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SAMD3 (sterile alpha motif domain containing 3)

Identity

Alias_symbol (synonym)bA73O6.2
FLJ34032
Other alias-
HGNC (Hugo) SAMD3
LocusID (NCBI) 154075
Atlas_Id 72967
Location 6q23.1  [Link to chromosome band 6q23]
Location_base_pair Starts at 130144302 and ends at 130222954 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)
TPD52L1 (6q22.31) / SAMD3 (6q23.1)

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 ]
  t(6;6)(q22;q23) TPD52L1/SAMD3


External links

Nomenclature
HGNC (Hugo)SAMD3   21574
Cards
Entrez_Gene (NCBI)SAMD3  154075  sterile alpha motif domain containing 3
Aliases
GeneCards (Weizmann)SAMD3
Ensembl hg19 (Hinxton)ENSG00000164483 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000164483 [Gene_View]  ENSG00000164483 [Sequence]  chr6:130144302-130222954 [Contig_View]  SAMD3 [Vega]
ICGC DataPortalENSG00000164483
TCGA cBioPortalSAMD3
AceView (NCBI)SAMD3
Genatlas (Paris)SAMD3
WikiGenes154075
SOURCE (Princeton)SAMD3
Genetics Home Reference (NIH)SAMD3
Genomic and cartography
GoldenPath hg38 (UCSC)SAMD3  -     chr6:130144302-130222954 -  6q23.1   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)SAMD3  -     6q23.1   [Description]    (hg19-Feb_2009)
EnsemblSAMD3 - 6q23.1 [CytoView hg19]  SAMD3 - 6q23.1 [CytoView hg38]
Mapping of homologs : NCBISAMD3 [Mapview hg19]  SAMD3 [Mapview hg38]
Gene and transcription
Genbank (Entrez)AI129628 AK091351 AK091882 AK302228 AK310075
RefSeq transcript (Entrez)NM_001017373 NM_001258275 NM_001277185 NM_152552
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)SAMD3
Cluster EST : UnigeneHs.440508 [ NCBI ]
CGAP (NCI)Hs.440508
Alternative Splicing GalleryENSG00000164483
Gene ExpressionSAMD3 [ NCBI-GEO ]   SAMD3 [ EBI - ARRAY_EXPRESS ]   SAMD3 [ SEEK ]   SAMD3 [ MEM ]
Gene Expression Viewer (FireBrowse)SAMD3 [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevestigatorExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)154075
GTEX Portal (Tissue expression)SAMD3
Human Protein AtlasENSG00000164483-SAMD3 [pathology]   [cell]   [tissue]
Protein : pattern, domain, 3D structure
UniProt/SwissProtQ8N6K7   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtQ8N6K7  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProQ8N6K7
Splice isoforms : SwissVarQ8N6K7
PhosPhoSitePlusQ8N6K7
Domaine pattern : Prosite (Expaxy)SAM_DOMAIN (PS50105)   
Domains : Interpro (EBI)SAM    SAM/pointed   
Domain families : Pfam (Sanger)SAM_1 (PF00536)   
Domain families : Pfam (NCBI)pfam00536   
Domain families : Smart (EMBL)SAM (SM00454)  
Conserved Domain (NCBI)SAMD3
DMDM Disease mutations154075
Blocks (Seattle)SAMD3
SuperfamilyQ8N6K7
Human Protein Atlas [tissue]ENSG00000164483-SAMD3 [tissue]
Peptide AtlasQ8N6K7
HPRD11530
IPIIPI00941516   IPI00395958   IPI00797514   IPI00975737   IPI00976333   IPI00977476   IPI00640266   IPI00975750   IPI00984936   
Protein Interaction databases
DIP (DOE-UCLA)Q8N6K7
IntAct (EBI)Q8N6K7
FunCoupENSG00000164483
BioGRIDSAMD3
STRING (EMBL)SAMD3
ZODIACSAMD3
Ontologies - Pathways
QuickGOQ8N6K7
Ontology : AmiGOprotein binding  
Ontology : EGO-EBIprotein binding  
NDEx NetworkSAMD3
Atlas of Cancer Signalling NetworkSAMD3
Wikipedia pathwaysSAMD3
Orthology - Evolution
OrthoDB154075
GeneTree (enSembl)ENSG00000164483
Phylogenetic Trees/Animal Genes : TreeFamSAMD3
HOVERGENQ8N6K7
HOGENOMQ8N6K7
Homologs : HomoloGeneSAMD3
Homology/Alignments : Family Browser (UCSC)SAMD3
Gene fusions - Rearrangements
Fusion : QuiverSAMD3
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerSAMD3 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)SAMD3
dbVarSAMD3
ClinVarSAMD3
1000_GenomesSAMD3 
Exome Variant ServerSAMD3
ExAC (Exome Aggregation Consortium)ENSG00000164483
GNOMAD BrowserENSG00000164483
Varsome BrowserSAMD3
Genetic variants : HAPMAP154075
Genomic Variants (DGV)SAMD3 [DGVbeta]
DECIPHERSAMD3 [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisSAMD3 
Mutations
ICGC Data PortalSAMD3 
TCGA Data PortalSAMD3 
Broad Tumor PortalSAMD3
OASIS PortalSAMD3 [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICSAMD3  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDSAMD3
LOVD (Leiden Open Variation Database)Whole genome datasets
LOVD (Leiden Open Variation Database)LOVD 3.0 shared installation
BioMutasearch SAMD3
DgiDB (Drug Gene Interaction Database)SAMD3
DoCM (Curated mutations)SAMD3 (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)SAMD3 (select a term)
intoGenSAMD3
Cancer3DSAMD3(select the gene name)
Impact of mutations[PolyPhen2] [Provean] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM
Orphanet
DisGeNETSAMD3
MedgenSAMD3
Genetic Testing Registry SAMD3
NextProtQ8N6K7 [Medical]
TSGene154075
GENETestsSAMD3
Target ValidationSAMD3
Huge Navigator SAMD3 [HugePedia]
snp3D : Map Gene to Disease154075
BioCentury BCIQSAMD3
ClinGenSAMD3
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD154075
Chemical/Pharm GKB GenePA134880481
Clinical trialSAMD3
Miscellaneous
canSAR (ICR)SAMD3 (select the gene name)
Probes
Litterature
PubMed10 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineSAMD3
EVEXSAMD3
GoPubMedSAMD3
iHOPSAMD3
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

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indexed on : Mon Jul 30 14:28:01 CEST 2018

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