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LIMS2 (LIM zinc finger domain containing 2)

Identity

Alias_namesLIM and senescent cell antigen-like domains 2
LIM-type zinc finger domains 2
Alias_symbol (synonym)PINCH2
PINCH-2
Other aliasLGMD2W
HGNC (Hugo) LIMS2
LocusID (NCBI) 55679
Atlas_Id 46170
Location 2q14.3  [Link to chromosome band 2q14]
Location_base_pair Starts at 127638421 and ends at 127675190 bp from pter ( according to hg38-Dec_2013)
Fusion genes
(updated 2016)
LOC100507412 (-) / LIMS2 (2q14.3)

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)LIMS2   16084
Cards
Entrez_Gene (NCBI)LIMS2  55679  LIM zinc finger domain containing 2
AliasesLGMD2W; PINCH-2; PINCH2
GeneCards (Weizmann)LIMS2
Ensembl hg19 (Hinxton)ENSG00000072163 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000072163 [Gene_View]  chr2:127638421-127675190 [Contig_View]  LIMS2 [Vega]
ICGC DataPortalENSG00000072163
TCGA cBioPortalLIMS2
AceView (NCBI)LIMS2
Genatlas (Paris)LIMS2
WikiGenes55679
SOURCE (Princeton)LIMS2
Genetics Home Reference (NIH)LIMS2
Genomic and cartography
GoldenPath hg38 (UCSC)LIMS2  -     chr2:127638421-127675190 -  2q14.3   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)LIMS2  -     2q14.3   [Description]    (hg19-Feb_2009)
EnsemblLIMS2 - 2q14.3 [CytoView hg19]  LIMS2 - 2q14.3 [CytoView hg38]
Mapping of homologs : NCBILIMS2 [Mapview hg19]  LIMS2 [Mapview hg38]
OMIM607908   616827   
Gene and transcription
Genbank (Entrez)###############################################################################################################################################################################################################################################################
RefSeq transcript (Entrez)NM_001136037 NM_001161403 NM_001161404 NM_001256542 NM_017980
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)LIMS2
Cluster EST : UnigeneHs.469881 [ NCBI ]
CGAP (NCI)Hs.469881
Alternative Splicing GalleryENSG00000072163
Gene ExpressionLIMS2 [ NCBI-GEO ]   LIMS2 [ EBI - ARRAY_EXPRESS ]   LIMS2 [ SEEK ]   LIMS2 [ MEM ]
Gene Expression Viewer (FireBrowse)LIMS2 [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevisibleExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)55679
GTEX Portal (Tissue expression)LIMS2
Protein : pattern, domain, 3D structure
UniProt/SwissProtQ7Z4I7   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtQ7Z4I7  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProQ7Z4I7
Splice isoforms : SwissVarQ7Z4I7
PhosPhoSitePlusQ7Z4I7
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)LIMS2
DMDM Disease mutations55679
Blocks (Seattle)LIMS2
PDB (SRS)3IXE   
PDB (PDBSum)3IXE   
PDB (IMB)3IXE   
PDB (RSDB)3IXE   
Structural Biology KnowledgeBase3IXE   
SCOP (Structural Classification of Proteins)3IXE   
CATH (Classification of proteins structures)3IXE   
SuperfamilyQ7Z4I7
Human Protein AtlasENSG00000072163
Peptide AtlasQ7Z4I7
IPIIPI00815737   IPI00398576   IPI00867554   IPI00916076   IPI01015166   IPI01010835   IPI00930549   IPI00937509   IPI00916707   
Protein Interaction databases
DIP (DOE-UCLA)Q7Z4I7
IntAct (EBI)Q7Z4I7
FunCoupENSG00000072163
BioGRIDLIMS2
STRING (EMBL)LIMS2
ZODIACLIMS2
Ontologies - Pathways
QuickGOQ7Z4I7
Ontology : AmiGOnucleus  cytosol  plasma membrane  focal adhesion  zinc ion binding  single organismal cell-cell adhesion  cell junction assembly  negative regulation of apoptotic process  cell-cell junction organization  negative regulation of neural precursor cell proliferation  negative regulation of hepatocyte proliferation  positive regulation of integrin-mediated signaling pathway  
Ontology : EGO-EBInucleus  cytosol  plasma membrane  focal adhesion  zinc ion binding  single organismal cell-cell adhesion  cell junction assembly  negative regulation of apoptotic process  cell-cell junction organization  negative regulation of neural precursor cell proliferation  negative regulation of hepatocyte proliferation  positive regulation of integrin-mediated signaling pathway  
NDEx NetworkLIMS2
Atlas of Cancer Signalling NetworkLIMS2
Wikipedia pathwaysLIMS2
Orthology - Evolution
OrthoDB55679
GeneTree (enSembl)ENSG00000072163
Phylogenetic Trees/Animal Genes : TreeFamLIMS2
HOVERGENQ7Z4I7
HOGENOMQ7Z4I7
Homologs : HomoloGeneLIMS2
Homology/Alignments : Family Browser (UCSC)LIMS2
Gene fusions - Rearrangements
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerLIMS2 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)LIMS2
dbVarLIMS2
ClinVarLIMS2
1000_GenomesLIMS2 
Exome Variant ServerLIMS2
ExAC (Exome Aggregation Consortium)LIMS2 (select the gene name)
Genetic variants : HAPMAP55679
Genomic Variants (DGV)LIMS2 [DGVbeta]
DECIPHERLIMS2 [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisLIMS2 
Mutations
ICGC Data PortalLIMS2 
TCGA Data PortalLIMS2 
Broad Tumor PortalLIMS2
OASIS PortalLIMS2 [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICLIMS2  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDLIMS2
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 LIMS2
DgiDB (Drug Gene Interaction Database)LIMS2
DoCM (Curated mutations)LIMS2 (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)LIMS2 (select a term)
intoGenLIMS2
Cancer3DLIMS2(select the gene name)
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM607908    616827   
Orphanet
MedgenLIMS2
Genetic Testing Registry LIMS2
NextProtQ7Z4I7 [Medical]
TSGene55679
GENETestsLIMS2
Target ValidationLIMS2
Huge Navigator LIMS2 [HugePedia]
snp3D : Map Gene to Disease55679
BioCentury BCIQLIMS2
ClinGenLIMS2
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD55679
Chemical/Pharm GKB GenePA30390
Clinical trialLIMS2
Miscellaneous
canSAR (ICR)LIMS2 (select the gene name)
Probes
Litterature
PubMed22 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineLIMS2
EVEXLIMS2
GoPubMedLIMS2
iHOPLIMS2
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

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indexed on : Wed Jun 7 12:40:34 CEST 2017

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