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Aliases for CDYL Gene

Aliases for CDYL Gene

  • Chromodomain Y-Like 2 3 5
  • Testis-Specific Chromodomain Y-Like Protein 2 3
  • Chromodomain Protein, Y-Like 2 3
  • CDY-Like, Autosomal 2 3
  • EC 2.3.1.48 4 61
  • CDYL1 3 4
  • Chromodomain Protein, Y Chromosome-Like 2
  • Chromodomain Y-Like Protein 3
  • CDY-Like 4

External Ids for CDYL Gene

Previous GeneCards Identifiers for CDYL Gene

  • GC06P004691
  • GC06P004651
  • GC06P004582

Summaries for CDYL Gene

Entrez Gene Summary for CDYL Gene

  • Chromodomain Y is a primate-specific Y-chromosomal gene family expressed exclusively in the testis and implicated in infertility. Although the Y-linked genes are testis-specific, this autosomal gene is ubiquitously expressed. The Y-linked genes arose by retrotransposition of an mRNA from this gene, followed by amplification of the retroposed gene. Proteins encoded by this gene superfamily possess a chromodomain, a motif implicated in chromatin binding and gene suppression, and a catalytic domain believed to be involved in histone acetylation. Multiple proteins are encoded by transcript variants of this gene. [provided by RefSeq, Jul 2008]

GeneCards Summary for CDYL Gene

CDYL (Chromodomain Y-Like) is a Protein Coding gene. Among its related pathways are Transcriptional Regulatory Network in Embryonic Stem Cell. GO annotations related to this gene include transcription corepressor activity and methylated histone binding. An important paralog of this gene is CDY1B.

UniProtKB/Swiss-Prot for CDYL Gene

  • Acts as a RE1-silencing transcription factor (REST) corepressor that facilitates histone-lysine N-methyltransferase EHMT2 recruitment and H3K9 dimethylation at REST target genes for repression. Required for chromatin targeting and maximal enzymatic activity of polycomb repressive complex 2 (PRC2); acts as a positive regulator of PRC2 activity by bridging the pre-existing histone H3K27me3 and newly recruited PRC2 on neighboring nucleosomes. 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 CDYL Gene

Genomics for CDYL Gene

Regulatory Elements for CDYL Gene

Enhancers for CDYL Gene
GeneHancer Identifier Enhancer Score Enhancer Sources Gene-Enhancer Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor Binding Sites within enhancer Gene Targets for Enhancer
GH06F004316 1.4 FANTOM5 Ensembl ENCODE 14.5 -386.1 -386117 7.6 PKNOX1 ARNT SIN3A FEZF1 ZNF2 ZNF766 ZNF548 FOS DEK REST LOC102724096 LOC105374895 PSMC1P11 LOC101927913 LOC107987516 CDYL LYRM4-AS1 FARS2 GC06P004318 PIR45023
GH06F004726 1 FANTOM5 ENCODE 12.1 +21.7 21690 2.4 PKNOX1 ATF1 ARNT FEZF1 ZNF766 CBX5 ELK1 GATA2 NCOA1 REST CDYL PSMC1P11 LOC101927913
GH06F004774 0.6 FANTOM5 ENCODE 12 +70.4 70371 4.0 ATF1 PKNOX1 ARNT ZNF133 SIN3A ZNF48 GLIS2 ELK1 GATA2 ZNF143 CDYL LYRM4 LOC101927913 GC06P004847
GH06F004732 1.1 Ensembl ENCODE 11.6 +27.8 27817 3.4 HDGF HDAC1 SIN3A ZNF121 ZNF335 GATA2 ZNF366 RCOR1 FOS CREM CDYL PSMC1P11 LOC101927913
GH06F004663 0.8 Ensembl ENCODE 11.1 -42.0 -41958 0.8 ZNF639 L3MBTL2 BHLHE40 BACH1 MAFG USF2 CEBPG FOSL1 JUND RAD51 PSMC1P11 CDYL PIR31801 KU-MEL-3
- Elite enhancer/Elite enhancer-gene association Download Table
Download GeneHancer data dump

