CDY2A Gene
protein-coding GIFtS: 45
GCID: GC0YP020137
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chromodomain protein, Y-linked, 2A(Previous names: chromodomain protein, Y chromosome, 2, chromodomain protein,...)
(Previous symbol: CDY2)
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Aliases
for CDY2A gene
(According to
1HGNC,
2Entrez Gene,
3UniProtKB/Swiss-Prot,
4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc,
7Ensembl,
8DME,
9miRBase,
and/or 10fRNAdb)
About This Section
|
| Aliases |
|---|
| Chromodomain Protein, Y-Linked, 2A1 2 | | Chromodomain Protein, Y-Linked, 21 | | CDY21 2 3 5 | | CDY2 | | Chromodomain Protein, Y Chromosome, 21 2 | | Testis-Specific Chromodomain Protein Y 22 | | EC 2.3.1.483 8 | | Y Chromosome Chromodomain Protein 2A2 |
Export aliases for CDY2A gene to outside databasesPrevious GC identifers: GC0YP018576 GC0YP018648 GC0YM014436 |
Summaries
for CDY2A gene(According to Entrez Gene,
Tocris Bioscience,
Wikipedia's
Gene Wiki,
PharmGKB,
UniProtKB/Swiss-Prot,
and/or
UniProtKB/TrEMBL)
About This Section
|
Entrez Gene summary for CDY2A:
This intronless gene encodes a protein containing a chromodomain and a histone acetyltransferase catalytic domain.Chromodomain proteins are components of heterochromatin-like complexes and can act as gene repressors. This protein islocalized to the nucleus of late spermatids where histone hyperacetylation takes place. Histone hyperacetylation isthought to facilitate the transition in which protamines replace histones as the major DNA-packaging protein. Twonearly identical copies of this gene are found in a palindromic region on chromosome Y; this record represents thetelomeric copy. Chromosome Y also contains a pair of closely related genes in another more telomeric palindrome aswell as several related pseudogenes. (provided by RefSeq, Jul 2008)
UniProtKB/Swiss-Prot: CDY2_HUMAN, Q9Y6F7Function: May have histone acetyltransferase activity (By similarity)
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Genomic Views
for CDY2A gene
(According to
GeneLoc and/or
HGNC, and/or
Entrez Gene (NCBI build 37),
and/or miRBase,
Genomic Views according to
UCSC (hg19) and
Ensembl (release 69),
Regulatory elements and Epigenetics data according to
QIAGEN,
SABiosciences, and/or
SwitchGear Genomics)
About This Section
| RefSeq DNA sequence:- NC_000024.9 NT_011875.12
Regulatory elements:
 SABiosciences Regulatory transcription factor binding sites in the CDY2A gene promoter:
Bach1 POU3F2 (N-Oct-5b) POU3F2 (N-Oct-5a) POU3F2 RORalpha2 N-Myc Max PPAR-gamma1 PPAR-gamma2 c-Myc
Other transcription factors
Search SABiosciences Chromatin IP Primers for CDY2A
Epigenetics:
| | QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat CDY2A |
Genomic Location:
Genomic View: UCSC Golden Path with GeneCards custom track
Entrez Gene cytogenetic band: Yq11.221 Ensembl cytogenetic band: Yq11.222 HGNC cytogenetic band: Yq11.222CDY2A Gene in genomic location: bands according to Ensembl, locations according to
 (and/or Entrez Gene and/or Ensembl if different)
GeneLoc information about chromosome Y GeneLoc Exon Structure GeneLoc location for GC0YP020137: view genomic region
(about GC identifiers)
Start:
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20,137,667 bp from pter |
End:
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20,140,477 bp from pter |
