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LIG1 (ligase I, DNA, ATP-dependent)

Identity

Other names-
HGNC (Hugo) LIG1
LocusID (NCBI) 3978
Atlas_Id 41154
Location 19q13.33
Location_base_pair Starts at 48618702 and ends at 48673860 bp from pter ( according to hg19-Feb_2009)
Fusion genes
(updated 2016)
ARL6IP4 (12q24.31) / LIG1 (19q13.33)KPNA4 (3q25.33) / LIG1 (19q13.33)SLC25A32 (8q22.3) / LIG1 (19q13.33)

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)LIG1   6598
Cards
Entrez_Gene (NCBI)LIG1  3978  ligase I, DNA, ATP-dependent
Aliases
GeneCards (Weizmann)LIG1
Ensembl hg19 (Hinxton)ENSG00000105486 [Gene_View]  chr19:48618702-48673860 [Contig_View]  LIG1 [Vega]
Ensembl hg38 (Hinxton)ENSG00000105486 [Gene_View]  chr19:48618702-48673860 [Contig_View]  LIG1 [Vega]
ICGC DataPortalENSG00000105486
TCGA cBioPortalLIG1
AceView (NCBI)LIG1
Genatlas (Paris)LIG1
WikiGenes3978
SOURCE (Princeton)LIG1
Genomic and cartography
GoldenPath hg19 (UCSC)LIG1  -     chr19:48618702-48673860 -  19q13.33   [Description]    (hg19-Feb_2009)
GoldenPath hg38 (UCSC)LIG1  -     19q13.33   [Description]    (hg38-Dec_2013)
EnsemblLIG1 - 19q13.33 [CytoView hg19]  LIG1 - 19q13.33 [CytoView hg38]
Mapping of homologs : NCBILIG1 [Mapview hg19]  LIG1 [Mapview hg38]
OMIM126391   
Gene and transcription
Genbank (Entrez)AB208791 AK225863 AK297296 AK300370 AK300607
RefSeq transcript (Entrez)NM_000234 NM_001289063 NM_001289064 NM_001320970 NM_001320971
RefSeq genomic (Entrez)NC_000019 NC_018930 NG_007395 NT_011109 NW_004929415
Consensus coding sequences : CCDS (NCBI)LIG1
Cluster EST : UnigeneHs.1770 [ NCBI ]
CGAP (NCI)Hs.1770
Alternative Splicing GalleryENSG00000105486
Gene ExpressionLIG1 [ NCBI-GEO ]   LIG1 [ EBI - ARRAY_EXPRESS ]   LIG1 [ SEEK ]   LIG1 [ MEM ]
Gene Expression Viewer (FireBrowse)LIG1 [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevisibleExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)3978
GTEX Portal (Tissue expression)LIG1
Protein : pattern, domain, 3D structure
UniProt/SwissProtP18858 (Uniprot)
NextProtP18858  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProP18858
Splice isoforms : SwissVarP18858 (Swissvar)
Catalytic activity : Enzyme6.5.1.1 [ Enzyme-Expasy ]   6.5.1.16.5.1.1 [ IntEnz-EBI ]   6.5.1.1 [ BRENDA ]   6.5.1.1 [ KEGG ]   
PhosPhoSitePlusP18858
Domaine pattern : Prosite (Expaxy)DNA_LIGASE_A1 (PS00697)    DNA_LIGASE_A2 (PS00333)    DNA_LIGASE_A3 (PS50160)   
Domains : Interpro (EBI)DNA_ligase_ATP-dep    DNA_ligase_ATP-dep_C    DNA_ligase_ATP-dep_cent    DNA_ligase_ATP-dep_CS    DNA_ligase_ATP-dep_N    NA-bd_OB-fold   
Domain families : Pfam (Sanger)DNA_ligase_A_C (PF04679)    DNA_ligase_A_M (PF01068)    DNA_ligase_A_N (PF04675)   
Domain families : Pfam (NCBI)pfam04679    pfam01068    pfam04675   
DMDM Disease mutations3978
Blocks (Seattle)LIG1
PDB (SRS)1X9N   
PDB (PDBSum)1X9N   
PDB (IMB)1X9N   
PDB (RSDB)1X9N   
Structural Biology KnowledgeBase1X9N   
SCOP (Structural Classification of Proteins)1X9N   
CATH (Classification of proteins structures)1X9N   
SuperfamilyP18858
Human Protein AtlasENSG00000105486
Peptide AtlasP18858
HPRD00534
IPIIPI00219841   IPI01011603   IPI01011052   IPI01010243   IPI01010750   
Protein Interaction databases
DIP (DOE-UCLA)P18858
IntAct (EBI)P18858
FunCoupENSG00000105486
BioGRIDLIG1
STRING (EMBL)LIG1
ZODIACLIG1
Ontologies - Pathways
QuickGOP18858
