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Aliases for CDY1B Gene

Aliases for CDY1B Gene

  • Chromodomain Protein, Y-Linked, 1B 2 3
  • EC 2.3.1.48 4 63
  • 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

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 Protein, Y-Linked, 1B) is a Protein Coding gene. GO annotations related to this gene include histone acetyltransferase activity. An important paralog of this gene is ECH1.

UniProtKB/Swiss-Prot for CDY1B Gene

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

No data available for 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

Start:
24,045,229 bp from pter
End:
24,048,019 bp from pter
Size:
2,791 bases
Orientation:
Minus strand

Genomic View for CDY1B Gene

UCSC Golden Path with GeneCards custom track
Cytogenetic band:
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.

    Three dimensional structures from OCA and Proteopedia for CDY1B Gene

    Alternative splice isoforms for CDY1B Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for CDY1B Gene

Proteomics data for CDY1B Gene at MOPED

Post-translational modifications for CDY1B Gene

No Post-translational modifications

Other Protein References for CDY1B Gene

ENSEMBL proteins:
REFSEQ proteins:

Domains for CDY1B Gene

Suggested Antigen Peptide Sequences for CDY1B Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

Q9Y6F8

UniProtKB/Swiss-Prot:

CDY1_HUMAN
Domain:
  • Contains 1 chromo domain.:
    • Q9Y6F8
genes like me logo Genes that share domains with CDY1B: view

No data available for Gene Families for CDY1B Gene

Function for CDY1B Gene

Molecular function for CDY1B Gene

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 CDY1B Gene

Gene Ontology (GO) - Molecular Function for CDY1B 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 CDY1B: view

Phenotypes for CDY1B Gene

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

No data available for Animal Models , miRNA , Transcription Factor Targeting and HOMER Transcription for CDY1B Gene

Localization for CDY1B Gene

Subcellular locations from UniProtKB/Swiss-Prot for CDY1B Gene

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for CDY1B Gene COMPARTMENTS Subcellular localization image for CDY1B gene
Compartment Confidence
nucleus 3
mitochondrion 1

Gene Ontology (GO) - Cellular Components for CDY1B Gene

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

Pathways for CDY1B Gene

SuperPathways for CDY1B Gene

No Data Available

Interacting Proteins for CDY1B Gene

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 --
GO:0016573 histone acetylation IEA --
genes like me logo Genes that share ontologies with CDY1B: view

No data available for Pathways by source for CDY1B Gene

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:

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 for CDY1B Gene

Integrated Proteomics: protein expression from ProteomicsDB, PaxDb, and MOPED for CDY1B Gene

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 expressions with CDY1B: view

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery and mRNA differential expression in normal tissues 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 -- 36
  • 97 (a)
ManyToMany
-- 36
  • 97 (a)
ManyToMany
-- 36
  • 97 (a)
ManyToMany
CDY1 35
  • 98.4 (n)
  • 97.04 (a)
CDY1 36
  • 97 (a)
ManyToMany
CDY1 36
  • 94 (a)
ManyToMany
cow
(Bos Taurus)
Mammalia CDYL 36
  • 59 (a)
OneToMany
dog
(Canis familiaris)
Mammalia -- 36
  • 60 (a)
OneToMany
oppossum
(Monodelphis domestica)
Mammalia -- 36
  • 60 (a)
OneToMany
platypus
(Ornithorhynchus anatinus)
Mammalia -- 36
  • 58 (a)
OneToMany
chicken
(Gallus gallus)
Aves -- 36
  • 60 (a)
OneToMany
lizard
(Anolis carolinensis)
Reptilia -- 36
  • 59 (a)
OneToMany
zebrafish
(Danio rerio)
Actinopterygii cdyl 36
  • 44 (a)
OneToMany
fruit fly
(Drosophila melanogaster)
Insecta CG3680 36
  • 9 (a)
OneToMany
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes DCI1 36
  • 23 (a)
ManyToMany
DCI1 38
ECI1 36
  • 21 (a)
ManyToMany
sea squirt
(Ciona savignyi)
Ascidiacea -- 36
  • 35 (a)
ManyToMany
Species with no ortholog for CDY1B:
  • 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

Selected 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 MAF
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
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 CDY1B Gene

HapMap Linkage Disequilibrium report
CDY1B

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

Disorders for CDY1B Gene

(1) University of Copenhagen DISEASES for CDY1B Gene

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

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

Publications for CDY1B Gene

  1. Retroposition of autosomal mRNA yielded testis-specific gene family on human Y chromosome. (PMID: 10192397) Lahn B.T. … Page D.C. (Nat. Genet. 1999) 2 3 4
  2. Functional coherence of the human Y chromosome. (PMID: 9381176) Lahn B.T. … Page D.C. (Science 1997) 2 3 4
  3. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard D.S. … Malek J. (Genome Res. 2004) 3 4
  4. 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
  5. 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

Products for CDY1B Gene

Sources for CDY1B Gene

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