Size:
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2,811 bases |
Orientation:
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plus strand |
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Proteins
for CDY2A gene
(According to
1UniProtKB,
HORDE,
neXtProt,
Ensembl,
and/or Reactome,
Modification sites according to 2PhosphoSitePlus,
Specific Peptides from DME,
Protein expression images according to data from SPIRE MOPED and PaxDb,
RefSeq according to NCBI,
PDB rendering according to OCA and/or Proteopedia,
Recombinant Proteins
from
EMD Millipore,
R&D Systems,
GenScript,
Enzo Life Sciences,
OriGene,
Novus Biologicals,
Sino Biological,
ProSpec, and/or
Uscn,
Biochemical Assays by
EMD Millipore,
R&D Systems,
OriGene,
GenScript,
Cell Signaling Technology,
Enzo Life Sciences, and/or
Uscn,
Ontologies according to Gene
Ontology Consortium 01 Mar 2013 and
Entrez Gene,
Antibodies by
EMD Millipore,
R&D Systems,
GenScript,
Cell Signaling Technology,
OriGene,
Novus Biologicals,
Thermo Fisher Scientific,
Abcam, and/or
Uscn)
About This Section
|
UniProtKB/Swiss-Prot: CDY2_HUMAN, Q9Y6F7 (See
protein sequence)Recommended Name: Testis-specific chromodomain protein Y 2 Size: 541 amino acids; 60524 Da
Subcellular location: Nucleus (By similarity)
1 PDB 3D structure from  and Proteopedia  for CDY2A:2FW2 (3D)
Secondary accessions: A8K868Explore the universe of human proteins at neXtProt for CDY2A: NX_Q9Y6F7
Post-translational modifications:
View modification sites using PhosphoSitePlus2View neXtProt modification sites for NX_Q9Y6F7
4/9 DME Specific Peptides for CDY2A (Q9Y6F7) (see all 9)
CDY2A Protein expression data from MOPED and PaxDb: About this image 
REFSEQ proteins: NP_004816.1
ENSEMBL proteins: ENSP00000402280 ENSP00000250838
Human Recombinant Protein Products for CDY2A:
Gene Ontology (GO): 1 cellular component term (GO ID links to tree view): About this table | GO ID | Qualified GO term | Evidence | PubMed IDs |
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| GO:0005634 | nucleus |
-- | -- |
CDY2A for ontologies About GeneDecksing
CDY2A Antibody Products:
Assay Products for CDY2A: |
Protein
Domains /
Families
for CDY2A gene(According to InterPro, ProtoNet,
UniProtKB, and/or BLOCKS,
Sets of similar genes according to GeneDecks)
About This Section
|
CDY2A for domains About GeneDecksing
5/6 InterPro domains/families (see all 6):Graphical View of Domain Structure for InterPro Entry Q9Y6F7ProtoNet protein and cluster: Q9Y6F7 1 Blocks protein family: IPB000953 Chromo domain
UniProtKB/Swiss-Prot: CDY2_HUMAN, Q9Y6F7Similarity: Contains 1 chromo domain |
Function
for CDY2A gene
(According to 1UniProtKB,
Genatlas,
LifeMap Discovery™,
IUBMB, and/or
2DME,
Human phenotypes from GenomeRNAi,
Animal models from MGI Mar 06 2013,
inGenious Targeting Laboratory,
bound targets from SABiosciences,
miRNA Gene Targets from miRTarBase,
shRNA from
OriGene,
Sirion Biotech,
RNAi from
EMD Millipore,
siRNAs from
OriGene,
QIAGEN,
microRNA from QIAGEN,
Gene Editing from DNA2.0,
Sirion Biotech,
Clones from EMD Millipore,
OriGene,
SwitchGear Genomics,
GenScript,
Sino Biological,
DNA2.0,
and Vector BioLabs,
Cell Lines from GenScript,
LifeMap BioReagents,
Sirion Biotech,
In Situ Hybridization Assays from Advanced Cell Diagnostics,
Ontologies according to Gene Ontology Consortium 01 Mar 2013 via
Entrez Gene.)
