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CSDE1 (cold shock domain containing E1)

Identity

Alias_namescold shock domain containing E1
Alias_symbol (synonym)D1S155E
UNR
Other alias
HGNC (Hugo) CSDE1
LocusID (NCBI) 7812
Atlas_Id 55574
Location 1p13.2  [Link to chromosome band 1p13]
Location_base_pair Starts at 114716913 and ends at 114758050 bp from pter ( according to hg38-Dec_2013)
Fusion genes
(updated 2016)
AP4B1 (1p13.2) / CSDE1 (1p13.2)ARHGEF10L (1p36.13) / CSDE1 (1p13.2)BAZ2A (12q13.3) / CSDE1 (1p13.2)
CSDE1 (1p13.2) / CLASP1 (2q14.2)CSDE1 (1p13.2) / CSDE1 (1p13.2)CSDE1 (1p13.2) / DDX27 (20q13.13)
CSDE1 (1p13.2) / RBFOX1 (16p13.3)CSDE1 (1p13.2) / RPS6 (9p22.1)CSDE1 (1p13.2) / ZNFX1 (20q13.13)
ERBB4 (2q34) / CSDE1 (1p13.2)H2AFZ (4q23) / CSDE1 (1p13.2)RPS27L (15q22.2) / CSDE1 (1p13.2)

