Atlas of Genetics and Cytogenetics in Oncology and Haematology


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SMCO1 (single-pass membrane protein with coiled-coil domains 1)

Identity

Alias_namesC3orf43
chromosome 3 open reading frame 43
Alias_symbol (synonym)FLJ41923
DKFZp313B0440
Other alias
HGNC (Hugo) SMCO1
LocusID (NCBI) 255798
Atlas_Id 73541
Location 3q29  [Link to chromosome band 3q29]
Location_base_pair Starts at 196506877 and ends at 196515366 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)
RHOA (3p21.31) / SMCO1 (3q29)

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)SMCO1   27407
Cards
Entrez_Gene (NCBI)SMCO1  255798  single-pass membrane protein with coiled-coil domains 1
AliasesC3orf43
GeneCards (Weizmann)SMCO1
Ensembl hg19 (Hinxton)ENSG00000214097 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000214097 [Gene_View]  chr3:196506877-196515366 [Contig_View]  SMCO1 [Vega]
ICGC DataPortalENSG00000214097
TCGA cBioPortalSMCO1
AceView (NCBI)SMCO1
Genatlas (Paris)SMCO1
WikiGenes255798
SOURCE (Princeton)SMCO1
Genetics Home Reference (NIH)SMCO1
Genomic and cartography
GoldenPath hg38 (UCSC)SMCO1  -     chr3:196506877-196515366 -  3q29   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)SMCO1  -     3q29   [Description]    (hg19-Feb_2009)
EnsemblSMCO1 - 3q29 [CytoView hg19]  SMCO1 - 3q29 [CytoView hg38]
Mapping of homologs : NCBISMCO1 [Mapview hg19]  SMCO1 [Mapview hg38]
Gene and transcription
Genbank (Entrez)AK123917 AK291522 AL833140 AL833443 BC118556
RefSeq transcript (Entrez)NM_001077657 NM_001320473
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)SMCO1
Cluster EST : UnigeneHs.631933 [ NCBI ]
CGAP (NCI)Hs.631933
Alternative Splicing GalleryENSG00000214097
Gene ExpressionSMCO1 [ NCBI-GEO ]   SMCO1 [ EBI - ARRAY_EXPRESS ]   SMCO1 [ SEEK ]   SMCO1 [ MEM ]
Gene Expression Viewer (FireBrowse)SMCO1 [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevestigatorExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)255798
GTEX Portal (Tissue expression)SMCO1
Human Protein AtlasENSG00000214097-SMCO1 [pathology]   [cell]   [tissue]
Protein : pattern, domain, 3D structure
UniProt/SwissProtQ147U7   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtQ147U7  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProQ147U7
Splice isoforms : SwissVarQ147U7
PhosPhoSitePlusQ147U7
Domains : Interpro (EBI)DUF4547   
Domain families : Pfam (Sanger)DUF4547 (PF15080)   
Domain families : Pfam (NCBI)pfam15080   
Conserved Domain (NCBI)SMCO1
DMDM Disease mutations255798
Blocks (Seattle)SMCO1
SuperfamilyQ147U7
Human Protein Atlas [tissue]ENSG00000214097-SMCO1 [tissue]
Peptide AtlasQ147U7
IPIIPI00736625   IPI00924547   
Protein Interaction databases
DIP (DOE-UCLA)Q147U7
IntAct (EBI)Q147U7
FunCoupENSG00000214097
BioGRIDSMCO1
STRING (EMBL)SMCO1
ZODIACSMCO1
Ontologies - Pathways
QuickGOQ147U7
Ontology : AmiGOintegral component of membrane  
Ontology : EGO-EBIintegral component of membrane  
NDEx NetworkSMCO1
Atlas of Cancer Signalling NetworkSMCO1
Wikipedia pathwaysSMCO1
Orthology - Evolution
OrthoDB255798
GeneTree (enSembl)ENSG00000214097
Phylogenetic Trees/Animal Genes : TreeFamSMCO1
HOVERGENQ147U7
HOGENOMQ147U7
Homologs : HomoloGeneSMCO1
Homology/Alignments : Family Browser (UCSC)SMCO1
Gene fusions - Rearrangements
Tumor Fusion PortalSMCO1
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerSMCO1 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)SMCO1
dbVarSMCO1
ClinVarSMCO1
1000_GenomesSMCO1 
Exome Variant ServerSMCO1
ExAC (Exome Aggregation Consortium)ENSG00000214097
GNOMAD BrowserENSG00000214097
Genetic variants : HAPMAP255798
Genomic Variants (DGV)SMCO1 [DGVbeta]
DECIPHERSMCO1 [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisSMCO1 
Mutations
ICGC Data PortalSMCO1 
TCGA Data PortalSMCO1 
Broad Tumor PortalSMCO1
OASIS PortalSMCO1 [ Somatic mutations - Copy number]
Mutations and Diseases : HGMDSMCO1
BioMutasearch SMCO1
DgiDB (Drug Gene Interaction Database)SMCO1
DoCM (Curated mutations)SMCO1 (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)SMCO1 (select a term)
intoGenSMCO1
Cancer3DSMCO1(select the gene name)
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM
Orphanet
DisGeNETSMCO1
MedgenSMCO1
Genetic Testing Registry SMCO1
NextProtQ147U7 [Medical]
TSGene255798
GENETestsSMCO1
Target ValidationSMCO1
Huge Navigator SMCO1 [HugePedia]
snp3D : Map Gene to Disease255798
BioCentury BCIQSMCO1
ClinGenSMCO1
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD255798
Chemical/Pharm GKB GenePA142672378
Clinical trialSMCO1
Miscellaneous
canSAR (ICR)SMCO1 (select the gene name)
Probes
Litterature
PubMed2 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineSMCO1
EVEXSMCO1
GoPubMedSMCO1
iHOPSMCO1
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

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indexed on : Tue Nov 21 13:09:01 CET 2017

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