Atlas of Genetics and Cytogenetics in Oncology and Haematology

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LRRC1 (leucine rich repeat containing 1)

Identity

Alias_namesleucine-rich repeat-containing 1
Alias_symbol (synonym)dJ523E19.1
LANO
FLJ10775
FLJ11834
Other alias
HGNC (Hugo) LRRC1
LocusID (NCBI) 55227
Atlas_Id 54430
Location 6p12.1  [Link to chromosome band 6p12]
Location_base_pair Starts at 53794980 and ends at 53924121 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)
C6orf106 (6p21.31) / LRRC1 (6p12.1)LRRC1 (6p12.1) / CA10 (17q21.33)LRRC1 (6p12.1) / DAAM2 (6p21.2)
LRRC1 (6p12.1) / FRY (13q13.1)LRRC1 (6p12.1) / SUPT3H (6p21.1)C6orf106 6p21.31 / LRRC1 6p12.1
LRRC1 6p12.1 / DAAM2 6p21.2LRRC1 6p12.1 / FRY 13q13.1LRRC1 6p12.1 / SUPT3H 6p21.1

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) [ 4 ]
  t(6;6)(p12;p21) C6orf106/LRRC1
t(6;6)(p12;p21) LRRC1/DAAM2
t(6;6)(p12;p21) LRRC1/SUPT3H
t(6;13)(p12;q13) LRRC1/FRY

