CDY2B Gene
protein-coding GIFtS: 36
GCID: GC0YM019990
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|
chromodomain protein, Y-linked, 2B
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Aliases
for CDY2B 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, 2B1 2 | | Testis-Specific Chromodomain Protein Y 22 | | CDY1 2 | | Testis-Specific Chromodomain Protein Y Protein 2 Related2 | | EC 2.3.1.483 8 | | Y Chromosome Chromodomain Protein 2B2 | | Chromodomain Protein, Y Chromosome, 2 Related2 | | CDY23 |
Export aliases for CDY2B gene to outside databasesPrevious GC identifers: GC0YM018428 GC0YM018499 |
Summaries
for CDY2B 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 CDY2B:
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 thecentromeric 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)
|
Genomic Views
for CDY2B 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 CDY2B 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 CDY2B
Epigenetics:
| | QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat CDY2B |
Genomic Location:
Genomic View: UCSC Golden Path with GeneCards custom track
Entrez Gene cytogenetic band: Yq11.222 Ensembl cytogenetic band: Yq11.222 HGNC cytogenetic band: Yq11.222CDY2B 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 GC0YM019990: view genomic region
(about GC identifiers)
Start:
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19,989,290 bp from pter |
End:
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19,992,100 bp from pter |
Size:
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2,811 bases |
Orientation:
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minus strand |
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Proteins
for CDY2B 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 CDY2B:2FW2 (3D)
Secondary accessions: A8K868Explore the universe of human proteins at neXtProt for CDY2B: NX_Q9Y6F7
Post-translational modifications:
View modification sites using PhosphoSitePlus2View neXtProt modification sites for NX_Q9Y6F7
4/9 DME Specific Peptides for CDY2B (Q9Y6F7) (see all 9)
CDY2B Protein expression data from MOPED and PaxDb: About this image 
REFSEQ proteins: NP_001001722.1
ENSEMBL proteins: ENSP00000372319 ENSP00000441273
Human Recombinant Protein Products:
Gene Ontology (GO): 1 cellular component term (GO ID links to tree view): About this table | GO ID | Qualified GO term | Evidence | PubMed IDs |
|---|
| GO:0005634 | nucleus |
IEA | -- |
CDY2B for ontologies About GeneDecksing
CDY2B Antibody Products:
Assay Products for CDY2B: |
Protein
Domains /
Families
for CDY2B gene(According to InterPro, ProtoNet,
UniProtKB, and/or BLOCKS,
Sets of similar genes according to GeneDecks)
About This Section
|
CDY2B 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 CDY2B gene
(According to 1UniProtKB,
Genatlas,
LifeMap Discovery™,
IUBMB, and/or
2DME,
Human phenotypes from GenomeRNAi,
Animal models from MGI Mar 06 2013,
bound targets from SABiosciences,
miRNA Gene Targets from miRTarBase
shRNA from
OriGene,
RNAi from
EMD Millipore,
siRNAs from
OriGene,
QIAGEN,
microRNA from QIAGEN,
Gene Editing from DNA2.0,
Clones from EMD Millipore,
OriGene,
SwitchGear Genomics,
GenScript,
Sino Biological,
DNA2.0,
and Vector BioLabs,
Cell Lines from GenScript,
LifeMap BioReagents,
In Situ Hybridization Assays from Advanced Cell Diagnostics,
Ontologies according to Gene Ontology Consortium 01 Mar 2013 via
Entrez Gene.)
