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SEC23A (Sec23 homolog A, coat complex II component)

Identity

Alias_namesSec23 (S. cerevisiae) homolog A
Sec23 homolog A (S. cerevisiae)
Sec23 homolog A, COPII coat complex component
Other aliasCLSD
HGNC (Hugo) SEC23A
LocusID (NCBI) 10484
Atlas_Id 54608
Location 14q21.1  [Link to chromosome band 14q21]
Location_base_pair Starts at 39031919 and ends at 39103528 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)
SEC23A (14q21.1) / ARL11 (13q14.2)SEC23A (14q21.1) / IGBP1P1 (14q13.2)SEC23A (14q21.1) / NR6A1 (9q33.3)
SEC23A (14q21.1) / NUP107 (12q15)SEC23A (14q21.1) / OSER1 (20q13.12)SEC23A (14q21.1) / SEC23A (14q21.1)
SEC23A (14q21.1) / SNRNP200 (2q11.2)SEC23A (14q21.1) / TRAPPC6B (14q21.1)STEAP2 (7q21.13) / SEC23A (14q21.1)
SEC23A 14q21.1 / TRAPPC6B 14q21.1

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 ]
  Lung: Translocations in Squamous Cell Carcinoma


External links

¼TD WIDTH=15%>TCGA Data Portal
Nomenclature
HGNC (Hugo)SEC23A   10701
Cards
Entrez_Gene (NCBI)SEC23A  10484  Sec23 homolog A, coat complex II component
AliasesCLSD
GeneCards (Weizmann)SEC23A
Ensembl hg19 (Hinxton)ENSG00000100934 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000100934 [Gmne_VmeW]  chr14:39031919-39103528 [Contig_View]  SEC23A [Vega]
ICGC DataPortalENSG00000100934
TCGA cBioPortalSEC23A
AceView (NCBI)SEC23A
Genatlas (Paris)SEC23A
WikiGenes10484
SOURCE (Princeton)SEC23A
Genetics Home Reference (NIH)SEC23A
Genomic and cartography
GoldenPath hg38 (UCSC)SEC23A  -     chr14:39031919-39103528 -  14q21.1   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)SEC23A  -     14q21.1   [Description]    (hg19-Feb_2009)
EnsemblSEC23A - 14q21.1 [CytoView hg19]  SEC23A - 14q21.1 [CytoView hg38]
Mapping of homologs : NCBISEC23A [Mapview hg19]  SEC23A [Mapview hg38]
OMIM607812   610511   
Gene and transcription
Genbank (Entrez)AK127355 AK293944 AK299862 AK303485 AK312259
RefSeq transcript (Entrez)NM_006364
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)SEC23A
Cluster EST : UnigeneHs.272927 [ NCBI ]
CGAP (NCI)Hs.272927
Alternative Splicing GalleryENSG00000100934
Gene ExpressionSEC23A [ NCBI-GEO ]   SEC23A [ EBI - ARRAY_EXPRESS ]   SEC23A [ SEEK ]   SEC23A [ MEM ]
Gene Expression Viewer (FireBrowse)SEC23A [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevestigatorExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)10484
GTEX Portal (Tissue expression)SEC23A
Human Protein AtlasENSG00000100934-SEC23A [pathology]   [cell]   [tissue]
Protein : pattern, domain, 3D structure
UniProt/SwissProtQ15436   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtQ15436  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProQ15436
Splice isoforms : SwissVarQ15436
PhosPhoSitePlusQ15436
Domains : Interpro (EBI)ADF-H/Gelsolin-like_dom    Gelsolin-like_dom    Sec23/24_helical_dom    Sec23/24_trunk_dom    Sec23_24_beta_S    VWF_A    Znf_Sec23_Sec24   
Domain families : Pfam (Sanger)Gelsolin (PF00626)    Sec23_BS (PF08033)    Sec23_helical (PF04815)    Sec23_trunk (PF04811)    zf-Sec23_Sec24 (PF04810)   
Domain families : Pfam (NCBI)pfam00626    pfam08033    pfam04815    pfam04811    pfam04810   
Conserved Domain (NCBI)SEC23A
DMDM Disease mutations10484
Blocks (Seattle)SEC23A
PDB (SRS)2NUP    2NUT    2YRC    2YRD    3EFO    3EG9    3EGD    3EGX    5KYN    5KYU    5KYW    5KYX    5KYY   
PDB (PDBSum)2NUP    2NUT    2YRC    2YRD    3EFO    3EG9    3EGD    3EGX    5KYN    5KYU    5KYW    5KYX    5KYY   
PDB (IMB)2NUP    2NUT    2YRC    2YRD    3EFO    3EG9    3EGD    3EGX    5KYN    5KYU    5KYW    5KYX    5KYY   
PDB (RSDB)2NUP    2NUT    2YRC    2YRD    3EFO    3EG9    3EGD    3EGX    5KYN    5KYU    5KYW    5KYX    5KYY   
Structural Biology KnowledgeBase2NUP    2NUT    2YRC    2YRD    3EFO    3EG9    3EGD    3EGX    5KYN    5KYU    5KYW    5KYX    5KYY   
SCOP (Structural Classification of Proteins)2NUP    2NUT    2YRC    2YRD    3EFO    3EG9    3EGD    3EGX    5KYN    5KYU    5KYW    5KYX    5KYY   
CATH (Classification of proteins structures)2NUP    2NUT    2YRC    2YRD    3EFO    3EG9    3EGD    3EGX    5KYN    5KYU    5KYW    5KYX    5KYY   
