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Aliases for CDY1 Gene

Aliases for CDY1 Gene

  • Chromodomain Protein, Y-Linked, 1 2 3 5
  • Chromodomain Protein, Y Chromosome, 1 2 3
  • EC 4 63
  • CDY1A 3 4
  • Testis-Specific Chromodomain Protein On Y 3
  • CDY1 CDY1B 4
  • CDY 3

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 Male Reproductive System Disease and Reproductive System Disease. GO annotations related to this gene include histone acetyltransferase activity and methylated histone binding. 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

25,622,115 bp from pter
25,634,745 bp from pter
12,631 bases
Plus strand

Genomic View for CDY1 Gene

Genes around CDY1 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
CDY1 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
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.
    • 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 & Families for CDY1 Gene

Graphical View of Domain Structure for InterPro Entry



  • Contains 1 chromo domain.
  • 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

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

Animal Model Products

CRISPR Products

No data available for Gene Ontology (GO) - Molecular Function , Human Phenotype Ontology , Animal Models , miRNA , Transcription Factor Targets 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 5

No data available for Gene Ontology (GO) - Cellular Components for CDY1 Gene

Pathways & Interactions for CDY1 Gene

SuperPathways for CDY1 Gene

No Data Available

Gene Ontology (GO) - Biological Process for CDY1 Gene


No data available for Pathways by source and SIGNOR curated interactions for CDY1 Gene

Drugs & Compounds for CDY1 Gene

(1) Drugs for CDY1 Gene - From: HMDB

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
Coenzyme A Nutra 0

(1) Additional Compounds for CDY1 Gene - From: HMDB

Name Synonyms Role CAS Number PubChem IDs PubMed IDs
  • Ac-CoA
  • Ac-Coenzyme A
  • Ac-S-CoA
  • Ac-S-Coenzyme A
  • Acetyl coenzyme-A
genes like me logo Genes that share compounds with CDY1: view

Transcripts for CDY1 Gene

mRNA/cDNA for CDY1 Gene

(3) REFSEQ mRNAs :
(12) Selected AceView cDNA sequences:
(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

Protein differential expression in normal tissues from HIPED for CDY1 Gene

This gene is overexpressed in Monocytes (54.6) and Adipocyte (14.4).

Integrated Proteomics: protein expression in normal tissues and cell lines 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 expression patterns with CDY1: view

Protein tissue co-expression partners for CDY1 Gene

- Elite partner

Primer Products

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 CDY1 35
  • 98.4 (n)
  • 97.04 (a)
-- 36
  • 97 (a)
-- 36
  • 97 (a)
-- 36
  • 97 (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)
ECI1 36
  • 21 (a)
DCI1 38
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

(6) 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
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

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot , Variation tolerance and Relevant External Links for CDY1 Gene

Disorders for CDY1 Gene

MalaCards: The human disease database

(2) MalaCards diseases for CDY1 Gene - From: DISEASES

Disorder Aliases PubMed IDs
male reproductive system disease
  • genital diseases, male
reproductive system disease
  • genital system disease
- elite association - COSMIC cancer census association via MalaCards
Search CDY1 in MalaCards View complete list of genes associated with diseases

Relevant External Links for CDY1

Genetic Association Database (GAD)
Human Genome Epidemiology (HuGE) Navigator
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
genes like me logo Genes that share disorders with CDY1: view

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

Publications for CDY1 Gene

  1. Functional coherence of the human Y chromosome. (PMID: 9381176) Lahn B.T. … Page D.C. (Science 1997) 2 3 4 67
  2. 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 23
  3. Deletion of CDY1b copy of Y chromosome CDY1 gene is a risk factor of male infertility in Tunisian men. (PMID: 25042452) Ghorbel M. … Ammar-Keskes L. (Gene 2014) 3
  4. Whole genome RNAi screens reveal a critical role of REV3 in coping with replication stress. (PMID: 25113059) Kotov I.N. … Marti T.M. (Mol Oncol 2014) 3
  5. CDY1 and BOULE transcripts assessed in the same biopsy as predictive markers for successful testicular sperm retrieval. (PMID: 21474125) Kleiman S.E. … Yogev L. (Fertil. Steril. 2011) 3

Products for CDY1 Gene

Sources for CDY1 Gene