About This Section
|
Molecular Function:
UniProtKB/Swiss-Prot Summary: CDY2_HUMAN, Q9Y6F7Function: May have histone acetyltransferase activity (By similarity)Catalytic activity: Acetyl-CoA + [histone] = CoA + acetyl-[histone] Enzyme Number (IUBMB): EC 2.3.1.481 2
Gene Ontology (GO): 2 molecular function terms (GO ID links to tree view): About this table | GO ID | Qualified GO term | Evidence | PubMed IDs |
|---|
| GO:0003824 | catalytic activity |
-- | -- | | GO:0004402 | histone acetyltransferase activity |
-- | -- |
CDY2A for ontologies About GeneDecksing
Animal Models:
Clone
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OriGene untagged cDNA clones in CMV expression vector in human, mouse, rat for CDY2A
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In Situ Assay
Products: |
 | Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for CDY2A |
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Pathways & Interactions
for CDY2A gene
(Pathways according to
EMD Millipore,
R&D Systems,
Cell Signaling Technology,
KEGG,
PharmGKB,
BioSystems,
Reactome,
Tocris Bioscience,
GeneGo (Thomson Reuters),
QIAGEN,
and/or UniProtKB,
Sets of similar genes according to GeneDecks,
Interaction Networks according to
SABiosciences,
and/or STRING,
Interactions according to 1UniProtKB,
2MINT,
3I2D, and/or
4STRING,
with links to IntAct and
Ensembl,
Ontologies according to Gene Ontology Consortium 01 Mar 2013 via
Entrez Gene).
About This Section
|
Interactions:
Search SABiosciences Gene Network CentralTM Interacting Genes and Proteins Networks for CDY2A
Gene Ontology (GO): 1 biological process term (GO ID links to tree view): About this table | GO ID | Qualified GO term | Evidence | PubMed IDs |
|---|
| GO:0007283 | spermatogenesis |
-- | -- |
CDY2A for ontologies About GeneDecksing
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Drugs & Compounds
for CDY2A gene(Chemical Compounds according to UniProtKB, Enzo Life Sciences,
EMD Millipore, Tocris Bioscience
HMDB,
BitterDB, and/or
Novoseek, and Drugs according to
DrugBank,
Enzo Life Sciences, and/or
PharmGKB, with drugs/clinical trials/news
search links to CenterWatch)
About This Section
|
 Browse Tocris compounds for CDY2A
2 HMDB Compounds for CDY2A About this table
Search CenterWatch for drugs/clinical trials and news about CDY2A / CDY2
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Transcripts
for CDY2A gene(Secondary structures according to
fRNAdb,
GenBank/EMBL/DDBJ Accessions according to
Unigene
(Build 235 Homo sapiens; Mar 10 2013) or GenBank,
RefSeq according to Entrez Gene,
DOTS (version 10), and/or
AceView,
transcript ids from Ensembl
with links to UCSC,
exon structure from GeneLoc,
alternative splicing isoforms according to ASD and/or
ECgene,
RNAi Products from
EMD Millipore,
siRNAs from
OriGene,
QIAGEN,
shRNA from
OriGene,
Sirion Biotech,
microRNA from QIAGEN,
Tagged/untagged cDNA clones from
OriGene,
SwitchGear Genomics,
GenScript,
DNA2.0,
Vector BioLabs,
Primers from
OriGene,
SABiosciences, and/or
QIAGEN
)
About This Section
|
REFSEQ mRNAs for CDY2A gene: NM_004825.2 Unigene Cluster for CDY2A: Chromodomain protein, Y-linked, 2A Hs.251375 [show with all ESTs]Unigene Representative Sequence: AF0805982 Ensembl transcripts including schematic representations, and UCSC links where relevant: ENST00000426790 ENST00000250838(uc004ftm.1)
Clone
Products: | | OriGene Myc/DDK tagged cDNA clones in CMV expression vector in human, mouse, rat for CDY2A
OriGene untagged cDNA clones in CMV expression vector in human, mouse, rat for CDY2A
OriGene custom cloning services - gene synthesis, subcloning, mutagenesis,
variant library, vector shuttling
| | | GenScript: all cDNA clones in your preferred vector: CDY2A (NM_004825) | | | DNA2.0 Custom Codon Optimized Gene
Synthesis Service for CDY2A | | | Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat CDY2A |
Additional cDNA sequence: AF080598.1 AK292233.1 1 DOTS entry: DT.101963184 2 AceView cDNA sequences: AF080598 NM_004825
GeneLoc Exon Structure
