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LIMCH1 (LIM and calponin homology domains 1)

Identity

Alias_symbol (synonym)DKFZP686A01247
LIMCH1A
LMO7B
Other alias
HGNC (Hugo) LIMCH1
LocusID (NCBI) 22998
Atlas_Id 65269
Location 4p13  [Link to chromosome band 4p13]
Location_base_pair Starts at 41360631 and ends at 41700044 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)
CBLB (3q13.11) / LIMCH1 (4p13)DAB1 (1p32.2) / LIMCH1 (4p13)LIMCH1 (4p13) / AC130352.1 ()
LIMCH1 (4p13) / APBB2 (4p14)LIMCH1 (4p13) / C11orf58 (11p15.1)LIMCH1 (4p13) / ILF3 (19p13.2)
LIMCH1 (4p13) / LIMCH1 (4p13)LIMCH1 (4p13) / RUNX1T1 (8q21.3)LIMCH1 (4p13) / SGPP1 (14q23.2)
LIMCH1 (4p13) / UCHL1 (4p13)MANBA (4q24) / LIMCH1 (4p13)RNF13 (3q25.1) / LIMCH1 (4p13)
SV2A (1q21.2) / LIMCH1 (4p13)LIMCH1 APBB2LIMCH1 AC130352.1

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)LIMCH1   29191
Cards
Entrez_Gene (NCBI)LIMCH1  22998  LIM and calponin homology domains 1
AliasesLIMCH1A; LMO7B
GeneCards (Weizmann)LIMCH1
Ensembl hg19 (Hinxton)ENSG00000064042 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000064042 [Gene_View]  chr4:41360631-41700044 [Contig_View]  LIMCH1 [Vega]
ICGC DataPortalENSG00000064042
TCGA cBioPortalLIMCH1
AceView (NCBI)LIMCH1
Genatlas (Paris)LIMCH1
WikiGenes22998
SOURCE (Princeton)LIMCH1
Genetics Home Reference (NIH)LIMCH1
Genomic and cartography
GoldenPath hg38 (UCSC)LIMCH1  -     chr4:41360631-41700044 +  4p13   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)LIMCH1  -     4p13   [Description]    (hg19-Feb_2009)
EnsemblLIMCH1 - 4p13 [CytoView hg19]  LIMCH1 - 4p13 [CytoView hg38]
Mapping of homologs : NCBILIMCH1 [Mapview hg19]  LIMCH1 [Mapview hg38]
Gene and transcription
Genbank (Entrez)AB029025 AK026815 AK027231 AK125004 AK294774
RefSeq transcript (Entrez)NM_001112717 NM_001112718 NM_001112719 NM_001112720 NM_001289122 NM_001289124 NM_001330672 NM_001330674 NM_001330784 NM_001330786 NM_001330787 NM_001330788 NM_001330789 NM_001330790 NM_001330791 NM_001330792 NM_001330793 NM_001330982 NM_001330983 NM_014988
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)LIMCH1
Cluster EST : UnigeneHs.335163 [ NCBI ]
CGAP (NCI)Hs.335163
Alternative Splicing GalleryENSG00000064042
Gene ExpressionLIMCH1 [ NCBI-GEO ]   LIMCH1 [ EBI - ARRAY_EXPRESS ]   LIMCH1 [ SEEK ]   LIMCH1 [ MEM ]
Gene Expression Viewer (FireBrowse)LIMCH1 [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevestigatorExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)22998
GTEX Portal (Tissue expression)LIMCH1
Human Protein AtlasENSG00000064042-LIMCH1 [pathology]   [cell]   [tissue]
Protein : pattern, domain, 3D structure
UniProt/SwissProtQ9UPQ0   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtQ9UPQ0  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProQ9UPQ0
Splice isoforms : SwissVarQ9UPQ0
PhosPhoSitePlusQ9UPQ0
Domaine pattern : Prosite (Expaxy)CH (PS50021)    LIM_DOMAIN_1 (PS00478)    LIM_DOMAIN_2 (PS50023)   
Domains : Interpro (EBI)Calponin/LIMCH1    CH-domain    DUF4757    LIMCH1    SM22_calponin    Znf_LIM   
