]
ICGC DataPortalENSG00000174405
TCGA cBioPortalLIG4
AceView (NCBI)LIG4
Genatlas (Paris)LIG4
WikiGenes3981
SOURCE (Princeton)LIG4
Genetics Home Reference (NIH)LIG4
Genomic and cartography
GoldenPath hg38 (UCSC)LIG4  -     chr13:108207444-108218368 -  13q33.3   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)LIG4  -     13q33.3   [Description]    (hg19-Feb_2009)
EnsemblLIG4 - 13q33.3 [CytoView hg19]  LIG4 - 13q33.3 [CytoView hg38]
Mapping of homologs : NCBILIG4 [Mapview hg19]  LIG4 [Mapview hg38]
OMIM254500   601837   606593   
Gene and transcription
Genbank (Entrez)AI809944 AK292419 AK314844 BC037491 BX648833
RefSeq transcript (Entrez)NM_001098268 NM_001330595 NM_002312 NM_206937
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)LIG4
Cluster EST : UnigeneHs.166091 [ NCBI ]
CGAP (NCI)Hs.166091
Alternative Splicing GalleryENSG00000174405
Gene ExpressionLIG4 [ NCBI-GEO ]   LIG4 [ EBI - ARRAY_EXPRESS ]   LIG4 [ SEEK ]   LIG4 [ MEM ]
Gene Expression Viewer (FireBrowse)LIG4 [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevisibleExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)3981
GTEX Portal (Tissue expression)LIG4
Protein : pattern, domain, 3D structure
UniProt/SwissProtP49917   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtP49917  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProP49917
Splice isoforms : SwissVarP49917
PhosPhoSitePlusP49917
Domaine pattern : Prosite (Expaxy)BRCT (PS50172)    DNA_LIGASE_A1 (PS00697)    DNA_LIGASE_A2 (PS00333)    DNA_LIGASE_A3 (PS50160)   
Domains : Interpro (EBI)BRCT_dom    DNA_ligase_ATP-dep    DNA_ligase_ATP-dep_C    DNA_ligase_ATP-dep_cent    DNA_ligase_ATP-dep_CS    DNA_ligase_ATP-dep_N    DNA_ligase_IV_dom    LIG4    NA-bd_OB-fold   
Domain families : Pfam (Sanger)BRCT (PF00533)    DNA_ligase_A_C (PF04679)    DNA_ligase_A_M (PF01068)    DNA_ligase_A_N (PF04675)    DNA_ligase_IV (PF11411)   
Domain families : Pfam (NCBI)pfam00533    pfam04679    pfam01068    pfam04675    pfam11411   
Domain families : Smart (EMBL)BRCT (SM00292)  
Conserved Domain (NCBI)LIG4
DMDM Disease mutations3981
Blocks (Seattle)LIG4
PDB (SRS)1IK9    2E2W    3II6    3VNN    3W1B    3W1G    3W5O    4HTO    4HTP   
PDB (PDBSum)1IK9    2E2W    3II6    3VNN    3W1B    3W1G    3W5O    4HTO    4HTP   
PDB (IMB)1IK9    2E2W    3II6    3VNN    3W1B    3W1G    3W5O    4HTO    4HTP   
PDB (RSDB)1IK9    2E2W    3II6    3VNN    3W1B    3W1G    3W5O    4HTO    4HTP   
Structural Biology KnowledgeBase1IK9    2E2W    3II6    3VNN    3W1B    3W1G    3W5O    4HTO    4HTP   
SCOP (Structural Classification of Proteins)1IK9    2E2W    3II6    3VNN    3W1B    3W1G    3W5O    4HTO    4HTP   
CATH (Classification of proteins structures)1IK9    2E2W    3II6    3VNN    3W1B    3W1G    3W5O    4HTO    4HTP   
SuperfamilyP49917
Human Protein AtlasENSG00000174405
Peptide AtlasP49917
HPRD03500
IPIIPI00217669   
Protein Interaction databases
DIP (DOE-UCLA)P49917
IntAct (EBI)P49917
FunCoupENSG00000174405
BioGRIDLIG4
STRING (EMBL)LIG4
ZODIACLIG4
Ontologies - Pathways
QuickGOP49917
Ontology : AmiGOsingle strand break repair  nuclear chromosome, telomeric region  condensed chromosome  in utero embryonic development  pro-B cell differentiation  DNA binding  DNA ligase activity  DNA ligase activity  DNA ligase (ATP) activity  protein binding  ATP binding  nucleus  nucleoplasm  nucleoplasm  cytoplasm  cytosol  plasma membrane  focal adhesion  DNA-dependent protein kinase-DNA ligase 4 complex  DNA-dependent protein kinase-DNA ligase 4 complex  DNA ligation  lagging strand elongation  nucleotide-excision repair, DNA gap filling  double-strand break repair  double-strand break repair  double-strand break repair via nonhomologous end joining  double-strand break repair via nonhomologous end joining  double-strand break repair via nonhomologous end joining  double-strand break repair via nonhomologous end joining  double-strand break repair via nonhomologous end joining  cell cycle  central nervous system development  protein C-terminus binding  cell proliferation  response to X-ray  response to gamma radiation  ligase activity  DNA ligase IV complex  T cell differentiation in thymus  V(D)J recombination  immunoglobulin V(D)J recombination  T cell receptor V(D)J recombination  somatic stem cell population maintenance  negative regulation of neuron apoptotic process  isotype switching  metal ion binding  positive regulation of fibroblast proliferation  positive regulation of neurogenesis  DNA ligation involved in DNA recombination  DNA ligation involved in DNA repair  DNA ligation involved in DNA repair  chromosome organization  cell division  neuron apoptotic process  nonhomologous end joining complex  cellular response to lithium ion  DNA biosynthetic process  establishment of integrated proviral latency  double-strand break repair via classical nonhomologous end joining  positive regulation of chromosome organization  
