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LSM2 (LSM2 homolog, U6 small nuclear RNA and mRNA degradation associated)

Identity

Alias_namesC6orf28
chromosome 6 open reading frame 28
LSM2 homolog, U6 small nuclear RNA associated (S. cerevisiae)
Alias_symbol (synonym)G7b
YBL026W
Other aliasG7B
snRNP
HGNC (Hugo) LSM2
LocusID (NCBI) 57819
Atlas_Id 55839
Location 6p21.33  [Link to chromosome band 6p21]
Location_base_pair Starts at 31797392 and ends at 31806984 bp from pter ( according to hg38-Dec_2013)

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)LSM2   13940
Cards
Entrez_Gene (NCBI)LSM2  57819  LSM2 homolog, U6 small nuclear RNA and mRNA degradation associated
AliasesC6orf28; G7B; YBL026W; snRNP
GeneCards (Weizmann)LSM2
Ensembl hg19 (Hinxton)ENSG00000204392 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000204392 [Gene_View]  chr6:31797392-31806984 [Contig_View]  LSM2 [Vega]
ICGC DataPortalENSG00000204392
TCGA cBioPortalLSM2
AceView (NCBI)LSM2
Genatlas (Paris)LSM2
WikiGenes57819
SOURCE (Princeton)LSM2
Genetics Home Reference (NIH)LSM2
Genomic and cartography
GoldenPath hg38 (UCSC)LSM2  -     chr6:31797392-31806984 -  6p21.33   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)LSM2  -     6p21.33   [Description]    (hg19-Feb_2009)
EnsemblLSM2 - 6p21.33 [CytoView hg19]  LSM2 - 6p21.33 [CytoView hg38]
Mapping of homologs : NCBILSM2 [Mapview hg19]  LSM2 [Mapview hg38]
OMIM607282   
Gene and transcription
Genbank (Entrez)AF136977 AF182288 AF196468 AI570628 AJ245416
RefSeq transcript (Entrez)NM_021177
RefSeq genomic (Entrez)NC_000006 NC_018917 NT_113891 NT_167244 NT_167245 NT_167247 NT_167248
Consensus coding sequences : CCDS (NCBI)LSM2
Cluster EST : UnigeneHs.103106 [ NCBI ]
CGAP (NCI)Hs.103106
Alternative Splicing GalleryENSG00000204392
Gene ExpressionLSM2 [ NCBI-GEO ]   LSM2 [ EBI - ARRAY_EXPRESS ]   LSM2 [ SEEK ]   LSM2 [ MEM ]
Gene Expression Viewer (FireBrowse)LSM2 [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevisibleExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)57819
GTEX Portal (Tissue expression)LSM2
Protein : pattern, domain, 3D structure
UniProt/SwissProtQ9Y333   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtQ9Y333  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProQ9Y333
Splice isoforms : SwissVarQ9Y333
PhosPhoSitePlusQ9Y333
Domains : Interpro (EBI)LSM_dom    LSM_dom_euk/arc    U6_snRNA_Lsm2   
Domain families : Pfam (Sanger)LSM (PF01423)   
Domain families : Pfam (NCBI)pfam01423   
Domain families : Smart (EMBL)Sm (SM00651)  
Conserved Domain (NCBI)LSM2
DMDM Disease mutations57819
Blocks (Seattle)LSM2
PDB (SRS)3JCR   
PDB (PDBSum)3JCR   
PDB (IMB)3JCR   
PDB (RSDB)3JCR   
Structural Biology KnowledgeBase3JCR   
SCOP (Structural Classification of Proteins)3JCR   
CATH (Classification of proteins structures)3JCR   
SuperfamilyQ9Y333
Human Protein AtlasENSG00000204392
Peptide AtlasQ9Y333
HPRD06282
IPIIPI00032460   
Protein Interaction databases
DIP (DOE-UCLA)Q9Y333
IntAct (EBI)Q9Y333
FunCoupENSG00000204392
BioGRIDLSM2
STRING (EMBL)LSM2
ZODIACLSM2
Ontologies - Pathways
QuickGOQ9Y333
Ontology : AmiGOmRNA splicing, via spliceosome  mRNA splicing, via spliceosome  mRNA splicing, via spliceosome  P-body  RNA binding  RNA binding  protein binding  nucleoplasm  U6 snRNP  cytosol  U6 snRNA binding  Ral GTPase binding  exonucleolytic nuclear-transcribed mRNA catabolic process involved in deadenylation-dependent decay  U4/U6 x U5 tri-snRNP complex  precatalytic spliceosome  catalytic step 2 spliceosome  Lsm1-7-Pat1 complex  
Ontology : EGO-EBImRNA splicing, via spliceosome  mRNA splicing, via spliceosome  mRNA splicing, via spliceosome  P-body  RNA binding  RNA binding  protein binding  nucleoplasm  U6 snRNP  cytosol  U6 snRNA binding  Ral GTPase binding  exonucleolytic nuclear-transcribed mRNA catabolic process involved in deadenylation-dependent decay  U4/U6 x U5 tri-snRNP complex  precatalytic spliceosome  catalytic step 2 spliceosome  Lsm1-7-Pat1 complex  
Pathways : KEGGRNA degradation    Spliceosome   
NDEx NetworkLSM2
Atlas of Cancer Signalling NetworkLSM2
Wikipedia pathwaysLSM2
Orthology - Evolution
OrthoDB57819
GeneTree (enSembl)ENSG00000204392
Phylogenetic Trees/Animal Genes : TreeFamLSM2
HOVERGENQ9Y333
HOGENOMQ9Y333
Homologs : HomoloGeneLSM2
Homology/Alignments : Family Browser (UCSC)LSM2
Gene fusions - Rearrangements
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerLSM2 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)LSM2
dbVarLSM2
ClinVarLSM2
1000_GenomesLSM2 
Exome Variant ServerLSM2
ExAC (Exome Aggregation Consortium)LSM2 (select the gene name)
Genetic variants : HAPMAP57819
Genomic Variants (DGV)LSM2 [DGVbeta]
DECIPHERLSM2 [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisLSM2 
Mutations
ICGC Data PortalLSM2 
TCGA Data PortalLSM2 
Broad Tumor PortalLSM2
OASIS PortalLSM2 [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICLSM2  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDLSM2
LOVD (Leiden Open Variation Database)Whole genome datasets
LOVD (Leiden Open Variation Database)LOVD 3.0 shared installation
BioMutasearch LSM2
DgiDB (Drug Gene Interaction Database)LSM2
DoCM (Curated mutations)LSM2 (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)LSM2 (select a term)
intoGenLSM2
Cancer3DLSM2(select the gene name)
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM607282   
Orphanet
MedgenLSM2
Genetic Testing Registry LSM2
NextProtQ9Y333 [Medical]
TSGene57819
GENETestsLSM2
Target ValidationLSM2
Huge Navigator LSM2 [HugePedia]
snp3D : Map Gene to Disease57819
BioCentury BCIQLSM2
ClinGenLSM2
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD57819
Chemical/Pharm GKB GenePA25929
Clinical trialLSM2
Miscellaneous
canSAR (ICR)LSM2 (select the gene name)
Probes
Litterature
PubMed39 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineLSM2
EVEXLSM2
GoPubMedLSM2
iHOPLSM2
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

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indexed on : Wed Jun 7 12:41:39 CEST 2017

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