Enhancers around CDYL on UCSC Golden Path with GeneCards custom track

Genomic Location for CDYL Gene

Chromosome:
6
Start:
4,706,159 bp from pter
End:
4,955,551 bp from pter
Size:
249,393 bases
Orientation:
Plus strand

Genomic View for CDYL Gene

Genes around CDYL on UCSC Golden Path with GeneCards custom track

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

RefSeq DNA sequence for CDYL Gene

Proteins for CDYL Gene

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

    Protein Symbol:
    Q9Y232-CDYL1_HUMAN
    Recommended name:
    Chromodomain Y-like protein
    Protein Accession:
    Q9Y232
    Secondary Accessions:
    • A8K6D6
    • B4DLG4
    • Q0VDG7
    • Q32NC5
    • Q5VX99
    • Q6P7T5
    • Q9BWZ2
    • Q9Y424

    Protein attributes for CDYL Gene

    Size:
    598 amino acids
    Molecular mass:
    66482 Da
    Quaternary structure:
    • Forms multimers and multimerization is required for stable binding to chromatin. Interacts with HDAC1 and HDAC2 via its C-terminal acetyl-CoA-binding domain (By similarity). Interacts with histone H3K9me3, histone H3K27me2 and histone H3K27me3. Interacts with EZH2, EED, SUZ12, REST, EHMT1 and EHMT2. Part of a complex containing at least CDYL, REST, WIZ, SETB1, EHMT1 and EHMT2. Part of a complex containing at least CDYL, MIER1, MIER2, HDAC1 and HDAC2.
    Miscellaneous:
    • Interaction with HDAC1 or HDAC2 prevents Coenzyme A binding.
    SequenceCaution:
    • Sequence=CAB43304.1; Type=Miscellaneous discrepancy; Evidence={ECO:0000305};

    Three dimensional structures from OCA and Proteopedia for CDYL Gene

    Alternative splice isoforms for CDYL Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for CDYL Gene

Selected DME Specific Peptides for CDYL Gene

Q9Y232:
  • YLVRWKGYD
  • KALVRCN
  • DDTWEPEQHL
  • VNGPAIGLGASILPLCD
  • GSVFCCGLDF
  • NFVNTFIQFKKPI
  • KGLVSQVF
  • VWANEKAWFQTPYTTFGQSPDGCS
  • AAADDSKLVL

Post-translational modifications for CDYL Gene

  • Ubiquitination at Lys 172, Lys 538, Lys 576, and Lys 589
  • Modification sites at PhosphoSitePlus

Domains & Families for CDYL Gene

Suggested Antigen Peptide Sequences for CDYL Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

Q9Y232

UniProtKB/Swiss-Prot:

CDYL1_HUMAN :
  • Contains 1 chromo domain.
Domain:
  • Contains 1 chromo domain.
genes like me logo Genes that share domains with CDYL: view

No data available for Gene Families for CDYL Gene

Function for CDYL Gene

Molecular function for CDYL Gene

GENATLAS Biochemistry:
derivative of a conventional single copy CDY-like gene,1,in a AZF deleted region
UniProtKB/Swiss-Prot CatalyticActivity:
Acetyl-CoA + [histone] = CoA + acetyl-[histone].
UniProtKB/Swiss-Prot Function:
Acts as a RE1-silencing transcription factor (REST) corepressor that facilitates histone-lysine N-methyltransferase EHMT2 recruitment and H3K9 dimethylation at REST target genes for repression. Required for chromatin targeting and maximal enzymatic activity of polycomb repressive complex 2 (PRC2); acts as a positive regulator of PRC2 activity by bridging the pre-existing histone H3K27me3 and newly recruited PRC2 on neighboring nucleosomes. Has histone acetyltransferase activity, with a preference for histone H4.

