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Aliases for CDY1 Gene

Aliases for CDY1 Gene

  • Chromodomain Protein, Y-Linked, 1 2 3
  • Chromodomain Protein, Y Chromosome, 1 2 3
  • EC 4 63
  • CDY1A 3 4
  • CDY 3 6
  • Testis-Specific Chromodomain Protein On Y 3
  • Testis-Specific Chromodomain Protein Y 1 3
  • CDY1 CDY1B 4

External Ids for CDY1 Gene

Previous GeneCards Identifiers for CDY1 Gene

  • GC0YP026933
  • GC0YM025438
  • GC0YM025036
  • GC0YP026106
  • GC0YP026177
  • GC0YP027768
  • GC0YM018183

Summaries for CDY1 Gene

Entrez Gene Summary for CDY1 Gene

  • This 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 is localized to the nucleus of late spermatids where histone hyperacetylation takes place. Histone hyperacetylation is thought to facilitate the transition in which protamines replace histones as the major DNA-packaging protein. The human chromosome Y has two identical copies of this gene within a palindromic region; this record represents the more telomeric copy. Chromosome Y also contains a pair of closely related genes in another more telomeric palindrome as well as several related pseudogenes. Two protein isoforms are encoded by transcript variants of this gene. Additional transcript variants have been described, but their full-length nature has not been determined. [provided by RefSeq, Jul 2008]

GeneCards Summary for CDY1 Gene

CDY1 (Chromodomain Protein, Y-Linked, 1) is a Protein Coding gene. Diseases associated with CDY1 include y chromosome infertility. An important paralog of this gene is CDY1B.

UniProtKB/Swiss-Prot for CDY1 Gene

  • Has histone acetyltransferase activity, with a preference for histone H4.

Gene Wiki entry for CDY1 Gene

No data available for Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for CDY1 Gene

Genomics for CDY1 Gene

Regulatory Elements for CDY1 Gene

Genomic Location for CDY1 Gene

25,622,117 bp from pter
25,624,902 bp from pter
2,786 bases
Plus strand

Genomic View for CDY1 Gene

UCSC Golden Path with GeneCards custom track
Cytogenetic band:
Genomic Location for CDY1 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for CDY1 Gene

Proteins for CDY1 Gene

  • Protein details for CDY1 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Recommended name:
    Testis-specific chromodomain protein Y 1
    Protein Accession:
    Secondary Accessions:
    • A2RUK1
    • O14600

    Protein attributes for CDY1 Gene

    540 amino acids
    Molecular mass:
    60473 Da
    Quaternary structure:
    • Interacts (via chromo domain) with histone H3K9me3.

    Three dimensional structures from OCA and Proteopedia for CDY1 Gene

    Alternative splice isoforms for CDY1 Gene


neXtProt entry for CDY1 Gene

Proteomics data for CDY1 Gene at MOPED

Post-translational modifications for CDY1 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for CDY1 Gene

ENSEMBL proteins:
REFSEQ proteins:

Domains for CDY1 Gene

Graphical View of Domain Structure for InterPro Entry



  • Q9Y6F8
  • Contains 1 chromo domain.
genes like me logo Genes that share domains with CDY1: view

No data available for Gene Families and Suggested Antigen Peptide Sequences for CDY1 Gene

Function for CDY1 Gene

Molecular function for CDY1 Gene

GENATLAS Biochemistry: DNA binding protein with a chromatin organization modifier (chromo) domain,involved in compaction during spermatogenesis,testis specific,CHD family,1,in a AZF deleted region
UniProtKB/Swiss-Prot CatalyticActivity: Acetyl-CoA + [histone] = CoA + acetyl-[histone]
UniProtKB/Swiss-Prot Function: Has histone acetyltransferase activity, with a preference for histone H4.

Enzyme Numbers (IUBMB) for CDY1 Gene

Gene Ontology (GO) - Molecular Function for CDY1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003824 catalytic activity --
GO:0004402 histone acetyltransferase activity IEA --
GO:0035064 methylated histone binding IDA 18450745
genes like me logo Genes that share ontologies with CDY1: view

No data available for Phenotypes , Animal Models , miRNA , Transcription Factor Targeting and HOMER Transcription for CDY1 Gene

Localization for CDY1 Gene

Subcellular locations from UniProtKB/Swiss-Prot for CDY1 Gene

Subcellular locations from

Jensen Localization Image for CDY1 Gene COMPARTMENTS Subcellular localization image for CDY1 gene
Compartment Confidence
nucleus 3
mitochondrion 1

Gene Ontology (GO) - Cellular Components for CDY1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus IDA 18450745
genes like me logo Genes that share ontologies with CDY1: view

Pathways for CDY1 Gene

SuperPathways for CDY1 Gene

No Data Available

Gene Ontology (GO) - Biological Process for CDY1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0007283 spermatogenesis TAS 9381176
GO:0008152 metabolic process --
GO:0016573 histone acetylation IEA --
genes like me logo Genes that share ontologies with CDY1: view

No data available for Pathways by source for CDY1 Gene

Compounds for CDY1 Gene

(2) HMDB Compounds for CDY1 Gene

Compound Synonyms Cas Number PubMed IDs
  • S-Acetyl coenzyme A
Coenzyme A
  • Acetoacetyl coenzyme A sodium salt
genes like me logo Genes that share compounds with CDY1: view

