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LYSMD1 (LysM domain containing 1)

Identity

Alias_namesLysM, putative peptidoglycan-binding, domain containing 1
Alias_symbol (synonym)SB145
MGC35223
RP11-68I18.5
Other alias
HGNC (Hugo) LYSMD1
LocusID (NCBI) 388695
Atlas_Id 68732
Location 1q21.3  [Link to chromosome band 1q21]
Location_base_pair Starts at 151159748 and ends at 151165948 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)

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)LYSMD1   32070
Cards
Entrez_Gene (NCBI)LYSMD1  388695  LysM domain containing 1
AliasesSB145
GeneCards (Weizmann)LYSMD1
Ensembl hg19 (Hinxton)ENSG00000163155 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000163155 [Gene_View]  chr1:151159748-151165948 [Contig_View]  LYSMD1 [Vega]
ICGC DataPortalENSG00000163155
TCGA cBioPortalLYSMD1
AceView (NCBI)LYSMD1
Genatlas (Paris)LYSMD1
WikiGenes388695
SOURCE (Princeton)LYSMD1
Genetics Home Reference (NIH)LYSMD1
Genomic and cartography
GoldenPath hg38 (UCSC)LYSMD1  -     chr1:151159748-151165948 -  1q21.3   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)LYSMD1  -     1q21.3   [Description]    (hg19-Feb_2009)
EnsemblLYSMD1 - 1q21.3 [CytoView hg19]  LYSMD1 - 1q21.3 [CytoView hg38]
Mapping of homologs : NCBILYSMD1 [Mapview hg19]  LYSMD1 [Mapview hg38]
Gene and transcription
Genbank (Entrez)AK298706 AK298814 AL122088 AY037156 BC031649
RefSeq transcript (Entrez)NM_001136543 NM_212551
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)LYSMD1
Cluster EST : UnigeneHs.591482 [ NCBI ]
CGAP (NCI)Hs.591482
Alternative Splicing GalleryENSG00000163155
Gene ExpressionLYSMD1 [ NCBI-GEO ]   LYSMD1 [ EBI - ARRAY_EXPRESS ]   LYSMD1 [ SEEK ]   LYSMD1 [ MEM ]
Gene Expression Viewer (FireBrowse)LYSMD1 [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevestigatorExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)388695
GTEX Portal (Tissue expression)LYSMD1
Human Protein AtlasENSG00000163155-LYSMD1 [pathology]   [cell]   [tissue]
Protein : pattern, domain, 3D structure
UniProt/SwissProtQ96S90   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtQ96S90  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProQ96S90
Splice isoforms : SwissVarQ96S90
PhosPhoSitePlusQ96S90
Domaine pattern : Prosite (Expaxy)LYSM (PS51782)   
Domains : Interpro (EBI)LysM_dom   
Domain families : Pfam (Sanger)LysM (PF01476)   
Domain families : Pfam (NCBI)pfam01476   
Domain families : Smart (EMBL)LysM (SM00257)  
Conserved Domain (NCBI)LYSMD1
DMDM Disease mutations388695
Blocks (Seattle)LYSMD1
PDB (SRS)2DJP   
PDB (PDBSum)2DJP   
PDB (IMB)2DJP   
PDB (RSDB)2DJP   
Structural Biology KnowledgeBase2DJP   
SCOP (Structural Classification of Proteins)2DJP   
CATH (Classification of proteins structures)2DJP   
SuperfamilyQ96S90
Human Protein Atlas [tissue]ENSG00000163155-LYSMD1 [tissue]
Peptide AtlasQ96S90
HPRD18017
IPIIPI00045531   IPI00909116   
Protein Interaction databases
DIP (DOE-UCLA)Q96S90
IntAct (EBI)Q96S90
FunCoupENSG00000163155
BioGRIDLYSMD1
STRING (EMBL)LYSMD1
ZODIACLYSMD1
Ontologies - Pathways
QuickGOQ96S90
Ontology : AmiGOprotein binding  
Ontology : EGO-EBIprotein binding  
NDEx NetworkLYSMD1
Atlas of Cancer Signalling NetworkLYSMD1
Wikipedia pathwaysLYSMD1
Orthology - Evolution
OrthoDB388695
GeneTree (enSembl)ENSG00000163155
Phylogenetic Trees/Animal Genes : TreeFamLYSMD1
HOVERGENQ96S90
HOGENOMQ96S90
Homologs : HomoloGeneLYSMD1
Homology/Alignments : Family Browser (UCSC)LYSMD1
Gene fusions - Rearrangements
Fusion: Tumor Portal LYSMD1
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerLYSMD1 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)LYSMD1
dbVarLYSMD1
ClinVarLYSMD1
1000_GenomesLYSMD1 
Exome Variant ServerLYSMD1
ExAC (Exome Aggregation Consortium)ENSG00000163155
GNOMAD BrowserENSG00000163155
Genetic variants : HAPMAP388695
Genomic Variants (DGV)LYSMD1 [DGVbeta]
DECIPHERLYSMD1 [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisLYSMD1 
Mutations
ICGC Data PortalLYSMD1 
TCGA Data PortalLYSMD1 
Broad Tumor PortalLYSMD1
OASIS PortalLYSMD1 [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICLYSMD1  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDLYSMD1
LOVD (Leiden Open Variation Database)Whole genome datasets
LOVD (Leiden Open Variation Database)LOVD 3.0 shared installation
BioMutasearch LYSMD1
DgiDB (Drug Gene Interaction Database)LYSMD1
DoCM (Curated mutations)LYSMD1 (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)LYSMD1 (select a term)
intoGenLYSMD1
Cancer3DLYSMD1(select the gene name)
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM
Orphanet
MedgenLYSMD1
Genetic Testing Registry LYSMD1
NextProtQ96S90 [Medical]
TSGene388695
GENETestsLYSMD1
Target ValidationLYSMD1
Huge Navigator LYSMD1 [HugePedia]
snp3D : Map Gene to Disease388695
BioCentury BCIQLYSMD1
ClinGenLYSMD1
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD388695
Chemical/Pharm GKB GenePA142671493
Clinical trialLYSMD1
Miscellaneous
canSAR (ICR)LYSMD1 (select the gene name)
Probes
Litterature
PubMed6 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineLYSMD1
EVEXLYSMD1
GoPubMedLYSMD1
iHOPLYSMD1
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

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indexed on : Thu Nov 9 12:12:00 CET 2017

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