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)CSDE1   29905
Cards
Entrez_Gene (NCBI)CSDE1  7812  cold shock domain containing E1
AliasesD1S155E; UNR
GeneCards (Weizmann)CSDE1
Ensembl hg19 (Hinxton)ENSG00000009307 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000009307 [Gene_View]  chr1:114716913-114758050 [Contig_View]  CSDE1 [Vega]
ICGC DataPortalENSG00000009307
TCGA cBioPortalCSDE1
AceView (NCBI)CSDE1
Genatlas (Paris)CSDE1
WikiGenes7812
SOURCE (Princeton)CSDE1
Genetics Home Reference (NIH)CSDE1
Genomic and cartography
GoldenPath hg38 (UCSC)CSDE1  -     chr1:114716913-114758050 -  1p13.2   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)CSDE1  -     1p13.2   [Description]    (hg19-Feb_2009)
EnsemblCSDE1 - 1p13.2 [CytoView hg19]  CSDE1 - 1p13.2 [CytoView hg38]
Mapping of homologs : NCBICSDE1 [Mapview hg19]  CSDE1 [Mapview hg38]
OMIM191510   
Gene and transcription
Genbank (Entrez)AB020692 AF070542 AF077054 AK022516 AK022528
RefSeq transcript (Entrez)NM_001007553 NM_001130523 NM_001242891 NM_001242892 NM_001242893 NM_007158
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)CSDE1
Cluster EST : UnigeneHs.731496 [ NCBI ]
CGAP (NCI)Hs.731496
Alternative Splicing GalleryENSG00000009307
Gene ExpressionCSDE1 [ NCBI-GEO ]   CSDE1 [ EBI - ARRAY_EXPRESS ]   CSDE1 [ SEEK ]   CSDE1 [ MEM ]
Gene Expression Viewer (FireBrowse)CSDE1 [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevisibleExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)7812
GTEX Portal (Tissue expression)CSDE1
Protein : pattern, domain, 3D structure
UniProt/SwissProtO75534   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtO75534  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProO75534
Splice isoforms : SwissVarO75534
PhosPhoSitePlusO75534
Domaine pattern : Prosite (Expaxy)COLD_SHOCK (PS00352)   
Domains : Interpro (EBI)Cold-shock_CS    CSD    CSP_DNA-bd    NA-bd_OB-fold    SUZ-C   
Domain families : Pfam (Sanger)CSD (PF00313)    SUZ-C (PF12901)   
Domain families : Pfam (NCBI)pfam00313    pfam12901   
Domain families : Smart (EMBL)CSP (SM00357)  
Conserved Domain (NCBI)CSDE1
DMDM Disease mutations7812
Blocks (Seattle)CSDE1
PDB (SRS)1WFQ    1X65    2YTV    2YTX    2YTY   
PDB (PDBSum)1WFQ    1X65    2YTV    2YTX    2YTY   
PDB (IMB)1WFQ    1X65    2YTV    2YTX    2YTY   
PDB (RSDB)1WFQ    1X65    2YTV    2YTX    2YTY   
Structural Biology KnowledgeBase1WFQ    1X65    2YTV    2YTX    2YTY   
SCOP (Structural Classification of Proteins)1WFQ    1X65    2YTV    2YTX    2YTY   
CATH (Classification of proteins structures)1WFQ    1X65    2YTV    2YTX    2YTY   
SuperfamilyO75534
Human Protein AtlasENSG00000009307
Peptide AtlasO75534
HPRD15949
IPIIPI00470891   IPI00873244   IPI00973794   IPI00844264   IPI00978608   IPI00977065   IPI00979855   IPI00977654   IPI00980415   IPI00976494   
Protein Interaction databases
DIP (DOE-UCLA)O75534
IntAct (EBI)O75534
FunCoupENSG00000009307
BioGRIDCSDE1
STRING (EMBL)CSDE1
ZODIACCSDE1
Ontologies - Pathways
QuickGOO75534
Ontology : AmiGODNA binding  RNA binding  protein binding  mitochondrial inner membrane  Golgi apparatus  cytosol  plasma membrane  regulation of transcription, DNA-templated  male gonad development  CRD-mediated mRNA stability complex  nuclear-transcribed mRNA catabolic process, no-go decay  
Ontology : EGO-EBIDNA binding  RNA binding  protein binding  mitochondrial inner membrane  Golgi apparatus  cytosol  plasma membrane  regulation of transcription, DNA-templated  male gonad development  CRD-mediated mRNA stability complex  nuclear-transcribed mRNA catabolic process, no-go decay  
NDEx NetworkCSDE1
Atlas of Cancer Signalling NetworkCSDE1
Wikipedia pathwaysCSDE1
Orthology - Evolution
OrthoDB7812
GeneTree (enSembl)ENSG00000009307
Phylogenetic Trees/Animal Genes : TreeFamCSDE1
HOVERGENO75534
HOGENOMO75534
Homologs : HomoloGeneCSDE1
Homology/Alignments : Family Browser (UCSC)CSDE1
Gene fusions - Rearrangements
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerCSDE1 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)CSDE1
dbVarCSDE1
ClinVarCSDE1
1000_GenomesCSDE1 
Exome Variant ServerCSDE1
ExAC (Exome Aggregation Consortium)CSDE1 (select the gene name)
Genetic variants : HAPMAP7812
Genomic Variants (DGV)CSDE1 [DGVbeta]
DECIPHERCSDE1 [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisCSDE1 
Mutations
ICGC Data PortalCSDE1 
TCGA Data PortalCSDE1 
Broad Tumor PortalCSDE1
OASIS PortalCSDE1 [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICCSDE1  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDCSDE1
LOVD (Leiden Open Variation Database)Whole genome datasets
LOVD (Leiden Open Variation Database)LOVD 3.0 shared installation
BioMutasearch CSDE1
DgiDB (Drug Gene Interaction Database)CSDE1
DoCM (Curated mutations)CSDE1 (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)CSDE1 (select a term)
intoGenCSDE1
Cancer3DCSDE1(select the gene name)
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM191510   
Orphanet
MedgenCSDE1
Genetic Testing Registry CSDE1
NextProtO75534 [Medical]
TSGene7812
GENETestsCSDE1
Target ValidationCSDE1
Huge Navigator CSDE1 [HugePedia]
snp3D : Map Gene to Disease7812
BioCentury BCIQCSDE1
ClinGenCSDE1
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD7812
Chemical/Pharm GKB GenePA142672072
Clinical trialCSDE1
Miscellaneous
canSAR (ICR)CSDE1 (select the gene name)
Probes
Litterature
PubMed55 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineCSDE1
EVEXCSDE1
GoPubMedCSDE1
iHOPCSDE1
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

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indexed on : Wed Jun 7 12:29:42 CEST 2017

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