Transcripts for CDY1 Gene

mRNA/cDNA for CDY1 Gene

(12) Selected AceView cDNA sequences:
(3) REFSEQ mRNAs :
(2) Ensembl transcripts including schematic representations, and UCSC links where relevant :

Alternative Splicing Database (ASD) splice patterns (SP) for CDY1 Gene

No ASD Table

Relevant External Links for CDY1 Gene

GeneLoc Exon Structure for
ECgene alternative splicing isoforms for

Expression for CDY1 Gene

mRNA expression in normal human tissues for CDY1 Gene

Integrated Proteomics: protein expression from ProteomicsDB, PaxDb, and MOPED for CDY1 Gene

SOURCE GeneReport for Unigene cluster for CDY1 Gene Hs.159281

mRNA Expression by UniProt/SwissProt for CDY1 Gene

Tissue specificity: Testis-specific. Detected in spermatids (at protein level).
genes like me logo Genes that share expressions with CDY1: view

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery and mRNA differential expression in normal tissues for CDY1 Gene

Orthologs for CDY1 Gene

This gene was present in the common ancestor of animals and fungi.

Orthologs for CDY1 Gene

Organism Taxonomy Gene Similarity Type Details
(Pan troglodytes)
Mammalia -- 36
  • 97 (a)
-- 36
  • 97 (a)
-- 36
  • 97 (a)
CDY1 35
  • 98.4 (n)
  • 97.04 (a)
CDY1 36
  • 97 (a)
CDY1 36
  • 94 (a)
(Bos Taurus)
Mammalia CDYL 36
  • 59 (a)
(Canis familiaris)
Mammalia -- 36
  • 60 (a)
(Monodelphis domestica)
Mammalia -- 36
  • 60 (a)
(Ornithorhynchus anatinus)
Mammalia -- 36
  • 58 (a)
(Gallus gallus)
Aves -- 36
  • 60 (a)
(Anolis carolinensis)
Reptilia -- 36
  • 59 (a)
(Danio rerio)
Actinopterygii cdyl 36
  • 44 (a)
fruit fly
(Drosophila melanogaster)
Insecta CG3680 36
  • 9 (a)
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes DCI1 36
  • 23 (a)
DCI1 38
ECI1 36
  • 21 (a)
sea squirt
(Ciona savignyi)
Ascidiacea CSA.2946 36
  • 26 (a)
Species with no ortholog for CDY1:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • mouse (Mus musculus)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rainbow trout (Oncorhynchus mykiss)
  • rat (Rattus norvegicus)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • tropical clawed frog (Silurana tropicalis)
  • wheat (Triticum aestivum)
  • worm (Caenorhabditis elegans)

Evolution for CDY1 Gene

Gene Tree for CDY1 (if available)
Gene Tree for CDY1 (if available)

Paralogs for CDY1 Gene

Paralogs for CDY1 Gene

Selected SIMAP similar genes for CDY1 Gene using alignment to 1 proteins:

genes like me logo Genes that share paralogs with CDY1: view

Variants for CDY1 Gene

Sequence variations from dbSNP and Humsavar for CDY1 Gene

SNP ID Clin Chr 0Y pos Sequence Context AA Info Type MAF
rs112604390 -- 25,621,799(+) ACTCC(A/G)TCTCA upstream-variant-2KB

Structural Variations from Database of Genomic Variants (DGV) for CDY1 Gene

Variant ID Type Subtype PubMed ID
essv10843 CNV CNV 17122850
nsv442824 CNV CNV 18776908
nsv515229 CNV Complex 21397061
dgv2510e1 CNV Complex 17122850
nsv442826 CNV CNV 18776908
nsv515231 CNV Complex 21397061
nsv469828 CNV Complex 16826518

Relevant External Links for CDY1 Gene

HapMap Linkage Disequilibrium report

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for CDY1 Gene

Disorders for CDY1 Gene

MalaCards: The human disease database

MalaCards: The human disease database. (1) Diseases for CDY1 Gene including...

Search for CDY1 Gene in MalaCards »

(2) University of Copenhagen DISEASES for CDY1 Gene

Relevant External Links for CDY1

Genetic Association Database (GAD)
Human Genome Epidemiology (HuGE) Navigator
genes like me logo Genes that share disorders with CDY1: view

No data available for UniProtKB/Swiss-Prot for CDY1 Gene

Publications for CDY1 Gene

  1. Specificity of the chromodomain Y chromosome family of chromodomains for lysine-methylated ARK(S/T) motifs. (PMID: 18450745) Fischle W. … Khorasanizadeh S. (J. Biol. Chem. 2008) 3 4 23
  2. Functional coherence of the human Y chromosome. (PMID: 9381176) Lahn B.T. … Page D.C. (Science 1997) 2 3 4
  3. Retroposition of autosomal mRNA yielded testis-specific gene family on human Y chromosome. (PMID: 10192397) Lahn B.T. … Page D.C. (Nat. Genet. 1999) 3 4
  4. Previously uncharacterized histone acetyltransferases implicated in mammalian spermatogenesis. (PMID: 12072557) Lahn B.T. … Page D.C. (Proc. Natl. Acad. Sci. U.S.A. 2002) 3 4
  5. Do we need to search for gr/gr deletions in infertile men in a clinical setting? (PMID: 18326516) Stouffs K. … Lissens W. (Hum. Reprod. 2008) 3 48

Products for CDY1 Gene

Sources for CDY1 Gene

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