Atlas of Genetics and Cytogenetics in Oncology and Haematology


Home   Genes   Leukemias   Solid Tumors   Cancer-Prone   Deep Insight   Case Reports   Journals  Portal   Teaching   

X Y 1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 NA

LSM14A (LSM14A, mRNA processing body assembly factor)

Identity

Alias_namesC19orf13
FAM61A
chromosome 19 open reading frame 13
family with sequence similarity 61, member A
LSM14 homolog A (SCD6, S. cerevisiae)
Alias_symbol (synonym)DKFZP434D1335
RAP55A
RAP55
Other alias
HGNC (Hugo) LSM14A
LocusID (NCBI) 26065
Atlas_Id 54435
Location 19q13.11  [Link to chromosome band 19q13]
Location_base_pair Starts at 34172447 and ends at 34229515 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)
LSM14A (19q13.11) / ACTN4 (19q13.2)LSM14A (19q13.11) / BRAF (7q34)LSM14A (19q13.11) / DCTN2 (12q13.3)
LSM14A (19q13.11) / LSM14A (19q13.11)LSM14A (19q13.11) / PAG1 (8q21.13)LSM14A (19q13.11) / SIPA1L3 (19q13.13)
LSM14A (19q13.11) / STAG2 (Xq25)NF2 (22q12.2) / LSM14A (19q13.11)SIPA1L3 (19q13.13) / LSM14A (19q13.11)
LSM14A BRAFLSM14A 19q13.11 / ACTN4 19q13.2SIPA1L3 19q13.13 / LSM14A 19q13.11

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

 


Other Solid tumors implicated (Data extracted from papers in the Atlas) [ 1 ]
  Lung: Translocations in Adenocarcinoma