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Expression
for CDY2A gene
(RNA expression data according to
H-InvDB,
NONCODE,
miRBase, and
RNAdb,
Expression images according to data from
BioGPS,
Illumina Human BodyMap, and
CGAP
SAGE,
Sets of similar genes according to GeneDecks,
in vivo and in vitro expression data from LifeMap Discovery™,
plus additional links to
Genevestigator, and/or
SOURCE, and/or
BioGPS, and/or
UniProtKB,
PCR Arrays from
SABiosciences,
Primers from
OriGene,
SABiosciences, and/or
QIAGEN,
In Situ Hybridization Assays from Advanced Cell Diagnostics)
About This Section
| CDY2A expression in normal human tissues (normalized intensities)
See probesets specificity/sensitivity at GeneAnnot
About this imageBioGPS
CGAP TAG: --
About this image
See CDY2A Protein Expression from SPIRE MOPED and PaxDB
Genevestigator expression for CDY2A
SOURCE GeneReport for Unigene cluster: Hs.251375
UniProtKB/Swiss-Prot: CDY2_HUMAN, Q9Y6F7Tissue specificity: Testis specific
SABiosciences Custom PCR Arrays for CDY2A
Primer
Products: | | OriGene genome-wide validated SYBR primer pairs in human, mouse, rat for CDY2A
Browse OriGene validated miRNA SYBR primer pairs
| | | Search SABiosciences RT2 qPCR
Primer Assays in human, mouse, rat CDY2A | | | QIAGEN QuantiTect SYBR Green Assays in human, mouse, rat CDY2A | | | QIAGEN QuantiFast Probe-based Assays in human, mouse, rat CDY2A | In Situ
Assay Products: |
| Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for CDY2A |
Orthologs
for CDY2A gene
(Orthologs according to
1,2HomoloGene (2older version, for species not in 1newer version),
3euGenes,
4SGD
,
5MGI Mar 06 2013,
with possible further links to
Flybase
and/or
WormBase,
and/or
6Ensembl pan taxonomic compara ,
Gene Trees according to Ensembl and
TreeFam)
About This Section
|
This gene was present in the last universal common ancestor (LUCA).
Orthologs for CDY2A gene from 8/22 species (see all 22) About this table
ENSEMBL Gene Tree for CDY2A (if available)
TreeFam Gene Tree for CDY2A (if available) |
Paralogs
for CDY2A gene(Paralogs according to
1HomoloGene,
2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
About This Section
| Paralogs for CDY2A gene
- CDY2B1 2 CDY11 2 CDY1B1 2 ECI22 CDYL2 CDYL22
9 SIMAP similar genes for CDY2A using alignment to 2 protein entries: CDY2_HUMAN (see all proteins):CDY2B CDY1 CDY1B CDYL CDYL2 CBX5
ECI2 PECI ECHDC3
CDY2A for paralogs About GeneDecksing
|
Genomic Variants
for CDY2A gene(SNPs/Variants according to the
1NCBI SNP Database,
2Ensembl,
3PupaSUITE,
UniProtKB, and
DNA2.0,
Linkage Disequilibrium by HapMap,
Structural Variations(CNVs/InDels/Inversions) from the Database of Genomic Variants, Mutations from the Human Gene
Mutation Database (HGMD) and the Locus Specific Mutation
Databases (LSDB), Blood group antigen gene mutations by BGMUT,
Resequencing Primers from QIAGEN,
Cancer Mutation PCR Arrays and Assays and Copy Number PCR Arrays from SABiosciences)
About This Section
|
| Genomic Data | Transcription Related Data | Allele Frequencies | | SNP ID | Valid | Clinical
significance | Chr Y pos | Sequence | # | AA
Chg | Type | More | # | Allele
freq | Pop | Total
sample | More |
|---|
HapMap Linkage Disequilibrium report for CDY2A (20137667 - 20140477 bp)
Structural Variations (Copy Number Variations, Insertions/Deletions, Inversions)
Database of Genomic Variants (DGV): 1 variation for CDY2A
1 CNV: 2286 | SABiosciences Cancer Mutation PCR Assays |
|
Disorders
/ Diseases
for CDY2A gene
(in which this Gene is Involved, According to MalaCards,
OMIM, UniProtKB,
the University of Copenhagen DISEASES
database,
Genatlas, GeneTests,
GAD,
HuGE Navigator,
and/or TGDB.)
About This Section
|
CDY2A for disorders About GeneDecksing
OMIM gene information: 400018
OMIM disorders: --
2  diseases for CDY2A: About MalaCardsinfertility y chromosome infertility
1 disease from the University of Copenhagen DISEASES database for CDY2A:Azoospermia Export disorders for CDY2A gene to outside databases
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Publications
for CDY2A gene (in
PubMed.