Ontology : AmiGOtelomere maintenance via recombination  DNA binding  DNA ligase activity  DNA ligase activity  DNA ligase activity  DNA ligase (ATP) activity  ATP binding  nucleus  nucleoplasm  nucleoplasm  mitochondrion  Golgi apparatus  DNA metabolic process  DNA ligation  DNA ligation  DNA ligation  DNA ligation  DNA repair  transcription-coupled nucleotide-excision repair  base-excision repair  nucleotide-excision repair, DNA gap filling  mismatch repair  anatomical structure morphogenesis  V(D)J recombination  intracellular membrane-bounded organelle  metal ion binding  DNA ligation involved in DNA repair  cell division  DNA biosynthetic process  Okazaki fragment processing involved in mitotic DNA replication  
Ontology : EGO-EBItelomere maintenance via recombination  DNA binding  DNA ligase activity  DNA ligase activity  DNA ligase activity  DNA ligase (ATP) activity  ATP binding  nucleus  nucleoplasm  nucleoplasm  mitochondrion  Golgi apparatus  DNA metabolic process  DNA ligation  DNA ligation  DNA ligation  DNA ligation  DNA repair  transcription-coupled nucleotide-excision repair  base-excision repair  nucleotide-excision repair, DNA gap filling  mismatch repair  anatomical structure morphogenesis  V(D)J recombination  intracellular membrane-bounded organelle  metal ion binding  DNA ligation involved in DNA repair  cell division  DNA biosynthetic process  Okazaki fragment processing involved in mitotic DNA replication  
Pathways : KEGGDNA replication    Base excision repair    Nucleotide excision repair    Mismatch repair   
NDEx Network
Atlas of Cancer Signalling NetworkLIG1
Wikipedia pathwaysLIG1
Orthology - Evolution
OrthoDB3978
GeneTree (enSembl)ENSG00000105486
Phylogenetic Trees/Animal Genes : TreeFamLIG1
Homologs : HomoloGeneLIG1
Homology/Alignments : Family Browser (UCSC)LIG1
Gene fusions - Rearrangements
Polymorphisms : SNP, variants
NCBI Variation ViewerLIG1 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)LIG1
dbVarLIG1
ClinVarLIG1
1000_GenomesLIG1 
Exome Variant ServerLIG1
ExAC (Exome Aggregation Consortium)LIG1 (select the gene name)
Genetic variants : HAPMAP3978
Genomic Variants (DGV)LIG1 [DGVbeta]
Mutations
ICGC Data PortalLIG1 
TCGA Data PortalLIG1 
Broad Tumor PortalLIG1
OASIS PortalLIG1 [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICLIG1 
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
BioMutasearch LIG1
DgiDB (Drug Gene Interaction Database)LIG1
DoCM (Curated mutations)LIG1 (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)LIG1 (select a term)
intoGenLIG1
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] 
Diseases
DECIPHER (Syndromes)19:48618702-48673860  ENSG00000105486
CONAN: Copy Number AnalysisLIG1 
Mutations and Diseases : HGMDLIG1
OMIM126391   
MedgenLIG1
Genetic Testing Registry LIG1
NextProtP18858 [Medical]
TSGene3978
GENETestsLIG1
Huge Navigator LIG1 [HugePedia]
snp3D : Map Gene to Disease3978
BioCentury BCIQLIG1
ClinGenLIG1
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD3978
Chemical/Pharm GKB GenePA30372
Clinical trialLIG1
Miscellaneous
canSAR (ICR)LIG1 (select the gene name)
Probes
Litterature
PubMed93 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineLIG1
EVEXLIG1
GoPubMedLIG1
iHOPLIG1
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

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indexed on : Sat May 28 11:08:45 CEST 2016

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