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LRCH3 (leucine rich repeats and calponin homology domain containing 3)

Identity

Alias_namesleucine-rich repeats and calponin homology (CH) domain containing 3
Alias_symbol (synonym)MGC4126
Other alias-
HGNC (Hugo) LRCH3
LocusID (NCBI) 84859
Atlas_Id 54429
Location 3q29  [Link to chromosome band 3q29]
Location_base_pair Starts at 197791226 and ends at 197871585 bp from pter ( according to hg38-Dec_2013)
Fusion genes
(updated 2016)
LRCH3 (3q29) / BRSK2 (11p15.5)LRCH3 (3q29) / EIF2AK4 (15q15.1)LRCH3 (3q29) / FYTTD1 (3q29)
LRCH3 (3q29) / GNA13 (17q24.1)LRCH3 (3q29) / LRCH3 (3q29)LRCH3 (3q29) / MED12L (3q25.1)
MLLT10 (10p12.31) / LRCH3 (3q29)RAB7A (3q21.3) / LRCH3 (3q29)RND3 (2q23.3) / LRCH3 (3q29)
TARDBP (1p36.22) / LRCH3 (3q29)LRCH3 3q29 / MED12L 3q25.1

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

 


Other Solid tumors implicated (Data extracted from papers in the Atlas) [ 1 ]
  Lung: Translocations in Squamous Cell Carcinoma


External links

Nomenclature
HGNC (Hugo)LRCH3   28637
Cards
Entrez_Gene (NCBI)LRCH3  84859  leucine rich repeats and calponin homology domain containing 3
Aliases
GeneCards (Weizmann)LRCH3
Ensembl hg19 (Hinxton)ENSG00000186001 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000186001 [Gene_View]  chr3:197791226-197871585 [Contig_View]  LRCH3 [Vega]
ICGC DataPortalENSG00000186001
TCGA cBioPortalLRCH3
AceView (NCBI)LRCH3
Genatlas (Paris)LRCH3
WikiGenes84859
SOURCE (Princeton)LRCH3
Genetics Home Reference (NIH)LRCH3
Genomic and cartography
GoldenPath hg38 (UCSC)LRCH3  -     chr3:197791226-197871585 +  3q29   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)LRCH3  -     3q29   [Description]    (hg19-Feb_2009)
EnsemblLRCH3 - 3q29 [CytoView hg19]  LRCH3 - 3q29 [CytoView hg38]
Mapping of homologs : NCBILRCH3 [Mapview hg19]  LRCH3 [Mapview hg38]
Gene and transcription
Genbank (Entrez)AK024647 AK055819 AK125235 AK128758 AK293745
RefSeq transcript (Entrez)NM_032773
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)LRCH3
Cluster EST : UnigeneHs.744956 [ NCBI ]
CGAP (NCI)Hs.744956
Alternative Splicing GalleryENSG00000186001
Gene ExpressionLRCH3 [ NCBI-GEO ]   LRCH3 [ EBI - ARRAY_EXPRESS ]   LRCH3 [ SEEK ]   LRCH3 [ MEM ]
Gene Expression Viewer (FireBrowse)LRCH3 [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevisibleExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)84859
GTEX Portal (Tissue expression)LRCH3
Protein : pattern, domain, 3D structure
UniProt/SwissProtQ96II8   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtQ96II8  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProQ96II8
Splice isoforms : SwissVarQ96II8
PhosPhoSitePlusQ96II8
Domaine pattern : Prosite (Expaxy)CH (PS50021)   
Domains : Interpro (EBI)CH-domain    L_dom-like    Leu-rich_rpt    Leu-rich_rpt_typical-subtyp   
Domain families : Pfam (Sanger)CH (PF00307)    LRR_8 (PF13855)   
Domain families : Pfam (NCBI)pfam00307    pfam13855   
Domain families : Smart (EMBL)CH (SM00033)  LRR_TYP (SM00369)  
Conserved Domain (NCBI)LRCH3
DMDM Disease mutations84859
Blocks (Seattle)LRCH3
SuperfamilyQ96II8
Human Protein AtlasENSG00000186001
Peptide AtlasQ96II8
HPRD14308
IPIIPI00382787   IPI00385649   IPI00396561   IPI01014974   IPI00746322   IPI00745137   IPI00925939   IPI00909323   IPI00926752   IPI00926982   IPI00927178   IPI00927400   
Protein Interaction databases
DIP (DOE-UCLA)Q96II8
IntAct (EBI)Q96II8
FunCoupENSG00000186001
BioGRIDLRCH3
STRING (EMBL)LRCH3
ZODIACLRCH3
Ontologies - Pathways
QuickGOQ96II8
Ontology : AmiGOprotein binding  extracellular region  cytosol  plasma membrane  signal transduction  
Ontology : EGO-EBIprotein binding  extracellular region  cytosol  plasma membrane  signal transduction  
NDEx NetworkLRCH3
Atlas of Cancer Signalling NetworkLRCH3
Wikipedia pathwaysLRCH3
Orthology - Evolution
OrthoDB84859
GeneTree (enSembl)ENSG00000186001
Phylogenetic Trees/Animal Genes : TreeFamLRCH3
HOVERGENQ96II8
HOGENOMQ96II8
Homologs : HomoloGeneLRCH3
Homology/Alignments : Family Browser (UCSC)LRCH3
Gene fusions - Rearrangements
Fusion : MitelmanLRCH3/MED12L [3q29/3q25.1]  
Fusion : MitelmanRAB7A/LRCH3 [3q21.3/3q29]  [t(3;3)(q21;q29)]  
Fusion: TCGALRCH3 3q29 MED12L 3q25.1 BRCA
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerLRCH3 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)LRCH3
dbVarLRCH3
ClinVarLRCH3
1000_GenomesLRCH3 
Exome Variant ServerLRCH3
ExAC (Exome Aggregation Consortium)LRCH3 (select the gene name)
Genetic variants : HAPMAP84859
Genomic Variants (DGV)LRCH3 [DGVbeta]
DECIPHERLRCH3 [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisLRCH3 
Mutations
ICGC Data PortalLRCH3 
TCGA Data PortalLRCH3 
Broad Tumor PortalLRCH3
OASIS PortalLRCH3 [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICLRCH3  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDLRCH3
LOVD (Leiden Open Variation Database)LOVD - Leiden Open Variation Database
BioMutasearch LRCH3
DgiDB (Drug Gene Interaction Database)LRCH3
DoCM (Curated mutations)LRCH3 (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)LRCH3 (select a term)
intoGenLRCH3
Cancer3DLRCH3(select the gene name)
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM
Orphanet
MedgenLRCH3
Genetic Testing Registry LRCH3
NextProtQ96II8 [Medical]
TSGene84859
GENETestsLRCH3
Target ValidationLRCH3
Huge Navigator LRCH3 [HugePedia]
snp3D : Map Gene to Disease84859
BioCentury BCIQLRCH3
ClinGenLRCH3
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD84859
Chemical/Pharm GKB GenePA134923024
Clinical trialLRCH3
Miscellaneous
canSAR (ICR)LRCH3 (select the gene name)
Probes
Litterature
PubMed12 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineLRCH3
EVEXLRCH3
GoPubMedLRCH3
iHOPLRCH3
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 : Mon Sep 25 19:16:26 CEST 2017

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