Associations of this gene to articles via
1Entrez Gene,
2UniProtKB/Swiss-Prot,
3HGNC,
4GAD,
5PharmGKB,
6HMDB,
7DrugBank,
8UniProtKB/TrEMBL,
9 Novoseek, and/or
10fRNAdb)
About This Section
|
PubMed articles for CDY2A gene, integrated from 9 sources (see all 18):
(articles sorted by number of sources associating them with CDY2A) | |  | Utopia: connect your pdf to the dynamic
world of online information |
- Retroposition of autosomal mRNA yielded testis-specific gene family on human Y chromosome. (PubMed id 10192397)1, 2, 3 Lahn B.T. and Page D.C. (1999)
- The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PubMed id 15489334)1, 2 Gerhard D.S....Malek J. (2004)
- Deletion or underexpression of the Y-chromosome genes CDY2 and HSFY is associated with maturation arrest in American men with nonobstr uctive azoospermia. (PubMed id 22820855)1 Stahl P.J....Paduch D.A. (2012)
- Dynamics of cullin-RING ubiquitin ligase network revea led by systematic quantitative proteomics. (PubMed id 21145461)1 Bennett E.J....Harper J.W. (2010)
- Crystal structures of human CDY proteins reveal a crotonase-like fold. (PubMed id 19507244)2 Wu H.... Plotnikov A.N. (2009)
- Complete sequencing and characterization of 21,243 full-length human cDNAs. (PubMed id 14702039)2 Ota T.... Sugano S. (2004)
- The male-specific region of the human Y chromosome is a mosaic of discrete sequence classes. (PubMed id 12815422)1 Skaletsky H.... Page D.C. (2003)
- Comparative mapping of CDY and DAZ in higher primates. (PubMed id 12438810)1 Wimmer R....Schempp W. (2002)
- Identification and characterization of the cynomolgus monkey chromodomain gene cynCDY, an orthologue of the human CDY gene family. (PubMed id 12149400)1 Kostova E....Gromoll J. (2002)
- Previously uncharacterized histone acetyltransferases implicated in mammalian spermatogenesis. (PubMed id 12072557)1 Lahn B.T....Page D.C. (2002)
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External Searches for CDY2A gene
(in PubMed,
OMIM, and NCBI Bookshelf)
About This Section
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Genome Databases showing CDY2A gene
(According to
Entrez Gene,
HGNC,
AceView,
euGenes,
Ensembl,
miRBase,
ECgene,
Kegg,
and/or
H-InvDB)
About This Section
|
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Other Databases showing CDY2A gene
(According to HUGE)
About This Section
| -- |
Specialized Databases showing CDY2A gene(According to PharmGKB,
ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL,
Wikipedia and/or GeneReviews via UniProtKB/Swiss-Prot)
About This Section
|
| Name | Description |
| PharmGKB entry for CDY2A | Pharmacogenomics, SNPs, Pathways |
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| | |
About This Section
| Patent Information for CDY2A gene:
Search GeneIP for patents involving CDY2A
GeneCards and IP:
Japan Patent Office Licenses GeneCards European Patent Office Licenses GeneCards Improving the IP Search
|
Products
for CDY2A gene(Antibodies, recombinant proteins, and assays from EMD Millipore, R&D Systems, OriGene, QIAGEN, GenScript, Cell Signaling Technology, SABiosciences, Novus Biologicals, Sino Biological, Enzo Life Sciences, Abcam, ProSpec, Uscn, Thermo Fisher Scientific, Gene Editing from DNA2.0 and Sirion Biotech, Clones from EMD Millipore, OriGene, GenScript, Sino Biological, DNA2.0, SwitchGear Genomics, Vector BioLabs, Cell lines from GenScript, LifeMap BioReagents, and Sirion Biotech, PCR Arrays from SABiosciences, Drugs and/or compounds from EMD Millipore, Tocris Bioscience, and/or
Enzo Life Sciences, In Situ Hybridization Assays from
Advanced Cell Diagnostics, Animal models from inGenious Targeting Laboratory)
About This Section
|
 | |
 | |
 |
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 | | | CDY2A Proteins, Antibodies, CLIAs, and ELISAs |
| | | | | Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for CDY2A |
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