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LIMS3 (LIM zinc finger domain containing 3)

Identity

Alias_namesLIM and senescent cell antigen-like domains 3
LIM-type zinc finger domains 3
Other aliasPINCH-3
HGNC (Hugo) LIMS3
LocusID (NCBI) 96626
Atlas_Id 65273
Location 2q13  [Link to chromosome band 2q13]
Location_base_pair Starts at 109898432 and ends at 109906456 bp from pter ( according to hg38-Dec_2013)
Fusion genes
(updated 2017)
Data from Atlas, Mitelman, Cosmic Fusion, Fusion Cancer, TCGA fusion databases with official HUGO symbols (see references in chromosomal bands)

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)LIMS3   30047
Cards
Entrez_Gene (NCBI)LIMS3  96626  LIM zinc finger domain containing 3
AliasesPINCH-3
GeneCards (Weizmann)LIMS3
Ensembl hg19 (Hinxton)ENSG00000256977 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000256977 [Gene_View]  chr2:109898432-109906456 [Contig_View]  LIMS3 [Vega]
ICGC DataPortalENSG00000256977
TCGA cBioPortalLIMS3
AceView (NCBI)LIMS3
Genatlas (Paris)LIMS3
WikiGenes96626
SOURCE (Princeton)LIMS3
Genetics Home Reference (NIH)LIMS3
Genomic and cartography
GoldenPath hg38 (UCSC)LIMS3  -     chr2:109898432-109906456 +  2q13   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)LIMS3  -     2q13   [Description]    (hg19-Feb_2009)
EnsemblLIMS3 - 2q13 [CytoView hg19]  LIMS3 - 2q13 [CytoView hg38]
Mapping of homologs : NCBILIMS3 [Mapview hg19]  LIMS3 [Mapview hg38]
Gene and transcription
Genbank (Entrez)AF288404 AI887629 AK096170 AK298340 AK300833
RefSeq transcript (Entrez)NM_033514
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)LIMS3
Cluster EST : UnigeneHs.735995 [ NCBI ]
CGAP (NCI)Hs.735995
Alternative Splicing GalleryENSG00000256977
Gene ExpressionLIMS3 [ NCBI-GEO ]   LIMS3 [ EBI - ARRAY_EXPRESS ]   LIMS3 [ SEEK ]   LIMS3 [ MEM ]
Gene Expression Viewer (FireBrowse)LIMS3 [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevestigatorExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)96626
GTEX Portal (Tissue expression)LIMS3
Human Protein AtlasENSG00000256977-LIMS3 [pathology]   [cell]   [tissue]
Protein : pattern, domain, 3D structure
UniProt/SwissProtP0CW19   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtP0CW19  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProP0CW19
Splice isoforms : SwissVarP0CW19
PhosPhoSitePlusP0CW19
Domaine pattern : Prosite (Expaxy)LIM_DOMAIN_1 (PS00478)    LIM_DOMAIN_2 (PS50023)   
Domains : Interpro (EBI)PINCH    Znf_LIM   
Domain families : Pfam (Sanger)LIM (PF00412)   
Domain families : Pfam (NCBI)pfam00412   
Domain families : Smart (EMBL)LIM (SM00132)  
Conserved Domain (NCBI)LIMS3
DMDM Disease mutations96626
Blocks (Seattle)LIMS3
SuperfamilyP0CW19
Human Protein Atlas [tissue]ENSG00000256977-LIMS3 [tissue]
Peptide AtlasP0CW19
HPRD17277
Protein Interaction databases
DIP (DOE-UCLA)P0CW19
IntAct (EBI)P0CW19
FunCoupENSG00000256977
BioGRIDLIMS3
STRING (EMBL)LIMS3
ZODIACLIMS3
Ontologies - Pathways
QuickGOP0CW19
Ontology : AmiGOcytoplasm  zinc ion binding  
Ontology : EGO-EBIcytoplasm  zinc ion binding  
NDEx NetworkLIMS3
Atlas of Cancer Signalling NetworkLIMS3
Wikipedia pathwaysLIMS3
Orthology - Evolution
OrthoDB96626
GeneTree (enSembl)ENSG00000256977
Phylogenetic Trees/Animal Genes : TreeFamLIMS3
HOVERGENP0CW19
HOGENOMP0CW19
Homologs : HomoloGeneLIMS3
Homology/Alignments : Family Browser (UCSC)LIMS3
Gene fusions - Rearrangements
Tumor Fusion PortalLIMS3
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerLIMS3 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)LIMS3
dbVarLIMS3
ClinVarLIMS3
1000_GenomesLIMS3 
Exome Variant ServerLIMS3
ExAC (Exome Aggregation Consortium)ENSG00000256977
GNOMAD BrowserENSG00000256977
Genetic variants : HAPMAP96626
Genomic Variants (DGV)LIMS3 [DGVbeta]
DECIPHERLIMS3 [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisLIMS3 
Mutations
ICGC Data PortalLIMS3 
TCGA Data PortalLIMS3 
Broad Tumor PortalLIMS3
OASIS PortalLIMS3 [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICLIMS3  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDLIMS3
LOVD (Leiden Open Variation Database)Whole genome datasets
LOVD (Leiden Open Variation Database)LOVD 3.0 shared installation
BioMutasearch LIMS3
DgiDB (Drug Gene Interaction Database)LIMS3
DoCM (Curated mutations)LIMS3 (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)LIMS3 (select a term)
intoGenLIMS3
Cancer3DLIMS3(select the gene name)
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM
Orphanet
DisGeNETLIMS3
MedgenLIMS3
Genetic Testing Registry LIMS3
NextProtP0CW19 [Medical]
TSGene96626
GENETestsLIMS3
Target ValidationLIMS3
Huge Navigator LIMS3 [HugePedia]
snp3D : Map Gene to Disease96626
BioCentury BCIQLIMS3
ClinGenLIMS3
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD96626
Chemical/Pharm GKB GenePA134917873
Clinical trialLIMS3
Miscellaneous
canSAR (ICR)LIMS3 (select the gene name)
Probes
Litterature
PubMed8 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineLIMS3
EVEXLIMS3
GoPubMedLIMS3
iHOPLIMS3
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

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indexed on : Tue Nov 21 13:04:51 CET 2017

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