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

SMG9 (SMG9, nonsense mediated mRNA decay factor)

Identity

Alias_namesC19orf61
chromosome 19 open reading frame 61
smg-9 homolog, nonsense mediated mRNA decay factor (C. elegans)
Alias_symbol (synonym)FLJ12886
Other aliasF17127_1
HBMS
HGNC (Hugo) SMG9
LocusID (NCBI) 56006
Atlas_Id 73559
Location 19q13.31  [Link to chromosome band 19q13]
Location_base_pair Starts at 43727997 and ends at 43755036 bp from pter ( according to hg38-Dec_2013)
Fusion genes
(updated 2016)
SMG9 (19q13.31) / KCNN4 (19q13.31)SMG9 (19q13.31) / KDM1B (6p22.3)ZNF415 (19q13.42) / SMG9 (19q13.31)

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)SMG9   25763
Cards
Entrez_Gene (NCBI)SMG9  56006  SMG9, nonsense mediated mRNA decay factor
AliasesC19orf61; F17127_1; HBMS
GeneCards (Weizmann)SMG9
Ensembl hg19 (Hinxton) [Gene_View]
Ensembl hg38 (Hinxton) [Gene_View]  chr19:43727997-43755036 [Contig_View]  SMG9 [Vega]
TCGA cBioPortalSMG9
AceView (NCBI)SMG9
Genatlas (Paris)SMG9
WikiGenes56006
SOURCE (Princeton)SMG9
Genetics Home Reference (NIH)SMG9
Genomic and cartography
GoldenPath hg38 (UCSC)SMG9  -     chr19:43727997-43755036 -  19q13.31   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)SMG9  -     19q13.31   [Description]    (hg19-Feb_2009)
EnsemblSMG9 - 19q13.31 [CytoView hg19]  SMG9 - 19q13.31 [CytoView hg38]
Mapping of homologs : NCBISMG9 [Mapview hg19]  SMG9 [Mapview hg38]
OMIM613176   616920   
Gene and transcription
Genbank (Entrez)AK022948 AK309830 AL136606 BC008869 BM981890
RefSeq transcript (Entrez)NM_019108
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)SMG9
Cluster EST : UnigeneHs.466875 [ NCBI ]
CGAP (NCI)Hs.466875
Gene ExpressionSMG9 [ NCBI-GEO ]   SMG9 [ EBI - ARRAY_EXPRESS ]   SMG9 [ SEEK ]   SMG9 [ MEM ]
Gene Expression Viewer (FireBrowse)SMG9 [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevisibleExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)56006
GTEX Portal (Tissue expression)SMG9
Protein : pattern, domain, 3D structure
UniProt/SwissProtQ9H0W8   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtQ9H0W8  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProQ9H0W8
Splice isoforms : SwissVarQ9H0W8
PhosPhoSitePlusQ9H0W8
Domains : Interpro (EBI)P-loop_NTPase    Smg8/Smg9   
Domain families : Pfam (Sanger)Smg8_Smg9 (PF10220)   
Domain families : Pfam (NCBI)pfam10220   
Conserved Domain (NCBI)SMG9
DMDM Disease mutations56006
Blocks (Seattle)SMG9
SuperfamilyQ9H0W8
Peptide AtlasQ9H0W8
HPRD07800
IPIIPI00012669   IPI00847553   
Protein Interaction databases
DIP (DOE-UCLA)Q9H0W8
IntAct (EBI)Q9H0W8
BioGRIDSMG9
STRING (EMBL)SMG9
ZODIACSMG9
Ontologies - Pathways
QuickGOQ9H0W8
Ontology : AmiGOnuclear-transcribed mRNA catabolic process, nonsense-mediated decay  nuclear-transcribed mRNA catabolic process, nonsense-mediated decay  eye development  protein binding  intracellular  cytosol  brain development  heart development  identical protein binding  
Ontology : EGO-EBInuclear-transcribed mRNA catabolic process, nonsense-mediated decay  nuclear-transcribed mRNA catabolic process, nonsense-mediated decay  eye development  protein binding  intracellular  cytosol  brain development  heart development  identical protein binding  
NDEx NetworkSMG9
Atlas of Cancer Signalling NetworkSMG9
Wikipedia pathwaysSMG9
Orthology - Evolution
OrthoDB56006
Phylogenetic Trees/Animal Genes : TreeFamSMG9
HOVERGENQ9H0W8
HOGENOMQ9H0W8
Homologs : HomoloGeneSMG9
Homology/Alignments : Family Browser (UCSC)SMG9
Gene fusions - Rearrangements
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerSMG9 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)SMG9
dbVarSMG9
ClinVarSMG9
1000_GenomesSMG9 
Exome Variant ServerSMG9
ExAC (Exome Aggregation Consortium)SMG9 (select the gene name)
Genetic variants : HAPMAP56006
Genomic Variants (DGV)SMG9 [DGVbeta]
DECIPHERSMG9 [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisSMG9 
Mutations
ICGC Data PortalSMG9 
TCGA Data PortalSMG9 
Broad Tumor PortalSMG9
OASIS PortalSMG9 [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICSMG9  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDSMG9
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 SMG9
DgiDB (Drug Gene Interaction Database)SMG9
DoCM (Curated mutations)SMG9 (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)SMG9 (select a term)
intoGenSMG9
Cancer3DSMG9(select the gene name)
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM613176    616920   
Orphanet
MedgenSMG9
Genetic Testing Registry SMG9
NextProtQ9H0W8 [Medical]
TSGene56006
GENETestsSMG9
Target ValidationSMG9
Huge Navigator SMG9 [HugePedia]
snp3D : Map Gene to Disease56006
BioCentury BCIQSMG9
ClinGenSMG9
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD56006
Chemical/Pharm GKB GenePA162378734
Clinical trialSMG9
Miscellaneous
canSAR (ICR)SMG9 (select the gene name)
Probes
Litterature
PubMed15 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineSMG9
EVEXSMG9
GoPubMedSMG9
iHOPSMG9
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 : Mon Sep 18 13:38:28 CEST 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.