Atlas of Genetics and Cytogenetics in Oncology and Haematology


Home   Genes   Leukemias   Solid Tumors   Cancer-Prone   Deep Insight   Case Reports   Journals  Portal   Teaching   

X Y 1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 NA

LRRC42 (leucine rich repeat containing 42)

Identity

Alias_symbol (synonym)MGC8974
Other aliasdJ167A19.4
HGNC (Hugo) LRRC42
LocusID (NCBI) 115353
Atlas_Id 55030
Location 1p32.3  [Link to chromosome band 1p32]
Location_base_pair Starts at 53946326 and ends at 53968168 bp from pter ( according to hg38-Dec_2013)
Fusion genes
(updated 2016)
HDAC1 (1p35.1) / LRRC42 (1p32.3)HDAC1 1p35.1 / LRRC42 1p32.3

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)LRRC42   28792
Cards
Entrez_Gene (NCBI)LRRC42  115353  leucine rich repeat containing 42
AliasesdJ167A19.4
GeneCards (Weizmann)LRRC42
Ensembl hg19 (Hinxton)ENSG00000116212 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000116212 [Gene_View]  chr1:53946326-53968168 [Contig_View]  LRRC42 [Vega]
ICGC DataPortalENSG00000116212
TCGA cBioPortalLRRC42
AceView (NCBI)LRRC42
Genatlas (Paris)LRRC42
WikiGenes115353
SOURCE (Princeton)LRRC42
Genetics Home Reference (NIH)LRRC42
Genomic and cartography
GoldenPath hg38 (UCSC)LRRC42  -     chr1:53946326-53968168 +  1p32.3   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)LRRC42  -     1p32.3   [Description]    (hg19-Feb_2009)
EnsemblLRRC42 - 1p32.3 [CytoView hg19]  LRRC42 - 1p32.3 [CytoView hg38]
Mapping of homologs : NCBILRRC42 [Mapview hg19]  LRRC42 [Mapview hg38]
Gene and transcription
Genbank (Entrez)AK074521 AK075201 AK090881 AK095767 BC013101
RefSeq transcript (Entrez)NM_001256409 NM_052940
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)LRRC42
Cluster EST : UnigeneHs.40094 [ NCBI ]
CGAP (NCI)Hs.40094
Alternative Splicing GalleryENSG00000116212
Gene ExpressionLRRC42 [ NCBI-GEO ]   LRRC42 [ EBI - ARRAY_EXPRESS ]   LRRC42 [ SEEK ]   LRRC42 [ MEM ]
Gene Expression Viewer (FireBrowse)LRRC42 [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevisibleExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)115353
GTEX Portal (Tissue expression)LRRC42
Protein : pattern, domain, 3D structure
UniProt/SwissProtQ9Y546   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtQ9Y546  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProQ9Y546
Splice isoforms : SwissVarQ9Y546
PhosPhoSitePlusQ9Y546
Domains : Interpro (EBI)L_dom-like    Leu-rich_rpt   
Domain families : Pfam (Sanger)LRR_6 (PF13516)   
Domain families : Pfam (NCBI)pfam13516   
Conserved Domain (NCBI)LRRC42
DMDM Disease mutations115353
Blocks (Seattle)LRRC42
SuperfamilyQ9Y546
Human Protein AtlasENSG00000116212
Peptide AtlasQ9Y546
HPRD14711
IPIIPI00177655   IPI00643491   IPI00644030   
Protein Interaction databases
DIP (DOE-UCLA)Q9Y546
IntAct (EBI)Q9Y546
FunCoupENSG00000116212
BioGRIDLRRC42
STRING (EMBL)LRRC42
ZODIACLRRC42
Ontologies - Pathways
QuickGOQ9Y546
Ontology : AmiGO
Ontology : EGO-EBI
NDEx NetworkLRRC42
Atlas of Cancer Signalling NetworkLRRC42
Wikipedia pathwaysLRRC42
Orthology - Evolution
OrthoDB115353
GeneTree (enSembl)ENSG00000116212
Phylogenetic Trees/Animal Genes : TreeFamLRRC42
HOVERGENQ9Y546
HOGENOMQ9Y546
Homologs : HomoloGeneLRRC42
Homology/Alignments : Family Browser (UCSC)LRRC42
Gene fusions - Rearrangements
Fusion : MitelmanHDAC1/LRRC42 [1p35.1/1p32.3]  [t(1;1)(p32;p35)]  
Fusion: TCGAHDAC1 1p35.1 LRRC42 1p32.3 LGG
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerLRRC42 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)LRRC42
dbVarLRRC42
ClinVarLRRC42
1000_GenomesLRRC42 
Exome Variant ServerLRRC42
ExAC (Exome Aggregation Consortium)LRRC42 (select the gene name)
Genetic variants : HAPMAP115353
Genomic Variants (DGV)LRRC42 [DGVbeta]
DECIPHERLRRC42 [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisLRRC42 
Mutations
ICGC Data PortalLRRC42 
TCGA Data PortalLRRC42 
Broad Tumor PortalLRRC42
OASIS PortalLRRC42 [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICLRRC42  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDLRRC42
BioMutasearch LRRC42
DgiDB (Drug Gene Interaction Database)LRRC42
DoCM (Curated mutations)LRRC42 (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)LRRC42 (select a term)
intoGenLRRC42
Cancer3DLRRC42(select the gene name)
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM
Orphanet
MedgenLRRC42
Genetic Testing Registry LRRC42
NextProtQ9Y546 [Medical]
TSGene115353
GENETestsLRRC42
Target ValidationLRRC42
Huge Navigator LRRC42 [HugePedia]
snp3D : Map Gene to Disease115353
BioCentury BCIQLRRC42
ClinGenLRRC42
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD115353
Chemical/Pharm GKB GenePA142671530
Clinical trialLRRC42
Miscellaneous
canSAR (ICR)LRRC42 (select the gene name)
Probes
Litterature
PubMed12 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineLRRC42
EVEXLRRC42
GoPubMedLRRC42
iHOPLRRC42
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

Search in all EBI   NCBI

© Atlas of Genetics and Cytogenetics in Oncology and Haematology
indexed on : Wed Jun 7 12:41:36 CEST 2017

Home   Genes   Leukemias   Solid Tumors   Cancer-Prone   Deep Insight   Case Reports   Journals  Portal   Teaching   

For comments and suggestions or contributions, please contact us

jlhuret@AtlasGeneticsOncology.org.