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

SAMD4B (sterile alpha motif domain containing 4B)

Identity

Alias_symbol (synonym)FLJ10211
MGC99832
SMGB
hSmaug2
Other aliasSmaug2
HGNC (Hugo) SAMD4B
LocusID (NCBI) 55095
Atlas_Id 54598
Location 19q13.2  [Link to chromosome band 19q13]
Location_base_pair Starts at 39342459 and ends at 39384847 bp from pter ( according to hg38-Dec_2013)
Fusion genes
(updated 2016)
MED29 (19q13.2) / SAMD4B (19q13.2)NDUFAF7 (2p22.2) / SAMD4B (19q13.2)SAMD4B (19q13.2) / ECH1 (19q13.2)
SAMD4B (19q13.2) / KIAA1841 (2p16.1)SAMD4B (19q13.2) / SAMD4B (19q13.2)SAMD4B (19q13.2) / SIPA1L3 (19q13.13)
MED29 19q13.2 / SAMD4B 19q13.2SAMD4B 19q13.2 / SIPA1L3 19q13.13

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)SAMD4B   25492
Cards
Entrez_Gene (NCBI)SAMD4B  55095  sterile alpha motif domain containing 4B
AliasesSMGB; Smaug2
GeneCards (Weizmann)SAMD4B
Ensembl hg19 (Hinxton)ENSG00000179134 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000179134 [Gene_View]  chr19:39342459-39384847 [Contig_View]  SAMD4B [Vega]
ICGC DataPortalENSG00000179134
TCGA cBioPortalSAMD4B
AceView (NCBI)SAMD4B
Genatlas (Paris)SAMD4B
WikiGenes55095
SOURCE (Princeton)SAMD4B
Genetics Home Reference (NIH)SAMD4B
Genomic and cartography
GoldenPath hg38 (UCSC)SAMD4B  -     chr19:39342459-39384847 +  19q13.2   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)SAMD4B  -     19q13.2   [Description]    (hg19-Feb_2009)
EnsemblSAMD4B - 19q13.2 [CytoView hg19]  SAMD4B - 19q13.2 [CytoView hg38]
Mapping of homologs : NCBISAMD4B [Mapview hg19]  SAMD4B [Mapview hg38]
Gene and transcription
Genbank (Entrez)AK001073 AK091041 AK091238 AK128884 BC039652
RefSeq transcript (Entrez)NM_001303614 NM_018028
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)SAMD4B
Cluster EST : UnigeneHs.707137 [ NCBI ]
CGAP (NCI)Hs.707137
Alternative Splicing GalleryENSG00000179134
Gene ExpressionSAMD4B [ NCBI-GEO ]   SAMD4B [ EBI - ARRAY_EXPRESS ]   SAMD4B [ SEEK ]   SAMD4B [ MEM ]
Gene Expression Viewer (FireBrowse)SAMD4B [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevisibleExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)55095
GTEX Portal (Tissue expression)SAMD4B
Protein : pattern, domain, 3D structure
UniProt/SwissProtQ5PRF9   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtQ5PRF9  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProQ5PRF9
Splice isoforms : SwissVarQ5PRF9
PhosPhoSitePlusQ5PRF9
Domains : Interpro (EBI)PHAT_dom    SAM    SAM/pointed   
Domain families : Pfam (Sanger)SAM_1 (PF00536)   
Domain families : Pfam (NCBI)pfam00536   
Domain families : Smart (EMBL)SAM (SM00454)  
Conserved Domain (NCBI)SAMD4B
DMDM Disease mutations55095
Blocks (Seattle)SAMD4B
SuperfamilyQ5PRF9
Human Protein AtlasENSG00000179134
Peptide AtlasQ5PRF9
HPRD10960
IPIIPI00791720   IPI00470771   IPI00978301   
Protein Interaction databases
DIP (DOE-UCLA)Q5PRF9
IntAct (EBI)Q5PRF9
FunCoupENSG00000179134
BioGRIDSAMD4B
STRING (EMBL)SAMD4B
ZODIACSAMD4B
Ontologies - Pathways
QuickGOQ5PRF9
Ontology : AmiGOnuclear-transcribed mRNA poly(A) tail shortening  P-body  RNA binding  mRNA binding  nucleus  cytosol  transcription, DNA-templated  regulation of transcription, DNA-templated  negative regulation of translation  translation repressor activity  regulation of mRNA stability  
Ontology : EGO-EBInuclear-transcribed mRNA poly(A) tail shortening  P-body  RNA binding  mRNA binding  nucleus  cytosol  transcription, DNA-templated  regulation of transcription, DNA-templated  negative regulation of translation  translation repressor activity  regulation of mRNA stability  
NDEx NetworkSAMD4B
Atlas of Cancer Signalling NetworkSAMD4B
Wikipedia pathwaysSAMD4B
Orthology - Evolution
OrthoDB55095
GeneTree (enSembl)ENSG00000179134
Phylogenetic Trees/Animal Genes : TreeFamSAMD4B
HOVERGENQ5PRF9
HOGENOMQ5PRF9
Homologs : HomoloGeneSAMD4B
Homology/Alignments : Family Browser (UCSC)SAMD4B
Gene fusions - Rearrangements
Fusion : MitelmanMED29/SAMD4B [19q13.2/19q13.2]  [t(19;19)(q13;q13)]  
Fusion : MitelmanNDUFAF7/SAMD4B [2p22.2/19q13.2]  [t(2;19)(p22;q13)]  
Fusion : MitelmanSAMD4B/SIPA1L3 [19q13.2/19q13.13]  [t(19;19)(q13;q13)]  
Fusion: TCGAMED29 19q13.2 SAMD4B 19q13.2 BRCA
Fusion: TCGASAMD4B 19q13.2 SIPA1L3 19q13.13 BRCA
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerSAMD4B [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)SAMD4B
dbVarSAMD4B
ClinVarSAMD4B
1000_GenomesSAMD4B 
Exome Variant ServerSAMD4B
ExAC (Exome Aggregation Consortium)SAMD4B (select the gene name)
Genetic variants : HAPMAP55095
Genomic Variants (DGV)SAMD4B [DGVbeta]
DECIPHERSAMD4B [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisSAMD4B 
Mutations
ICGC Data PortalSAMD4B 
TCGA Data PortalSAMD4B 
Broad Tumor PortalSAMD4B
OASIS PortalSAMD4B [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICSAMD4B  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDSAMD4B
LOVD (Leiden Open Variation Database)Whole genome datasets
LOVD (Leiden Open Variation Database)LOVD 3.0 shared installation
BioMutasearch SAMD4B
DgiDB (Drug Gene Interaction Database)SAMD4B
DoCM (Curated mutations)SAMD4B (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)SAMD4B (select a term)
intoGenSAMD4B
Cancer3DSAMD4B(select the gene name)
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM
Orphanet
MedgenSAMD4B
Genetic Testing Registry SAMD4B
NextProtQ5PRF9 [Medical]
TSGene55095
GENETestsSAMD4B
Target ValidationSAMD4B
Huge Navigator SAMD4B [HugePedia]
snp3D : Map Gene to Disease55095
BioCentury BCIQSAMD4B
ClinGenSAMD4B
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD55095
Chemical/Pharm GKB GenePA143485607
Clinical trialSAMD4B
Miscellaneous
canSAR (ICR)SAMD4B (select the gene name)
Probes
Litterature
PubMed23 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineSAMD4B
EVEXSAMD4B
GoPubMedSAMD4B
iHOPSAMD4B
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 : Wed Jun 7 12:54:21 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.