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Aliases for CDY1B Gene

Aliases for CDY1B Gene

  • Chromodomain Y-Linked 1B 2 3 5
  • Chromodomain Protein, Y-Linked, 1B 2 3
  • EC 2.3.1.48 4 58
  • Testis-Specific Chromodomain Protein On Y, Centromeric 3
  • Chromodomain Protein, Y Chromosome, 1, Centromeric 3
  • Testis-Specific Chromodomain Protein Y 1 3
  • CDY1 CDY1B 4
  • CDY1A 4
  • CDY 3

External Ids for CDY1B Gene

Previous GeneCards Identifiers for CDY1B Gene

  • GC0YM024530
  • GC0YU900278
  • GC0YM024600
  • GC0YM026191

Summaries for CDY1B Gene

Entrez Gene Summary for CDY1B 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 centromeric 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 CDY1B Gene

CDY1B (Chromodomain Y-Linked 1B) is a Protein Coding gene. Diseases associated with CDY1B include Male Reproductive System Disease. GO annotations related to this gene include histone acetyltransferase activity and methylated histone binding. An important paralog of this gene is CDY1.

UniProtKB/Swiss-Prot for CDY1B Gene

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

Additional gene information for CDY1B Gene

No data available for CIViC summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for CDY1B Gene

Genomics for CDY1B Gene

Genomic Location for CDY1B Gene

Chromosome:
Y
Start:
24,035,386 bp from pter
End:
24,048,019 bp from pter
Size:
12,634 bases
Orientation:
Minus strand

Genomic View for CDY1B Gene

Genes around CDY1B on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
CDY1B Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for CDY1B Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for CDY1B Gene

Proteins for CDY1B Gene

  • Protein details for CDY1B Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q9Y6F8-CDY1_HUMAN
    Recommended name:
    Testis-specific chromodomain protein Y 1
    Protein Accession:
    Q9Y6F8
    Secondary Accessions:
    • A2RUK1
    • O14600

    Protein attributes for CDY1B Gene

    Size:
    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 CDY1B Gene

    Alternative splice isoforms for CDY1B Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for CDY1B Gene

Selected DME Specific Peptides for CDY1B Gene

Q9Y6F8:
  • YLVRWKGYD
  • KALVRCN
  • DDTWEPEQHL
  • VNGPAIGLGASILPLCD
  • GSVFCCGLDF
  • NFVNTFIQFKKPI
  • KGLVSQVF
  • VWANEKAWFQTPYTTFGQSPDGCS
  • AAADDSKLVL

Post-translational modifications for CDY1B Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for CDY1B Gene

Domains & Families for CDY1B Gene

Gene Families for CDY1B Gene

Human Protein Atlas (HPA):
  • Enzymes
  • Predicted intracellular proteins

Suggested Antigen Peptide Sequences for CDY1B Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

genes like me logo Genes that share domains with CDY1B: view

No data available for UniProtKB/Swiss-Prot for CDY1B Gene

Function for CDY1B Gene

Molecular function for CDY1B Gene

UniProtKB/Swiss-Prot CatalyticActivity:
Acetyl-CoA + [protein]-L-lysine = CoA + [protein]-N(6)-acetyl-L-lysine.
UniProtKB/Swiss-Prot Function:
Has histone acetyltransferase activity, with a preference for histone H4.

Enzyme Numbers (IUBMB) for CDY1B Gene

Gene Ontology (GO) - Molecular Function for CDY1B Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0004402 histone acetyltransferase activity IEA --
GO:0016740 transferase activity IEA --
GO:0016746 transferase activity, transferring acyl groups IEA --
GO:0035064 methylated histone binding IDA 18450745
genes like me logo Genes that share ontologies with CDY1B: view

Phenotypes for CDY1B Gene

genes like me logo Genes that share phenotypes with CDY1B: view

Animal Model Products

CRISPR Products

Inhibitory RNA Products

Clone Products

  • Applied Biological Materials Clones for CDY1B
  • Vectors and viruses for ORF, Lenti, Retro, Adenovirus, AAV, and more

No data available for Phenotypes From GWAS Catalog , Human Phenotype Ontology , Animal Models , miRNA , Transcription Factor Targets and HOMER Transcription for CDY1B Gene

Localization for CDY1B Gene

Subcellular locations from UniProtKB/Swiss-Prot for CDY1B Gene

Subcellular locations from

COMPARTMENTS
Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for CDY1B gene
Compartment Confidence
nucleus 5

Gene Ontology (GO) - Cellular Components for CDY1B Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus IEA,IDA 18450745
genes like me logo Genes that share ontologies with CDY1B: view

No data available for Subcellular locations from the Human Protein Atlas (HPA) for CDY1B Gene

Pathways & Interactions for CDY1B Gene

SuperPathways for CDY1B Gene

No Data Available

Gene Ontology (GO) - Biological Process for CDY1B Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0007283 spermatogenesis TAS 9381176
GO:0008152 metabolic process IEA --
GO:0016573 histone acetylation IEA --
genes like me logo Genes that share ontologies with CDY1B: view

No data available for Pathways by source and SIGNOR curated interactions for CDY1B Gene

Drugs & Compounds for CDY1B Gene

No Compound Related Data Available

Transcripts for CDY1B Gene

mRNA/cDNA for CDY1B Gene

(3) REFSEQ mRNAs :
(2) Additional mRNA sequences :
(2) Ensembl transcripts including schematic representations, and UCSC links where relevant :

Unigene Clusters for CDY1B Gene

Chromodomain protein, Y-linked, 1B:
Representative Sequences:

CRISPR Products

Inhibitory RNA Products

Clone Products

  • Applied Biological Materials Clones for CDY1B
  • Vectors and viruses for ORF, Lenti, Retro, Adenovirus, AAV, and more

