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LRRC38 (leucine rich repeat containing 38)

Identity

Other alias-
HGNC (Hugo) LRRC38
LocusID (NCBI) 126755
Atlas_Id 68622
Location 1p36.21  [Link to chromosome band 1p36]
Location_base_pair Starts at 13474977 and ends at 13513747 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)
LRRC38 (1p36.21) / RPS16 (19q13.2)

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)LRRC38   27005
Cards
Entrez_Gene (NCBI)LRRC38  126755  leucine rich repeat containing 38
Aliases
GeneCards (Weizmann)LRRC38
Ensembl hg19 (Hinxton)ENSG00000162494 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000162494 [Gene_View]  chr1:13474977-13513747 [Contig_View]  LRRC38 [Vega]
ICGC DataPortalENSG00000162494
TCGA cBioPortalLRRC38
AceView (NCBI)LRRC38
Genatlas (Paris)LRRC38
WikiGenes126755
SOURCE (Princeton)LRRC38
Genetics Home Reference (NIH)LRRC38
Genomic and cartography
GoldenPath hg38 (UCSC)LRRC38  -     chr1:13474977-13513747 -  1p36.21   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)LRRC38  -     1p36.21   [Description]    (hg19-Feb_2009)
EnsemblLRRC38 - 1p36.21 [CytoView hg19]  LRRC38 - 1p36.21 [CytoView hg38]
Mapping of homologs : NCBILRRC38 [Mapview hg19]  LRRC38 [Mapview hg38]
OMIM615212   
Gene and transcription
Genbank (Entrez)BC016048
RefSeq transcript (Entrez)NM_001010847
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)LRRC38
Cluster EST : UnigeneHs.657356 [ NCBI ]
CGAP (NCI)Hs.657356
Alternative Splicing GalleryENSG00000162494
Gene ExpressionLRRC38 [ NCBI-GEO ]   LRRC38 [ EBI - ARRAY_EXPRESS ]   LRRC38 [ SEEK ]   LRRC38 [ MEM ]
Gene Expression Viewer (FireBrowse)LRRC38 [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevestigatorExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)126755
GTEX Portal (Tissue expression)LRRC38
Human Protein AtlasENSG00000162494-LRRC38 [pathology]   [cell]   [tissue]
Protein : pattern, domain, 3D structure
UniProt/SwissProtQ5VT99   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtQ5VT99  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProQ5VT99
Splice isoforms : SwissVarQ5VT99
PhosPhoSitePlusQ5VT99
Domaine pattern : Prosite (Expaxy)LRR (PS51450)   
Domains : Interpro (EBI)Cys-rich_flank_reg_C    L_dom-like    Leu-rich_rpt    Leu-rich_rpt_typical-subtyp    LRRNT   
Domain families : Pfam (Sanger)LRR_8 (PF13855)   
Domain families : Pfam (NCBI)pfam13855   
Domain families : Smart (EMBL)LRR_TYP (SM00369)  LRRCT (SM00082)  LRRNT (SM00013)  
Conserved Domain (NCBI)LRRC38
DMDM Disease mutations126755
Blocks (Seattle)LRRC38
SuperfamilyQ5VT99
Human Protein Atlas [tissue]ENSG00000162494-LRRC38 [tissue]
Peptide AtlasQ5VT99
IPIIPI00059708   
Protein Interaction databases
DIP (DOE-UCLA)Q5VT99
IntAct (EBI)Q5VT99
FunCoupENSG00000162494
BioGRIDLRRC38
STRING (EMBL)LRRC38
ZODIACLRRC38
Ontologies - Pathways
QuickGOQ5VT99
Ontology : AmiGOproteinaceous extracellular matrix  extracellular space  plasma membrane  ion transport  axonogenesis  integral component of membrane  
Ontology : EGO-EBIproteinaceous extracellular matrix  extracellular space  plasma membrane  ion transport  axonogenesis  integral component of membrane  
NDEx NetworkLRRC38
Atlas of Cancer Signalling NetworkLRRC38
Wikipedia pathwaysLRRC38
Orthology - Evolution
OrthoDB126755
GeneTree (enSembl)ENSG00000162494
Phylogenetic Trees/Animal Genes : TreeFamLRRC38
HOVERGENQ5VT99
HOGENOMQ5VT99
Homologs : HomoloGeneLRRC38
Homology/Alignments : Family Browser (UCSC)LRRC38
Gene fusions - Rearrangements
Tumor Fusion PortalLRRC38
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerLRRC38 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)LRRC38
dbVarLRRC38
ClinVarLRRC38
1000_GenomesLRRC38 
Exome Variant ServerLRRC38
ExAC (Exome Aggregation Consortium)ENSG00000162494
GNOMAD BrowserENSG00000162494
Genetic variants : HAPMAP126755
Genomic Variants (DGV)LRRC38 [DGVbeta]
DECIPHERLRRC38 [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisLRRC38 
Mutations
ICGC Data PortalLRRC38 
TCGA Data PortalLRRC38 
Broad Tumor PortalLRRC38
OASIS PortalLRRC38 [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICLRRC38  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDLRRC38
BioMutasearch LRRC38
DgiDB (Drug Gene Interaction Database)LRRC38
DoCM (Curated mutations)LRRC38 (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)LRRC38 (select a term)
intoGenLRRC38
Cancer3DLRRC38(select the gene name)
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM615212   
Orphanet
DisGeNETLRRC38
MedgenLRRC38
Genetic Testing Registry LRRC38
NextProtQ5VT99 [Medical]
TSGene126755
GENETestsLRRC38
Target ValidationLRRC38
Huge Navigator LRRC38 [HugePedia]
snp3D : Map Gene to Disease126755
BioCentury BCIQLRRC38
ClinGenLRRC38
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD126755
Chemical/Pharm GKB GenePA142671526
Clinical trialLRRC38
Miscellaneous
canSAR (ICR)LRRC38 (select the gene name)
Probes
Litterature
PubMed3 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineLRRC38
EVEXLRRC38
GoPubMedLRRC38
iHOPLRRC38
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

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indexed on : Mon Nov 20 19:55:17 CET 2017

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