Domain families : Pfam (Sanger)CH (PF00307)    DUF4757 (PF15949)    LIM (PF00412)   
Domain families : Pfam (NCBI)pfam00307    pfam15949    pfam00412   
Domain families : Smart (EMBL)CH (SM00033)  LIM (SM00132)  
Conserved Domain (NCBI)LIMCH1
DMDM Disease mutations22998
Blocks (Seattle)LIMCH1
SuperfamilyQ9UPQ0
Human Protein Atlas [tissue]ENSG00000064042-LIMCH1 [tissue]
Peptide AtlasQ9UPQ0
HPRD11125
IPIIPI00553043   IPI00853044   IPI00177498   IPI00853384   IPI00554434   IPI00853623   IPI00604714   IPI00853229   IPI00853476   IPI00967010   IPI00965488   IPI00968082   IPI00967833   IPI00969179   IPI00964910   IPI00966533   IPI00953238   IPI00964052   
Protein Interaction databases
DIP (DOE-UCLA)Q9UPQ0
IntAct (EBI)Q9UPQ0
FunCoupENSG00000064042
BioGRIDLIMCH1
STRING (EMBL)LIMCH1
ZODIACLIMCH1
Ontologies - Pathways
QuickGOQ9UPQ0
Ontology : AmiGOactin binding  zinc ion binding  actomyosin structure organization  
Ontology : EGO-EBIactin binding  zinc ion binding  actomyosin structure organization  
NDEx NetworkLIMCH1
Atlas of Cancer Signalling NetworkLIMCH1
Wikipedia pathwaysLIMCH1
Orthology - Evolution
OrthoDB22998
GeneTree (enSembl)ENSG00000064042
Phylogenetic Trees/Animal Genes : TreeFamLIMCH1
HOVERGENQ9UPQ0
HOGENOMQ9UPQ0
Homologs : HomoloGeneLIMCH1
Homology/Alignments : Family Browser (UCSC)LIMCH1
Gene fusions - Rearrangements
Fusion: TCGALIMCH1 APBB2
Fusion: TCGALIMCH1 AC130352.1
Fusion: Tumor Portal LIMCH1
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerLIMCH1 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)LIMCH1
dbVarLIMCH1
ClinVarLIMCH1
1000_GenomesLIMCH1 
Exome Variant ServerLIMCH1
ExAC (Exome Aggregation Consortium)ENSG00000064042
GNOMAD BrowserENSG00000064042
Genetic variants : HAPMAP22998
Genomic Variants (DGV)LIMCH1 [DGVbeta]
DECIPHERLIMCH1 [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisLIMCH1 
Mutations
ICGC Data PortalLIMCH1 
TCGA Data PortalLIMCH1 
Broad Tumor PortalLIMCH1
OASIS PortalLIMCH1 [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICLIMCH1  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDLIMCH1
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 LIMCH1
DgiDB (Drug Gene Interaction Database)LIMCH1
DoCM (Curated mutations)LIMCH1 (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)LIMCH1 (select a term)
intoGenLIMCH1
Cancer3DLIMCH1(select the gene name)
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM
Orphanet
MedgenLIMCH1
Genetic Testing Registry LIMCH1
NextProtQ9UPQ0 [Medical]
TSGene22998
GENETestsLIMCH1
Target ValidationLIMCH1
Huge Navigator LIMCH1 [HugePedia]
snp3D : Map Gene to Disease22998
BioCentury BCIQLIMCH1
ClinGenLIMCH1
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD22998
Chemical/Pharm GKB GenePA162393957
Clinical trialLIMCH1
Miscellaneous
canSAR (ICR)LIMCH1 (select the gene name)
Probes
Litterature
PubMed27 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineLIMCH1
EVEXLIMCH1
GoPubMedLIMCH1
iHOPLIMCH1
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 : Thu Nov 9 11:53:39 CET 2017

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