Ontology : EGO-EBIsingle strand break repair  nuclear chromosome, telomeric region  condensed chromosome  in utero embryonic development  pro-B cell differentiation  DNA binding  DNA ligase activity  DNA ligase activity  DNA ligase (ATP) activity  protein binding  ATP binding  nucleus  nucleoplasm  nucleoplasm  cytoplasm  cytosol  plasma membrane  focal adhesion  DNA-dependent protein kinase-DNA ligase 4 complex  DNA-dependent protein kinase-DNA ligase 4 complex  DNA ligation  lagging strand elongation  nucleotide-excision repair, DNA gap filling  double-strand break repair  double-strand break repair  double-strand break repair via nonhomologous end joining  double-strand break repair via nonhomologous end joining  double-strand break repair via nonhomologous end joining  double-strand break repair via nonhomologous end joining  double-strand break repair via nonhomologous end joining  cell cycle  central nervous system development  protein C-terminus binding  cell proliferation  response to X-ray  response to gamma radiation  ligase activity  DNA ligase IV complex  T cell differentiation in thymus  V(D)J recombination  immunoglobulin V(D)J recombination  T cell receptor V(D)J recombination  somatic stem cell population maintenance  negative regulation of neuron apoptotic process  isotype switching  metal ion binding  positive regulation of fibroblast proliferation  positive regulation of neurogenesis  DNA ligation involved in DNA recombination  DNA ligation involved in DNA repair  DNA ligation involved in DNA repair  chromosome organization  cell division  neuron apoptotic process  nonhomologous end joining complex  cellular response to lithium ion  DNA biosynthetic process  establishment of integrated proviral latency  double-strand break repair via classical nonhomologous end joining  positive regulation of chromosome organization  
Pathways : KEGGNon-homologous end-joining   
NDEx NetworkLIG4
Atlas of Cancer Signalling NetworkLIG4
Wikipedia pathwaysLIG4
Orthology - Evolution
OrthoDB3981
GeneTree (enSembl)ENSG00000174405
Phylogenetic Trees/Animal Genes : TreeFamLIG4
HOVERGENP49917
HOGENOMP49917
Homologs : HomoloGeneLIG4
Homology/Alignments : Family Browser (UCSC)LIG4
Gene fusions - Rearrangements
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerLIG4 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)LIG4
dbVarLIG4
ClinVarLIG4
1000_GenomesLIG4 
Exome Variant ServerLIG4
ExAC (Exome Aggregation Consortium)LIG4 (select the gene name)
Genetic variants : HAPMAP3981
Genomic Variants (DGV)LIG4 [DGVbeta]
DECIPHERLIG4 [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisLIG4 
Mutations
ICGC Data PortalLIG4 
TCGA Data PortalLIG4 
Broad Tumor PortalLIG4
OASIS PortalLIG4 [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICLIG4  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDLIG4
LOVD (Leiden Open Variation Database)Whole genome datasets
LOVD (Leiden Open Variation Database)LOVD - Leiden Open Variation Database
LOVD (Leiden Open Variation Database)LOVD 3.0 shared installation
LOVD (Leiden Open Variation Database)Mendelian genes
LOVD (Leiden Open Variation Database)**PUBLIC** CCHMC Molecular Genetics Laboratory Mutation Database
BioMutasearch LIG4
DgiDB (Drug Gene Interaction Database)LIG4
DoCM (Curated mutations)LIG4 (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)LIG4 (select a term)
intoGenLIG4
Cancer3DLIG4(select the gene name)
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM254500    601837    606593   
Orphanet472    10452    14385   
MedgenLIG4
Genetic Testing Registry LIG4
NextProtP49917 [Medical]
TSGene3981
GENETestsLIG4
Huge Navigator LIG4 [HugePedia]
snp3D : Map Gene to Disease3981
BioCentury BCIQLIG4
ClinGenLIG4
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD3981
Chemical/Pharm GKB GenePA30375
Clinical trialLIG4
Miscellaneous
canSAR (ICR)LIG4 (select the gene name)
Probes
Litterature
PubMed153 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineLIG4
EVEXLIG4
GoPubMedLIG4
iHOPLIG4
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

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© Atlas of Genetics and Cytogenetics in Oncology and Haematology
indexed on : Fri May 19 12:22:29 CEST 2017

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