Enzyme Numbers (IUBMB) for CDYL Gene

Gene Ontology (GO) - Molecular Function for CDYL Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003714 transcription corepressor activity IMP 19061646
GO:0003824 catalytic activity IEA --
GO:0004402 histone acetyltransferase activity IEA --
GO:0005515 protein binding IPI 16415788
GO:0016740 transferase activity IEA --
genes like me logo Genes that share ontologies with CDYL: view
genes like me logo Genes that share phenotypes with CDYL: view

Animal Model Products

  • Taconic Biosciences Mouse Models for CDYL

miRNA for CDYL Gene

miRTarBase miRNAs that target CDYL

Inhibitory RNA Products

Flow Cytometry Products

No data available for Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for CDYL Gene

Localization for CDYL Gene

Subcellular locations from UniProtKB/Swiss-Prot for CDYL Gene

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for CDYL Gene COMPARTMENTS Subcellular localization image for CDYL gene
Compartment Confidence
nucleus 5
cytosol 2
endoplasmic reticulum 1
mitochondrion 1
peroxisome 1
plasma membrane 1

Gene Ontology (GO) - Cellular Components for CDYL Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus IDA 18450745
GO:0005654 nucleoplasm IDA --
GO:0016020 membrane IEA --
GO:0016021 integral component of membrane IEA --
genes like me logo Genes that share ontologies with CDYL: view

Pathways & Interactions for CDYL Gene

genes like me logo Genes that share pathways with CDYL: view

Pathways by source for CDYL Gene

Gene Ontology (GO) - Biological Process for CDYL Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006351 transcription, DNA-templated IEA --
GO:0006355 regulation of transcription, DNA-templated IEA --
GO:0007283 spermatogenesis TAS 10192397
GO:0008152 metabolic process IEA --
GO:0016573 histone acetylation IEA --
genes like me logo Genes that share ontologies with CDYL: view

No data available for SIGNOR curated interactions for CDYL Gene

Drugs & Compounds for CDYL Gene

(1) Drugs for CDYL Gene - From: HMDB

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

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

Name Synonyms Role CAS Number PubChem IDs PubMed IDs
acetyl-coa
  • Ac-CoA
  • Ac-Coenzyme A
  • Ac-S-CoA
  • Ac-S-Coenzyme A
  • Acetyl coenzyme-A
72-89-9
genes like me logo Genes that share compounds with CDYL: view

Transcripts for CDYL Gene

Unigene Clusters for CDYL Gene

Chromodomain protein, Y-like:
Representative Sequences:

Inhibitory RNA Products

Flow Cytometry Products

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

No ASD Table

Relevant External Links for CDYL Gene

GeneLoc Exon Structure for
CDYL
ECgene alternative splicing isoforms for
CDYL

Expression for CDYL Gene

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

Protein differential expression in normal tissues from HIPED for CDYL Gene

This gene is overexpressed in Adipocyte (39.4) and Peripheral blood mononuclear cells (7.9).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MaxQB, and MOPED for CDYL Gene



Protein tissue co-expression partners for CDYL Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of CDYL Gene:

CDYL

SOURCE GeneReport for Unigene cluster for CDYL Gene:

Hs.269092

mRNA Expression by UniProt/SwissProt for CDYL Gene:

Q9Y232-CDYL1_HUMAN
Tissue specificity: Ubiquitous. Expressed at moderate levels in all tissues examined. Isoform 2 is the most abundantly expressed isoform.
genes like me logo Genes that share expression patterns with CDYL: view

