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LEMD3 (LEM domain containing 3)

Identity

Other namesMAN1
HGNC (Hugo) LEMD3
LocusID (NCBI) 23592
Atlas_Id 51755
Location 12q14.3
Location_base_pair Starts at 65563351 and ends at 65642141 bp from pter ( according to hg19-Feb_2009)
Fusion genes
(updated 2015)
LEMD3 12q14.3 / LYZ 12q15LEMD3 12q14.3 / XPOT 12q14.2

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)LEMD3   28887
Cards
Entrez_Gene (NCBI)LEMD3  23592  LEM domain containing 3
GeneCards (Weizmann)LEMD3
Ensembl hg19 (Hinxton)ENSG00000174106 [Gene_View]  chr12:65563351-65642141 [Contig_View]  LEMD3 [Vega]
Ensembl hg38 (Hinxton)ENSG00000174106 [Gene_View]  chr12:65563351-65642141 [Contig_View]  LEMD3 [Vega]
ICGC DataPortalENSG00000174106
TCGA cBioPortalLEMD3
AceView (NCBI)LEMD3
Genatlas (Paris)LEMD3
WikiGenes23592
SOURCE (Princeton)LEMD3
Genomic and cartography
GoldenPath hg19 (UCSC)LEMD3  -     chr12:65563351-65642141 +  12q14.3   [Description]    (hg19-Feb_2009)
GoldenPath hg38 (UCSC)LEMD3  -     12q14.3   [Description]    (hg38-Dec_2013)
EnsemblLEMD3 - 12q14.3 [CytoView hg19]  LEMD3 - 12q14.3 [CytoView hg38]
Mapping of homologs : NCBILEMD3 [Mapview hg19]  LEMD3 [Mapview hg38]
OMIM155950   166700   607844   
Gene and transcription
Genbank (Entrez)AF112299 AK024954 AK295406 AK304317 AK312473
RefSeq transcript (Entrez)NM_001167614 NM_014319
RefSeq genomic (Entrez)NC_000012 NC_018923 NG_016210 NT_029419 NW_004929384
Consensus coding sequences : CCDS (NCBI)LEMD3
Cluster EST : UnigeneHs.744150 [ NCBI ]
CGAP (NCI)Hs.744150
Alternative Splicing : Fast-db (Paris)GSHG0006803
Alternative Splicing GalleryENSG00000174106
Gene ExpressionLEMD3 [ NCBI-GEO ]     LEMD3 [ SEEK ]   LEMD3 [ MEM ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
BioGPS (Tissue expression)23592
Protein : pattern, domain, 3D structure
UniProt/SwissProtQ9Y2U8 (Uniprot)
NextProtQ9Y2U8  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProQ9Y2U8
Splice isoforms : SwissVarQ9Y2U8 (Swissvar)
PhosPhoSitePlusQ9Y2U8
Domaine pattern : Prosite (Expaxy)LEM (PS50954)   
Domains : Interpro (EBI)Inner-Nucl-membr_MAN1    LEM/LEM-like_dom    LEM_dom    Nucleotide-bd_a/b_plait   
Domain families : Pfam (Sanger)LEM (PF03020)    MSC (PF09402)   
Domain families : Pfam (NCBI)pfam03020    pfam09402   
Domain families : Smart (EMBL)LEM (SM00540)  
DMDM Disease mutations23592
Blocks (Seattle)LEMD3
PDB (SRS)2CH0   
PDB (PDBSum)2CH0   
PDB (IMB)2CH0   
PDB (RSDB)2CH0   
Structural Biology KnowledgeBase2CH0   
SCOP (Structural Classification of Proteins)2CH0   
CATH (Classification of proteins structures)2CH0   
Human Protein AtlasENSG00000174106
Peptide AtlasQ9Y2U8
HPRD09704
IPIIPI00032491   IPI00954965   
Protein Interaction databases
DIP (DOE-UCLA)Q9Y2U8
IntAct (EBI)Q9Y2U8
FunCoupENSG00000174106
BioGRIDLEMD3
IntegromeDBLEMD3
STRING (EMBL)LEMD3
ZODIACLEMD3
Ontologies - Pathways
QuickGOQ9Y2U8
Ontology : AmiGOnucleotide binding  blood vessel endothelial cell migration involved in intussusceptive angiogenesis  DNA binding  protein binding  nuclear inner membrane  integral component of nuclear inner membrane  nucleus organization  membrane  integral component of membrane  negative regulation of transforming growth factor beta receptor signaling pathway  negative regulation of BMP signaling pathway  negative regulation of activin receptor signaling pathway  skeletal muscle cell differentiation  regulation of cell cycle  regulation of extracellular matrix organization  
Ontology : EGO-EBInucleotide binding  blood vessel endothelial cell migration involved in intussusceptive angiogenesis  DNA binding  protein binding  nuclear inner membrane  integral component of nuclear inner membrane  nucleus organization  membrane  integral component of membrane  negative regulation of transforming growth factor beta receptor signaling pathway  negative regulation of BMP signaling pathway  negative regulation of activin receptor signaling pathway  skeletal muscle cell differentiation  regulation of cell cycle  regulation of extracellular matrix organization  
Protein Interaction DatabaseLEMD3
Atlas of Cancer Signalling NetworkLEMD3
Wikipedia pathwaysLEMD3
Orthology - Evolution
OrthoDB23592
GeneTree (enSembl)ENSG00000174106
Phylogenetic Trees/Animal Genes : TreeFamLEMD3
Homologs : HomoloGeneLEMD3
Homology/Alignments : Family Browser (UCSC)LEMD3
Gene fusions - Rearrangements
Fusion: TCGALEMD3 12q14.3 LYZ 12q15 BRCA
Fusion: TCGALEMD3 12q14.3 XPOT 12q14.2 BRCA
Polymorphisms : SNP, variants
NCBI Variation ViewerLEMD3 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)LEMD3
dbVarLEMD3
ClinVarLEMD3
1000_GenomesLEMD3 
Exome Variant ServerLEMD3
Exome Aggregation Consortium (ExAC)ENSG00000174106
SNP (GeneSNP Utah)LEMD3
SNP : HGBaseLEMD3
Genetic variants : HAPMAPLEMD3
Genomic Variants (DGV)LEMD3 [DGVbeta]
Mutations
ICGC Data PortalLEMD3 
TCGA Data PortalLEMD3 
Tumor PortalLEMD3
TCGA Copy Number PortalLEMD3
Somatic Mutations in Cancer : COSMICLEMD3 
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 LEMD3
DgiDB (Drug Gene Interaction Database)LEMD3
DoCM (Curated mutations)LEMD3 (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)LEMD3 (select a term)
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] 
Diseases
DECIPHER (Syndromes)12:65563351-65642141
CONAN: Copy Number AnalysisLEMD3 
Mutations and Diseases : HGMDLEMD3
OMIM155950    166700    607844   
MedgenLEMD3
NextProtQ9Y2U8 [Medical]
TSGene23592
GENETestsLEMD3
Huge Navigator LEMD3 [HugePedia]  LEMD3 [HugeCancerGEM]
snp3D : Map Gene to Disease23592
BioCentury BCIQLEMD3
General knowledge
Chemical/Protein Interactions : CTD23592
Chemical/Pharm GKB GenePA134907442
Clinical trialLEMD3
Other databases
Probes
Litterature
PubMed30 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineLEMD3
GoPubMedLEMD3
iHOPLEMD3
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

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indexed on : Sat Jan 16 18:54:44 CET 2016

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