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CDY1 (chromodomain Y-linked 1)

Identity

Alias_nameschromodomain protein, Y chromosome, 1
Alias_symbol (synonym)CDY1A
Other aliasCDY
HGNC (Hugo) CDY1
LocusID (NCBI) 9085
Atlas_Id 61671
Location Yq11.23  [Link to chromosome band Yq11]
Location_base_pair Starts at 24045230 and ends at 24048014 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)

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)CDY1   1809
Cards
Entrez_Gene (NCBI)CDY1  9085  chromodomain Y-linked 1
AliasesCDY; CDY1A
GeneCards (Weizmann)CDY1
Ensembl hg19 (Hinxton)ENSG00000172288 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000172288 [Gene_View]  chrY:24045230-24048014 [Contig_View]  CDY1 [Vega]
ICGC DataPortalENSG00000172288
TCGA cBioPortalCDY1
AceView (NCBI)CDY1
Genatlas (Paris)CDY1
WikiGenes9085
SOURCE (Princeton)CDY1
Genetics Home Reference (NIH)CDY1
Genomic and cartography
GoldenPath hg38 (UCSC)CDY1  -     chrY:24045230-24048014 -  Yq11.23   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)CDY1  -     Yq11.23   [Description]    (hg19-Feb_2009)
EnsemblCDY1 - Yq11.23 [CytoView hg19]  CDY1 - Yq11.23 [CytoView hg38]
Mapping of homologs : NCBICDY1 [Mapview hg19]  CDY1 [Mapview hg38]
OMIM400016   415000   
Gene and transcription
Genbank (Entrez)AF000981 AF080597 AK292375 BC033041 BC132955
RefSeq transcript (Entrez)NM_004680 NM_170723
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)CDY1
Cluster EST : UnigeneHs.159281 [ NCBI ]
CGAP (NCI)Hs.159281
Alternative Splicing GalleryENSG00000172288
Gene ExpressionCDY1 [ NCBI-GEO ]   CDY1 [ EBI - ARRAY_EXPRESS ]   CDY1 [ SEEK ]   CDY1 [ MEM ]
Gene Expression Viewer (FireBrowse)CDY1 [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevestigatorExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)9085
GTEX Portal (Tissue expression)CDY1
Human Protein AtlasENSG00000172288-CDY1 [pathology]   [cell]   [tissue]
Protein : pattern, domain, 3D structure
UniProt/SwissProtQ9Y6F8   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtQ9Y6F8  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProQ9Y6F8
Splice isoforms : SwissVarQ9Y6F8
PhosPhoSitePlusQ9Y6F8
Domaine pattern : Prosite (Expaxy)CHROMO_1 (PS00598)    CHROMO_2 (PS50013)   
Domains : Interpro (EBI)Chromo/chromo_shadow_dom    Chromo_dom_subgr    Chromo_domain    Chromodomain-like    Chromodomain_CS    ClpP/crotonase-like_dom    Crotonase_core_superfam   
Domain families : Pfam (Sanger)Chromo (PF00385)    ECH_1 (PF00378)   
Domain families : Pfam (NCBI)pfam00385    pfam00378   
Domain families : Smart (EMBL)CHROMO (SM00298)  
Conserved Domain (NCBI)CDY1
DMDM Disease mutations9085
Blocks (Seattle)CDY1
PDB (SRS)2FBM   
PDB (PDBSum)2FBM   
PDB (IMB)2FBM   
PDB (RSDB)2FBM   
Structural Biology KnowledgeBase2FBM   
SCOP (Structural Classification of Proteins)2FBM   
CATH (Classification of proteins structures)2FBM   
SuperfamilyQ9Y6F8
Human Protein Atlas [tissue]ENSG00000172288-CDY1 [tissue]
Peptide AtlasQ9Y6F8
HPRD02457
Protein Interaction databases
DIP (DOE-UCLA)Q9Y6F8
IntAct (EBI)Q9Y6F8
FunCoupENSG00000172288
BioGRIDCDY1
STRING (EMBL)CDY1
ZODIACCDY1
Ontologies - Pathways
QuickGOQ9Y6F8
Ontology : AmiGOhistone acetyltransferase activity  nucleus  spermatogenesis  histone acetylation  methylated histone binding  
Ontology : EGO-EBIhistone acetyltransferase activity  nucleus  spermatogenesis  histone acetylation  methylated histone binding  
NDEx NetworkCDY1
Atlas of Cancer Signalling NetworkCDY1
Wikipedia pathwaysCDY1
Orthology - Evolution
OrthoDB9085
GeneTree (enSembl)ENSG00000172288
Phylogenetic Trees/Animal Genes : TreeFamCDY1
HOVERGENQ9Y6F8
HOGENOMQ9Y6F8
Homologs : HomoloGeneCDY1
Homology/Alignments : Family Browser (UCSC)CDY1
Gene fusions - Rearrangements
Tumor Fusion PortalCDY1
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerCDY1 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)CDY1
dbVarCDY1
ClinVarCDY1
1000_GenomesCDY1 
Exome Variant ServerCDY1
ExAC (Exome Aggregation Consortium)ENSG00000172288
GNOMAD BrowserENSG00000172288
Genetic variants : HAPMAP9085
Genomic Variants (DGV)CDY1 [DGVbeta]
DECIPHERCDY1 [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisCDY1 
Mutations
ICGC Data PortalCDY1 
TCGA Data PortalCDY1 
Broad Tumor PortalCDY1
OASIS PortalCDY1 [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICCDY1  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDCDY1
LOVD (Leiden Open Variation Database)Whole genome datasets
LOVD (Leiden Open Variation Database)LOVD 3.0 shared installation
BioMutasearch CDY1
DgiDB (Drug Gene Interaction Database)CDY1
DoCM (Curated mutations)CDY1 (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)CDY1 (select a term)
intoGenCDY1
Cancer3DCDY1(select the gene name)
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM400016    415000   
Orphanet
DisGeNETCDY1
MedgenCDY1
Genetic Testing Registry CDY1
NextProtQ9Y6F8 [Medical]
TSGene9085
GENETestsCDY1
Target ValidationCDY1
Huge Navigator CDY1 [HugePedia]
snp3D : Map Gene to Disease9085
BioCentury BCIQCDY1
ClinGenCDY1
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD9085
Chemical/Pharm GKB GenePA26354
Clinical trialCDY1
Miscellaneous
canSAR (ICR)CDY1 (select the gene name)
Probes
Litterature
PubMed22 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineCDY1
EVEXCDY1
GoPubMedCDY1
iHOPCDY1
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 14:01:02 CET 2017

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