Alternative Splicing Database (ASD) splice patterns (SP) for CDY1B Gene

No ASD Table

Relevant External Links for CDY1B Gene

GeneLoc Exon Structure for
CDY1B
ECgene alternative splicing isoforms for
CDY1B

Expression for CDY1B Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for CDY1B Gene

Protein differential expression in normal tissues from HIPED for CDY1B 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 CDY1B Gene



Protein tissue co-expression partners for CDY1B Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of CDY1B Gene:

CDY1B

SOURCE GeneReport for Unigene cluster for CDY1B Gene:

Hs.562095

mRNA Expression by UniProt/SwissProt for CDY1B Gene:

Q9Y6F8-CDY1_HUMAN
Tissue specificity: Testis-specific. Detected in spermatids (at protein level).
genes like me logo Genes that share expression patterns with CDY1B: view

Primer Products

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA differential expression in normal tissues , Evidence on tissue expression from TISSUES and Phenotype-based relationships between genes and organs from Gene ORGANizer for CDY1B Gene

Orthologs for CDY1B Gene

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

Orthologs for CDY1B Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia CDY1 34 34 33
  • 98.4 (n)
ManyToMany
-- 34
  • 97 (a)
ManyToMany
-- 34
  • 97 (a)
ManyToMany
-- 34
  • 97 (a)
ManyToMany
dog
(Canis familiaris)
Mammalia -- 34
  • 60 (a)
OneToMany
oppossum
(Monodelphis domestica)
Mammalia -- 34
  • 60 (a)
OneToMany
cow
(Bos Taurus)
Mammalia CDYL 34
  • 59 (a)
OneToMany
platypus
(Ornithorhynchus anatinus)
Mammalia -- 34
  • 58 (a)
OneToMany
chicken
(Gallus gallus)
Aves -- 34
  • 60 (a)
OneToMany
lizard
(Anolis carolinensis)
Reptilia -- 34
  • 59 (a)
OneToMany
zebrafish
(Danio rerio)
Actinopterygii cdyl 34
  • 44 (a)
OneToMany
fruit fly
(Drosophila melanogaster)
Insecta CG3680 34
  • 9 (a)
OneToMany
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes DCI1 34 36
  • 23 (a)
ManyToMany
ECI1 34
  • 21 (a)
ManyToMany
sea squirt
(Ciona savignyi)
Ascidiacea -- 34
  • 35 (a)
ManyToMany
Species where no ortholog for CDY1B was found in the sources mined by GeneCards:
  • 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 CDY1B Gene

ENSEMBL:
Gene Tree for CDY1B (if available)
TreeFam:
Gene Tree for CDY1B (if available)

Paralogs for CDY1B Gene

Paralogs for CDY1B Gene

(6) SIMAP similar genes for CDY1B Gene using alignment to 1 proteins:

genes like me logo Genes that share paralogs with CDY1B: view

Variants for CDY1B Gene

Sequence variations from dbSNP and Humsavar for CDY1B Gene

SNP ID Clin Chr 0Y pos Sequence Context AA Info Type
rs113904488 -- 24,048,302(+) CGTTT(C/T)GTTTT upstream-variant-2KB

Structural Variations from Database of Genomic Variants (DGV) for CDY1B Gene

Variant ID Type Subtype PubMed ID
dgv2564e212 CNV gain 25503493
dgv2577e212 CNV gain 25503493
dgv2579e212 CNV gain 25503493
dgv2580e212 CNV loss 25503493
dgv2581e212 CNV loss 25503493
esv3575148 CNV loss 25503493
esv3575152 CNV loss 25503493
esv3575154 CNV loss 25503493
esv3575179 CNV loss 25503493
esv3575190 CNV loss 25503493
esv3577652 CNV gain 25503493
esv3577653 CNV gain 25503493
nsv442824 CNV gain+loss 18776908
nsv442826 CNV gain+loss 18776908
nsv469828 CNV gain+loss 16826518
nsv515229 CNV loss 21397061
nsv515231 CNV loss 21397061

Relevant External Links for CDY1B Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
CDY1B

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot and Variation tolerance for CDY1B Gene

Disorders for CDY1B Gene

MalaCards: The human disease database

(1) MalaCards diseases for CDY1B Gene - From: DISEASES

Disorder Aliases PubMed IDs
male reproductive system disease
  • genital diseases, male
- elite association - COSMIC cancer census association via MalaCards
Search CDY1B in MalaCards View complete list of genes associated with diseases

Relevant External Links for CDY1B

Atlas of Genetics and Cytogenetics in Oncology and Haematology:
CDY1B
genes like me logo Genes that share disorders with CDY1B: view

No data available for UniProtKB/Swiss-Prot and Genatlas for CDY1B Gene

Publications for CDY1B Gene

  1. Retroposition of autosomal mRNA yielded testis-specific gene family on human Y chromosome. (PMID: 10192397) Lahn BT … Page DC (Nature genetics 1999) 2 3 4 60
  2. Functional coherence of the human Y chromosome. (PMID: 9381176) Lahn BT … Page DC (Science (New York, N.Y.) 1997) 2 3 4 60
  3. Specificity of the chromodomain Y chromosome family of chromodomains for lysine-methylated ARK(S/T) motifs. (PMID: 18450745) Fischle W … Khorasanizadeh S (The Journal of biological chemistry 2008) 3 4 60
  4. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard DS … MGC Project Team (Genome research 2004) 3 4 60
  5. Previously uncharacterized histone acetyltransferases implicated in mammalian spermatogenesis. (PMID: 12072557) Lahn BT … Page DC (Proceedings of the National Academy of Sciences of the United States of America 2002) 3 4 60

Products for CDY1B Gene

Sources for CDY1B Gene

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