External links

Nomenclature
HGNC (Hugo)LRRC1   14307
Cards
Entrez_Gene (NCBI)LRRC1  55227  leucine rich repeat containing 1
AliasesLANO; dJ523E19.1
GeneCards (Weizmann)LRRC1
Ensembl hg19 (Hinxton)ENSG00000137269 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000137269 [Gene_View]  ENSG00000137269 [Sequence]  chr6:53794980-53924121 [Contig_View]  LRRC1 [Vega]
ICGC DataPortalENSG00000137269
TCGA cBioPortalLRRC1
AceView (NCBI)LRRC1
Genatlas (Paris)LRRC1
WikiGenes55227
SOURCE (Princeton)LRRC1
Genetics Home Reference (NIH)LRRC1
Genomic and cartography
GoldenPath hg38 (UCSC)LRRC1  -     chr6:53794980-53924121 +  6p12.1   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)LRRC1  -     6p12.1   [Description]    (hg19-Feb_2009)
GoldenPathLRRC1 - 6p12.1 [CytoView hg19]  LRRC1 - 6p12.1 [CytoView hg38]
ImmunoBaseENSG00000137269
Mapping of homologs : NCBILRRC1 [Mapview hg19]  LRRC1 [Mapview hg38]
OMIM608195   
Gene and transcription
Genbank (Entrez)AF332199 AF359380 AJ420513 AK001637 AK021896
RefSeq transcript (Entrez)NM_018214 NM_025168
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)LRRC1
Alternative Splicing GalleryENSG00000137269
Gene ExpressionLRRC1 [ NCBI-GEO ]   LRRC1 [ EBI - ARRAY_EXPRESS ]   LRRC1 [ SEEK ]   LRRC1 [ MEM ]
Gene Expression Viewer (FireBrowse)LRRC1 [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevestigatorExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)55227
GTEX Portal (Tissue expression)LRRC1
Human Protein AtlasENSG00000137269-LRRC1 [pathology]   [cell]   [tissue]
Protein : pattern, domain, 3D structure
UniProt/SwissProtQ9BTT6   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtQ9BTT6  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProQ9BTT6
Splice isoforms : SwissVarQ9BTT6
PhosPhoSitePlusQ9BTT6
Domaine pattern : Prosite (Expaxy)LRR (PS51450)   
Domains : Interpro (EBI)Leu-rich_rpt    Leu-rich_rpt_typical-subtyp    LRR_dom_sf   
Domain families : Pfam (Sanger)LRR_8 (PF13855)   
Domain families : Pfam (NCBI)pfam13855   
Domain families : Smart (EMBL)LRR_TYP (SM00369)  
Conserved Domain (NCBI)LRRC1
DMDM Disease mutations55227
Blocks (Seattle)LRRC1
SuperfamilyQ9BTT6
Human Protein Atlas [tissue]ENSG00000137269-LRRC1 [tissue]
Peptide AtlasQ9BTT6
IPIIPI00427739   IPI00427741   IPI01014031   
Protein Interaction databases
DIP (DOE-UCLA)Q9BTT6
IntAct (EBI)Q9BTT6
FunCoupENSG00000137269
BioGRIDLRRC1
STRING (EMBL)LRRC1
ZODIACLRRC1
Ontologies - Pathways
QuickGOQ9BTT6
Ontology : AmiGOcytosol  cell-cell junction  cell-cell adherens junction  ionotropic glutamate receptor complex  postsynaptic density  basolateral plasma membrane  cell junction  receptor clustering  establishment or maintenance of epithelial cell apical/basal polarity  synapse  postsynaptic membrane  receptor localization to synapse  cell-cell adhesion  neurotransmitter receptor transport, endosome to postsynaptic membrane  neurotransmitter receptor transport postsynaptic membrane to endosome  
Ontology : EGO-EBIcytosol  cell-cell junction  cell-cell adherens junction  ionotropic glutamate receptor complex  postsynaptic density  basolateral plasma membrane  cell junction  receptor clustering  establishment or maintenance of epithelial cell apical/basal polarity  synapse  postsynaptic membrane  receptor localization to synapse  cell-cell adhesion  neurotransmitter receptor transport, endosome to postsynaptic membrane  neurotransmitter receptor transport postsynaptic membrane to endosome  
NDEx NetworkLRRC1
Atlas of Cancer Signalling NetworkLRRC1
Wikipedia pathwaysLRRC1
Orthology - Evolution
OrthoDB55227
GeneTree (enSembl)ENSG00000137269
Phylogenetic Trees/Animal Genes : TreeFamLRRC1
HOGENOMQ9BTT6
Homologs : HomoloGeneLRRC1
Homology/Alignments : Family Browser (UCSC)LRRC1
Gene fusions - Rearrangements
Fusion : MitelmanC6orf106/LRRC1 [6p21.31/6p12.1]  [t(6;6)(p12;p21)]  
Fusion : MitelmanLRRC1/DAAM2 [6p12.1/6p21.2]  [t(6;6)(p12;p21)]  
Fusion : MitelmanLRRC1/FRY [6p12.1/13q13.1]  [t(6;13)(p12;q13)]  
Fusion : MitelmanLRRC1/SUPT3H [6p12.1/6p21.1]  [t(6;6)(p12;p21)]  
Fusion PortalC6orf106 6p21.31 LRRC1 6p12.1 KIRC
Fusion PortalLRRC1 6p12.1 DAAM2 6p21.2 BRCA
Fusion PortalLRRC1 6p12.1 FRY 13q13.1 BRCA
Fusion PortalLRRC1 6p12.1 SUPT3H 6p21.1 LGG
Fusion : QuiverLRRC1
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerLRRC1 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)LRRC1
dbVarLRRC1
ClinVarLRRC1
1000_GenomesLRRC1 
Exome Variant ServerLRRC1
ExAC (Exome Aggregation Consortium)ENSG00000137269
GNOMAD BrowserENSG00000137269
Varsome BrowserLRRC1
Genetic variants : HAPMAP55227
Genomic Variants (DGV)LRRC1 [DGVbeta]
DECIPHERLRRC1 [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisLRRC1 
Mutations
ICGC Data PortalLRRC1 
TCGA Data PortalLRRC1 
Broad Tumor PortalLRRC1
OASIS PortalLRRC1 [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICLRRC1  [overview]  [genome browser]  [tissue]  [distribution]  
Somatic Mutations in Cancer : COSMIC3DLRRC1
Mutations and Diseases : HGMDLRRC1
LOVD (Leiden Open Variation Database)LOVD - Leiden Open Variation Database
BioMutasearch LRRC1
DgiDB (Drug Gene Interaction Database)LRRC1
DoCM (Curated mutations)LRRC1 (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)LRRC1 (select a term)
intoGenLRRC1
Cancer3DLRRC1(select the gene name)
Impact of mutations[PolyPhen2] [Provean] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM608195   
Orphanet
DisGeNETLRRC1
MedgenLRRC1
Genetic Testing Registry LRRC1
NextProtQ9BTT6 [Medical]
TSGene55227
GENETestsLRRC1
Target ValidationLRRC1
Huge Navigator LRRC1 [HugePedia]
snp3D : Map Gene to Disease55227
BioCentury BCIQLRRC1
ClinGenLRRC1
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD55227
Chemical/Pharm GKB GenePA30460
Clinical trialLRRC1
Miscellaneous
canSAR (ICR)LRRC1 (select the gene name)
HarmonizomeLRRC1
DataMed IndexLRRC1
Probes
Litterature
PubMed27 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineLRRC1
EVEXLRRC1
GoPubMedLRRC1
iHOPLRRC1
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

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indexed on : Sun May 10 12:21:14 CEST 2020
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