About This Section
|
Function Summary:
UniProtKB/Swiss-Prot: 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
Clone
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OriGene untagged cDNA clones in CMV expression vector in human, mouse, rat for CDY2B
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In Situ Assay
Products: |
 | Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for CDY2B |
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 |
IEA | -- |
CDY2B for ontologies About GeneDecksing
|
Pathways & Interactions
for CDY2B 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 CDY2B
Gene Ontology (GO): 1 biological process term (GO ID links to tree view): About this table
CDY2B for ontologies About GeneDecksing
|
Drugs & Compounds
for CDY2B 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 CDY2B
Search CenterWatch for drugs/clinical trials and news about CDY2B / CDY2
|
Transcripts
for CDY2B 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,
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 CDY2B gene: NM_001001722.1 Unigene Cluster for CDY2B: Chromodomain protein, Y-linked, 2B Hs.532657 Unigene Representative Sequence: BC0690872 Ensembl transcripts including schematic representations, and UCSC links where relevant: ENST00000382867(uc004ftl.1) ENST00000544303
Clone
Products: | | OriGene Myc/DDK tagged cDNA clones in CMV expression vector in human, mouse, rat for CDY2B
OriGene untagged cDNA clones in CMV expression vector in human, mouse, rat for CDY2B
OriGene custom cloning services – gene synthesis, subcloning, mutagenesis,
variant library, vector shuttling
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Additional cDNA sequence: BC069087.1 BC130426.1 BC130428.1 1 DOTS entry: DT.101963184 2 AceView cDNA sequences: NM_001001722 BC069087
GeneLoc Exon Structure
|
Expression
for CDY2B 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
| CDY2B expression in normal human tissues (normalized intensities)
See probesets specificity/sensitivity at GeneAnnot
About this imageBioGPS
CGAP TAG: --
About this image
See CDY2B Protein Expression from SPIRE MOPED and PaxDB
Genevestigator expression for CDY2B
SOURCE GeneReport for Unigene cluster: Hs.532657
UniProtKB/Swiss-Prot: CDY2_HUMAN, Q9Y6F7Tissue specificity: Testis specific
SABiosciences Custom PCR Arrays for CDY2B
Primer
Products: | | OriGene genome-wide validated SYBR primer pairs in human, mouse, rat for CDY2B
Browse OriGene validated miRNA SYBR primer pairs
| | | Search SABiosciences RT2 qPCR
Primer Assays in human, mouse, rat CDY2B | | | QIAGEN QuantiTect SYBR Green Assays in human, mouse, rat CDY2B | | | QIAGEN QuantiFast Probe-based Assays in human, mouse, rat CDY2B | In Situ
Assay Products: |
| Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for CDY2B |
Orthologs
for CDY2B 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 CDY2B gene from 8/22 species (see all 22) About this table
ENSEMBL Gene Tree for CDY2B (if available)
TreeFam Gene Tree for CDY2B (if available) |
Paralogs
for CDY2B gene(Paralogs according to
1HomoloGene,
2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
About This Section
| Paralogs for CDY2B gene
- CDY2A1 2 CDY11 2 CDY1B1 2 ECI22 CDYL2 CDYL22
9 SIMAP similar genes for CDY2B using alignment to 2 protein entries: CDY2_HUMAN (see all proteins):CDY2A CDY1 CDY1B CDYL CDYL2 CBX5
ECI2 PECI ECHDC3
CDY2B for paralogs About GeneDecksing
|
Genomic Variants
for CDY2B 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
|
Structural Variations (Copy Number Variations, Insertions/Deletions, Inversions)
Database of Genomic Variants (DGV): 1 variation for CDY2B
1 CNV: 2286 | SABiosciences Cancer Mutation PCR Assays |
| | QIAGEN SeqTarget long-range PCR primers in human, mouse, rat for resequencing CDY2B |
|
Disorders
/ Diseases
for CDY2B 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
| -- |
Publications
for CDY2B 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 CDY2B gene, integrated from 9 sources (see all 14):
(articles sorted by number of sources associating them with CDY2B) | |  | 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)
- Functional coherence of the human Y chromosome. (PubMed id 9381176)1, 3 Lahn B.T. and Page D.C. (1997)
- 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 CDY2B gene
(in PubMed,
OMIM, and NCBI Bookshelf)
About This Section
|
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Genome Databases showing CDY2B gene
(According to
Entrez Gene,
HGNC,
AceView,
euGenes,
Ensembl,
miRBase,
ECgene,
Kegg,
and/or
H-InvDB)
About This Section
|
|
Other Databases showing CDY2B gene
(According to HUGE)
About This Section
| -- |
Specialized Databases showing CDY2B 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 CDY2B | Pharmacogenomics, SNPs, Pathways |
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| | |
About This Section
| Patent Information for CDY2B gene:
Search GeneIP for patents involving CDY2B
GeneCards and IP:
Japan Patent Office Licenses GeneCards European Patent Office Licenses GeneCards Improving the IP Search
|
Products
for CDY2B 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, Clones from EMD Millipore, OriGene, GenScript, Sino Biological, DNA2.0, SwitchGear Genomics, Vector BioLabs, Cell lines from GenScript and LifeMap BioReagents, 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
About This Section
|
 | |
 | |
 |
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 | | | CDY2B Proteins, Antibodies, CLIAs, and ELISAs |
| | | | | Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for CDY2B |
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| | | Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat CDY2B |
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