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LSM5 (LSM5 homolog, U6 small nuclear RNA and mRNA degradation associated)

Identity

Alias_namesLSM5 homolog, U6 small nuclear RNA associated (S. cerevisiae)
Alias_symbol (synonym)YER146W
Other alias
HGNC (Hugo) LSM5
LocusID (NCBI) 23658
Atlas_Id 68688
Location 7p14.3  [Link to chromosome band 7p14]
Location_base_pair Starts at 32485333 and ends at 32495258 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)LSM5   17162
Cards
Entrez_Gene (NCBI)LSM5  23658  LSM5 homolog, U6 small nuclear RNA and mRNA degradation associated
AliasesYER146W
GeneCards (Weizmann)LSM5
Ensembl hg19 (Hinxton)ENSG00000106355 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000106355 [Gene_View]  chr7:32485333-32495258 [Contig_View]  LSM5 [Vega]
ICGC DataPortalENSG00000106355
TCGA cBioPortalLSM5
AceView (NCBI)LSM5
Genatlas (Paris)LSM5
WikiGenes23658
SOURCE (Princeton)LSM5
Genetics Home Reference (NIH)LSM5
Genomic and cartography
GoldenPath hg38 (UCSC)LSM5  -     chr7:32485333-32495258 -  7p14.3   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)LSM5  -     7p14.3   [Description]    (hg19-Feb_2009)
EnsemblLSM5 - 7p14.3 [CytoView hg19]  LSM5 - 7p14.3 [CytoView hg38]
Mapping of homologs : NCBILSM5 [Mapview hg19]  LSM5 [Mapview hg38]
OMIM607285   
Gene and transcription
Genbank (Entrez)AF182291 AJ238097 AK022772 AK024217 BC005938
RefSeq transcript (Entrez)NM_001130710 NM_001139499 NM_012322
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)LSM5
Cluster EST : UnigeneHs.424908 [ NCBI ]
CGAP (NCI)Hs.424908
Alternative Splicing GalleryENSG00000106355
Gene ExpressionLSM5 [ NCBI-GEO ]   LSM5 [ EBI - ARRAY_EXPRESS ]   LSM5 [ SEEK ]   LSM5 [ MEM ]
Gene Expression Viewer (FireBrowse)LSM5 [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevisibleExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)23658
GTEX Portal (Tissue expression)LSM5
Protein : pattern, domain, 3D structure
UniProt/SwissProtQ9Y4Y9   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtQ9Y4Y9  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProQ9Y4Y9
Splice isoforms : SwissVarQ9Y4Y9
PhosPhoSitePlusQ9Y4Y9
Domains : Interpro (EBI)LSm5    LSM_dom    LSM_dom_euk/arc   
Domain families : Pfam (Sanger)LSM (PF01423)   
Domain families : Pfam (NCBI)pfam01423   
Domain families : Smart (EMBL)Sm (SM00651)  
Conserved Domain (NCBI)LSM5
DMDM Disease mutations23658
Blocks (Seattle)LSM5
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   
SuperfamilyQ9Y4Y9
Human Protein AtlasENSG00000106355
Peptide AtlasQ9Y4Y9
HPRD06285
IPIIPI00220493   IPI00908769   IPI00917157   IPI00916222   
Protein Interaction databases
DIP (DOE-UCLA)Q9Y4Y9
IntAct (EBI)Q9Y4Y9
FunCoupENSG00000106355
BioGRIDLSM5
STRING (EMBL)LSM5
ZODIACLSM5
Ontologies - Pathways
QuickGOQ9Y4Y9
Ontology : AmiGOmRNA splicing, via spliceosome  mRNA splicing, via spliceosome  nuclear-transcribed mRNA catabolic process  RNA binding  protein binding  nucleus  nucleoplasm  spliceosomal complex  U6 snRNP  cytosol  mRNA processing  exonucleolytic nuclear-transcribed mRNA catabolic process involved in deadenylation-dependent decay  U4/U6 x U5 tri-snRNP complex  Lsm1-7-Pat1 complex  
Ontology : EGO-EBImRNA splicing, via spliceosome  mRNA splicing, via spliceosome  nuclear-transcribed mRNA catabolic process  RNA binding  protein binding  nucleus  nucleoplasm  spliceosomal complex  U6 snRNP  cytosol  mRNA processing  exonucleolytic nuclear-transcribed mRNA catabolic process involved in deadenylation-dependent decay  U4/U6 x U5 tri-snRNP complex  Lsm1-7-Pat1 complex  
Pathways : KEGGRNA degradation    Spliceosome   
NDEx NetworkLSM5
Atlas of Cancer Signalling NetworkLSM5
Wikipedia pathwaysLSM5
Orthology - Evolution
OrthoDB23658
GeneTree (enSembl)ENSG00000106355
Phylogenetic Trees/Animal Genes : TreeFamLSM5
HOVERGENQ9Y4Y9
HOGENOMQ9Y4Y9
Homologs : HomoloGeneLSM5
Homology/Alignments : Family Browser (UCSC)LSM5
Gene fusions - Rearrangements
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerLSM5 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)LSM5
dbVarLSM5
ClinVarLSM5
1000_GenomesLSM5 
Exome Variant ServerLSM5
ExAC (Exome Aggregation Consortium)LSM5 (select the gene name)
Genetic variants : HAPMAP23658
Genomic Variants (DGV)LSM5 [DGVbeta]
DECIPHERLSM5 [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisLSM5 
Mutations
ICGC Data PortalLSM5 
TCGA Data PortalLSM5 
Broad Tumor PortalLSM5
OASIS PortalLSM5 [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICLSM5  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDLSM5
LOVD (Leiden Open Variation Database)LOVD - Leiden Open Variation Database
BioMutasearch LSM5
DgiDB (Drug Gene Interaction Database)LSM5
DoCM (Curated mutations)LSM5 (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)LSM5 (select a term)
intoGenLSM5
Cancer3DLSM5(select the gene name)
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM607285   
Orphanet
MedgenLSM5
Genetic Testing Registry LSM5
NextProtQ9Y4Y9 [Medical]
TSGene23658
GENETestsLSM5
Target ValidationLSM5
Huge Navigator LSM5 [HugePedia]
snp3D : Map Gene to Disease23658
BioCentury BCIQLSM5
ClinGenLSM5
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD23658
Chemical/Pharm GKB GenePA134881171
Clinical trialLSM5
Miscellaneous
canSAR (ICR)LSM5 (select the gene name)
Probes
Litterature
PubMed22 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineLSM5
EVEXLSM5
GoPubMedLSM5
iHOPLSM5
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

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indexed on : Wed May 31 15:25:08 CEST 2017

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