Atlas of Genetics and Cytogenetics in Oncology and Haematology


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LRTM1 (leucine rich repeats and transmembrane domains 1)

Identity

Alias_symbol (synonym)HT017
Other alias
HGNC (Hugo) LRTM1
LocusID (NCBI) 57408
Atlas_Id 68676
Location 3p14.3  [Link to chromosome band 3p14]
Location_base_pair Starts at 54918354 and ends at 54967088 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)
GOLPH3 (5p13.3) / LRTM1 (3p14.3)

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)LRTM1   25023
Cards
Entrez_Gene (NCBI)LRTM1  57408  leucine rich repeats and transmembrane domains 1
AliasesHT017
GeneCards (Weizmann)LRTM1
Ensembl hg19 (Hinxton)ENSG00000144771 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000144771 [Gene_View]  chr3:54918354-54967088 [Contig_View]  LRTM1 [Vega]
ICGC DataPortalENSG00000144771
TCGA cBioPortalLRTM1
AceView (NCBI)LRTM1
Genatlas (Paris)LRTM1
WikiGenes57408
SOURCE (Princeton)LRTM1
Genetics Home Reference (NIH)LRTM1
Genomic and cartography
GoldenPath hg38 (UCSC)LRTM1  -     chr3:54918354-54967088 -  3p14.3   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)LRTM1  -     3p14.3   [Description]    (hg19-Feb_2009)
EnsemblLRTM1 - 3p14.3 [CytoView hg19]  LRTM1 - 3p14.3 [CytoView hg38]
Mapping of homologs : NCBILRTM1 [Mapview hg19]  LRTM1 [Mapview hg38]
Gene and transcription
Genbank (Entrez)AF225421 BC040732 BC074741 BM716618
RefSeq transcript (Entrez)NM_001304389 NM_020678
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)LRTM1
Cluster EST : UnigeneHs.591668 [ NCBI ]
CGAP (NCI)Hs.591668
Alternative Splicing GalleryENSG00000144771
Gene ExpressionLRTM1 [ NCBI-GEO ]   LRTM1 [ EBI - ARRAY_EXPRESS ]   LRTM1 [ SEEK ]   LRTM1 [ MEM ]
Gene Expression Viewer (FireBrowse)LRTM1 [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevestigatorExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)57408
GTEX Portal (Tissue expression)LRTM1
Human Protein AtlasENSG00000144771-LRTM1 [pathology]   [cell]   [tissue]
Protein : pattern, domain, 3D structure
UniProt/SwissProtQ9HBL6   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtQ9HBL6  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProQ9HBL6
Splice isoforms : SwissVarQ9HBL6
PhosPhoSitePlusQ9HBL6
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   
Domain families : Pfam (Sanger)LRR_8 (PF13855)   
Domain families : Pfam (NCBI)pfam13855   
Domain families : Smart (EMBL)LRR_TYP (SM00369)  LRRCT (SM00082)  
Conserved Domain (NCBI)LRTM1
DMDM Disease mutations57408
Blocks (Seattle)LRTM1
SuperfamilyQ9HBL6
Human Protein Atlas [tissue]ENSG00000144771-LRTM1 [tissue]
Peptide AtlasQ9HBL6
HPRD13718
IPIIPI00010227   IPI00478406   
Protein Interaction databases
DIP (DOE-UCLA)Q9HBL6
IntAct (EBI)Q9HBL6
FunCoupENSG00000144771
BioGRIDLRTM1
STRING (EMBL)LRTM1
ZODIACLRTM1
Ontologies - Pathways
QuickGOQ9HBL6
Ontology : AmiGOprotein kinase inhibitor activity  cytoplasm  negative regulation of protein kinase activity  integral component of membrane  cytokine-mediated signaling pathway  negative regulation of JAK-STAT cascade  positive regulation of synapse assembly  
Ontology : EGO-EBIprotein kinase inhibitor activity  cytoplasm  negative regulation of protein kinase activity  integral component of membrane  cytokine-mediated signaling pathway  negative regulation of JAK-STAT cascade  positive regulation of synapse assembly  
NDEx NetworkLRTM1
Atlas of Cancer Signalling NetworkLRTM1
Wikipedia pathwaysLRTM1
Orthology - Evolution
OrthoDB57408
GeneTree (enSembl)ENSG00000144771
Phylogenetic Trees/Animal Genes : TreeFamLRTM1
HOVERGENQ9HBL6
HOGENOMQ9HBL6
Homologs : HomoloGeneLRTM1
Homology/Alignments : Family Browser (UCSC)LRTM1
Gene fusions - Rearrangements
Tumor Fusion PortalLRTM1
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerLRTM1 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)LRTM1
dbVarLRTM1
ClinVarLRTM1
1000_GenomesLRTM1 
Exome Variant ServerLRTM1
ExAC (Exome Aggregation Consortium)ENSG00000144771
GNOMAD BrowserENSG00000144771
Genetic variants : HAPMAP57408
Genomic Variants (DGV)LRTM1 [DGVbeta]
DECIPHERLRTM1 [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisLRTM1 
Mutations
ICGC Data PortalLRTM1 
TCGA Data PortalLRTM1 
Broad Tumor PortalLRTM1
OASIS PortalLRTM1 [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICLRTM1  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDLRTM1
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 LRTM1
DgiDB (Drug Gene Interaction Database)LRTM1
DoCM (Curated mutations)LRTM1 (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)LRTM1 (select a term)
intoGenLRTM1
Cancer3DLRTM1(select the gene name)
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM
Orphanet
DisGeNETLRTM1
MedgenLRTM1
Genetic Testing Registry LRTM1
NextProtQ9HBL6 [Medical]
TSGene57408
GENETestsLRTM1
Target ValidationLRTM1
Huge Navigator LRTM1 [HugePedia]
snp3D : Map Gene to Disease57408
BioCentury BCIQLRTM1
ClinGenLRTM1
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD57408
Chemical/Pharm GKB GenePA142671499
Clinical trialLRTM1
Miscellaneous
canSAR (ICR)LRTM1 (select the gene name)
Probes
Litterature
PubMed6 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineLRTM1
EVEXLRTM1
GoPubMedLRTM1
iHOPLRTM1
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 : Tue Nov 21 13:08:13 CET 2017

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