External links

Nomenclature
HGNC (Hugo)LSM14A   24489
Cards
Entrez_Gene (NCBI)LSM14A  26065  LSM14A, mRNA processing body assembly factor
AliasesC19orf13; FAM61A; RAP55; RAP55A
GeneCards (Weizmann)LSM14A
Ensembl hg19 (Hinxton)ENSG00000257103 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000257103 [Gene_View]  chr19:34172447-34229515 [Contig_View]  LSM14A [Vega]
ICGC DataPortalENSG00000257103
TCGA cBioPortalLSM14A
AceView (NCBI)LSM14A
Genatlas (Paris)LSM14A
WikiGenes26065
SOURCE (Princeton)LSM14A
Genetics Home Reference (NIH)LSM14A
Genomic and cartography
GoldenPath hg38 (UCSC)LSM14A  -     chr19:34172447-34229515 +  19q13.11   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)LSM14A  -     19q13.11   [Description]    (hg19-Feb_2009)
EnsemblLSM14A - 19q13.11 [CytoView hg19]  LSM14A - 19q13.11 [CytoView hg38]
Mapping of homologs : NCBILSM14A [Mapview hg19]  LSM14A [Mapview hg38]
OMIM610677   
Gene and transcription
Genbank (Entrez)AB069974 AB069975 AK027369 AK027643 AK127401
RefSeq transcript (Entrez)NM_001114093 NM_015578
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)LSM14A
Cluster EST : UnigeneHs.744009 [ NCBI ]
CGAP (NCI)Hs.744009
Alternative Splicing GalleryENSG00000257103
Gene ExpressionLSM14A [ NCBI-GEO ]   LSM14A [ EBI - ARRAY_EXPRESS ]   LSM14A [ SEEK ]   LSM14A [ MEM ]
Gene Expression Viewer (FireBrowse)LSM14A [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevestigatorExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)26065
GTEX Portal (Tissue expression)LSM14A
Human Protein AtlasENSG00000257103-LSM14A [pathology]   [cell]   [tissue]
Protein : pattern, domain, 3D structure
UniProt/SwissProtQ8ND56   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtQ8ND56  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProQ8ND56
Splice isoforms : SwissVarQ8ND56
PhosPhoSitePlusQ8ND56
Domaine pattern : Prosite (Expaxy)DFDF (PS51512)    FFD (PS51513)    TFG (PS51536)   
Domains : Interpro (EBI)DFDF    FDF_dom    FFD_box    Lsm14-like_N    LSM_dom    TFG_box   
Domain families : Pfam (Sanger)FDF (PF09532)    LSM14 (PF12701)   
Domain families : Pfam (NCBI)pfam09532    pfam12701   
Domain families : Smart (EMBL)FDF (SM01199)  LSM14 (SM01271)  
Conserved Domain (NCBI)LSM14A
DMDM Disease mutations26065
Blocks (Seattle)LSM14A
SuperfamilyQ8ND56
Human Protein Atlas [tissue]ENSG00000257103-LSM14A [tissue]
Peptide AtlasQ8ND56
HPRD12697
IPIIPI00478300   IPI00410590   IPI00910714   
Protein Interaction databases
DIP (DOE-UCLA)Q8ND56
IntAct (EBI)Q8ND56
FunCoupENSG00000257103
BioGRIDLSM14A
STRING (EMBL)LSM14A
ZODIACLSM14A
Ontologies - Pathways
QuickGOQ8ND56
Ontology : AmiGOP-body  double-stranded DNA binding  RNA binding  double-stranded RNA binding  single-stranded RNA binding  cytoplasm  cytosol  regulation of translation  multicellular organism development  cytoplasmic stress granule  cytoplasmic mRNA processing body assembly  cytoplasmic mRNA processing body assembly  RIG-I signaling pathway  positive regulation of type I interferon-mediated signaling pathway  
Ontology : EGO-EBIP-body  double-stranded DNA binding  RNA binding  double-stranded RNA binding  single-stranded RNA binding  cytoplasm  cytosol  regulation of translation  multicellular organism development  cytoplasmic stress granule  cytoplasmic mRNA processing body assembly  cytoplasmic mRNA processing body assembly  RIG-I signaling pathway  positive regulation of type I interferon-mediated signaling pathway  
NDEx NetworkLSM14A
Atlas of Cancer Signalling NetworkLSM14A
Wikipedia pathwaysLSM14A
Orthology - Evolution
OrthoDB26065
GeneTree (enSembl)ENSG00000257103
Phylogenetic Trees/Animal Genes : TreeFamLSM14A
HOVERGENQ8ND56
HOGENOMQ8ND56
Homologs : HomoloGeneLSM14A
Homology/Alignments : Family Browser (UCSC)LSM14A
Gene fusions - Rearrangements
Fusion : MitelmanLSM14A/ACTN4 [19q13.11/19q13.2]  
Fusion : MitelmanLSM14A/SIPA1L3 [19q13.11/19q13.13]  [t(19;19)(q13;q13)]  
Fusion : MitelmanSIPA1L3/LSM14A [19q13.13/19q13.11]  [t(19;19)(q13;q13)]  
Fusion: TCGA_MDACCLSM14A 19q13.11 ACTN4 19q13.2 BRCA
Fusion: TCGA_MDACCSIPA1L3 19q13.13 LSM14A 19q13.11 BRCA
Tumor Fusion PortalLSM14A
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerLSM14A [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)LSM14A
dbVarLSM14A
ClinVarLSM14A
1000_GenomesLSM14A 
Exome Variant ServerLSM14A
ExAC (Exome Aggregation Consortium)ENSG00000257103
GNOMAD BrowserENSG00000257103
Genetic variants : HAPMAP26065
Genomic Variants (DGV)LSM14A [DGVbeta]
DECIPHERLSM14A [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisLSM14A 
Mutations
ICGC Data PortalLSM14A 
TCGA Data PortalLSM14A 
Broad Tumor PortalLSM14A
OASIS PortalLSM14A [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICLSM14A  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDLSM14A
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 LSM14A
DgiDB (Drug Gene Interaction Database)LSM14A
DoCM (Curated mutations)LSM14A (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)LSM14A (select a term)
intoGenLSM14A
Cancer3DLSM14A(select the gene name)
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM610677   
Orphanet
DisGeNETLSM14A
MedgenLSM14A
Genetic Testing Registry LSM14A
NextProtQ8ND56 [Medical]
TSGene26065
GENETestsLSM14A
Target ValidationLSM14A
Huge Navigator LSM14A [HugePedia]
snp3D : Map Gene to Disease26065
BioCentury BCIQLSM14A
ClinGenLSM14A
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD26065
Chemical/Pharm GKB GenePA134989467
Clinical trialLSM14A
Miscellaneous
canSAR (ICR)LSM14A (select the gene name)
Probes
Litterature
PubMed27 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineLSM14A
EVEXLSM14A
GoPubMedLSM14A
iHOPLSM14A
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

Search in all EBI   NCBI

© Atlas of Genetics and Cytogenetics in Oncology and Haematology
indexed on : Tue Nov 21 14:21:01 CET 2017

Home   Genes   Leukemias   Solid Tumors   Cancer-Prone   Deep Insight   Case Reports   Journals  Portal   Teaching   

For comments and suggestions or contributions, please contact us

jlhuret@AtlasGeneticsOncology.org.