SuperfamilyQ15436
Human Protein Atlas [tissue]ENSG00000100934-SEC23A [tissue]
Peptide AtlasQ15436
HPRD06714
IPIIPI00017375   IPI01011543   IPI01011937   IPI01011083   IPI01025126   IPI01025003   IPI01026275   IPI01026248   IPI01026580   IPI01026462   IPI00908375   IPI01026099   IPI01025981   
Protein Interaction databases
DIP (DOE-UCLA)Q15436
IntAct (EBI)Q15436
FunCoupENSG00000100934
BioGRIDSEC23A
STRING (EMBL)SEC23A
ZODIACSEC23A
Ontologies - Pathways
QuickGOQ15436
Ontology : AmiGOGolgi membrane  antigen processing and presentation of peptide antigen via MHC class I  protein binding  endoplasmic reticulum  endoplasmic reticulum membrane  cytosol  intracellular protein transport  ER to Golgi vesicle-mediated transport  zinc ion binding  ER to Golgi transport vesicle membrane  vesicle-mediated transport  antigen processing and presentation of exogenous peptide antigen via MHC class II  COPII vesicle coat  ER to Golgi transport vesicle  smooth endoplasmic reticulum membrane  COPII vesicle coating  perinuclear region of cytoplasm  
Ontology : EGO-EBIGolgi membrane  antigen processing and presentation of peptide antigen via MHC class I  protein binding  endoplasmic reticulum  endoplasmic reticulum membrane  cytosol  intracellular protein transport  ER to Golgi vesicle-mediated transport  zinc ion binding  ER to Golgi transport vesicle membrane  vesicle-mediated transport  antigen processing and presentation of exogenous peptide antigen via MHC class II  COPII vesicle coat  ER to Golgi transport vesicle  smooth endoplasmic reticulum membrane  COPII vesicle coating  perinuclear region of cytoplasm  
Pathways : KEGGProtein processing in endoplasmic reticulum   
NDEx NetworkSEC23A
Atlas of Cancer Signalling NetworkSEC23A
Wikipedia pathwaysSEC23A
Orthology - Evolution
OrthoDB10484
GeneTree (enSembl)ENSG00000100934
Phylogenetic Trees/Animal Genes : TreeFamSEC23A
HOVERGENQ15436
HOGENOMQ15436
Homologs : HomoloGeneSEC23A
Homology/Alignments : Family Browser (UCSC)SEC23A
Gene fusions - Rearrangements
Fusion : MitelmanSEC23A/IGBP1P1 [14q21.1/14q13.2]  
Fusion : MitelmanSEC23A/TRAPPC6B [14q21.1/14q21.1]  [t(14;14)(q21;q21)]  
Fusion: TCGA_MDACCSEC23A 14q21.1 TRAPPC6B 14q21.1 LUAD
Tumor Fusion PortalSEC23A
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerSEC23A [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)SEC23A
dbVarSEC23A
ClinVarSEC23A
1000_GenomesSEC23A 
Exome Variant ServerSEC23A
ExAC (Exome Aggregation Consortium)ENSG00000100934
GNOMAD BrowserENSG00000100934
Genetic variants : HAPMAP10484
Genomic Variants (DGV)SEC23A [DGVbeta]
DECIPHERSEC23A [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisSEC23A 
Mutations
ICGC Data PortalSEC23A 
SEC23A 
Broad Tumor PortalSEC23A
OASIS PortalSEC23A [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICSEC23A  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDSEC23A
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 SEC23A
DgiDB (Drug Gene Interaction Database)SEC23A
DoCM (Curated mutations)SEC23A (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)SEC23A (select a term)
intoGenSEC23A
Cancer3DSEC23A(select the gene name)
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM607812    610511   
Orphanet10653   
DisGeNETSEC23A
MedgenSEC23A
Genetic Testing Registry SEC23A
NextProtQ15436 [Medical]
TSGene10484
GENETestsSEC23A
Target ValidationSEC23A
Huge Navigator SEC23A [HugePedia]
snp3D : Map Gene to Disease10484
BioCentury BCIQSEC23A
ClinGenSEC23A
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD10484
Chemical/Pharm GKB GenePA35624
Clinical trialSEC23A
Miscellaneous
canSAR (ICR)SEC23A (select the gene name)
Probes
Litterature
PubMed45 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineSEC23A
EVEXSEC23A
GoPubMedSEC23A
iHOPSEC23A
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

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© Atlas of Genetics and Cytogenetics in Oncology and Haematology
indexed on : Tue Nov 21 14:33:52 CET 2017

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