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 CDYL Gene

Orthologs for CDYL Gene

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

Orthologs for CDYL Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia CDYL 34 35
  • 99.57 (n)
dog
(Canis familiaris)
Mammalia -- 35
  • 93 (a)
OneToMany
CDYL 34
  • 90.42 (n)
oppossum
(Monodelphis domestica)
Mammalia -- 35
  • 90 (a)
OneToMany
platypus
(Ornithorhynchus anatinus)
Mammalia -- 35
  • 89 (a)
OneToMany
mouse
(Mus musculus)
Mammalia Cdyl 34 16 35
  • 86.47 (n)
rat
(Rattus norvegicus)
Mammalia Cdyl 34
  • 86.39 (n)
cow
(Bos Taurus)
Mammalia CDYL 34 35
  • 82.54 (n)
chicken
(Gallus gallus)
Aves -- 35
  • 89 (a)
OneToMany
CDYL 34
  • 80.21 (n)
lizard
(Anolis carolinensis)
Reptilia -- 35
  • 87 (a)
OneToMany
tropical clawed frog
(Silurana tropicalis)
Amphibia cdyl 34
  • 72.58 (n)
zebrafish
(Danio rerio)
Actinopterygii cdyl 34 35
  • 66.67 (n)
fruit fly
(Drosophila melanogaster)
Insecta CG3680 35
  • 12 (a)
OneToMany
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes DCI1 35
  • 24 (a)
ManyToMany
ECI1 35 37
  • 21 (a)
ManyToMany
sea squirt
(Ciona savignyi)
Ascidiacea CSA.2946 35
  • 28 (a)
OneToMany
Species where no ortholog for CDYL 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)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rainbow trout (Oncorhynchus mykiss)
  • 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)
  • wheat (Triticum aestivum)
  • worm (Caenorhabditis elegans)

Evolution for CDYL Gene

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

Paralogs for CDYL Gene

Variants for CDYL Gene

Sequence variations from dbSNP and Humsavar for CDYL Gene

SNP ID Clin Chr 06 pos Sequence Context AA Info Type
rs10046230 -- 4,709,707(+) TTAAG(C/T)CAGCT intron-variant
rs10080391 -- 4,912,207(+) CGTGG(C/T)CCTTT intron-variant
rs1016877 -- 4,819,771(-) tggct(A/G)tgacc intron-variant
rs1016878 -- 4,819,742(-) acatt(A/G)ccaaa intron-variant
rs1022497 -- 4,818,390(-) TCAAA(A/G)GGCTT intron-variant

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

Variant ID Type Subtype PubMed ID
dgv3259n106 CNV deletion 24896259
esv23619 CNV gain 19812545
esv2422499 CNV duplication 17116639
esv2663092 CNV deletion 23128226
esv2731510 CNV deletion 23290073
esv3570736 CNV loss 25503493
esv3570737 CNV loss 25503493
esv3607953 CNV loss 21293372
esv3607955 CNV loss 21293372
esv3607956 CNV loss 21293372
esv3607957 CNV loss 21293372
esv3607959 CNV loss 21293372
esv3607960 CNV loss 21293372
esv3890784 CNV loss 25118596
nsv1015888 CNV loss 25217958
nsv1074369 CNV deletion 25765185
nsv1074370 CNV deletion 25765185
nsv1124023 CNV deletion 24896259
nsv1126745 CNV deletion 24896259
nsv1137056 CNV deletion 24896259
nsv462622 CNV gain 19166990
nsv528627 CNV gain 19592680
nsv600871 CNV gain 21841781
nsv819186 CNV gain 19587683
nsv830577 CNV loss 17160897
nsv950764 CNV deletion 24416366
nsv970071 CNV duplication 23825009

Variation tolerance for CDYL Gene

Residual Variation Intolerance Score: 12.6% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 1.69; 32.25% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for CDYL Gene

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

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

Disorders for CDYL Gene

Relevant External Links for CDYL

Genetic Association Database (GAD)
CDYL
Human Genome Epidemiology (HuGE) Navigator
CDYL
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
CDYL

No disorders were found for CDYL Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for CDYL Gene

Publications for CDYL 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 22 64
  2. Genome-wide association study of smoking behaviours in patients with COPD. (PMID: 21685187) Siedlinski M. … . (Thorax 2011) 3 46 64
  3. Corepressor protein CDYL functions as a molecular bridge between polycomb repressor complex 2 and repressive chromatin mark trimethylated histone lysine 27. (PMID: 22009739) Zhang Y. … Liang J. (J. Biol. Chem. 2011) 3 4 64
  4. The variant rs1867277 in FOXE1 gene confers thyroid cancer susceptibility through the recruitment of USF1/USF2 transcription factors. (PMID: 19730683) Landa I. … Robledo M. (PLoS Genet. 2009) 3 46 64
  5. Multimerization and H3K9me3 binding are required for CDYL1b heterochromatin association. (PMID: 19808672) Franz H. … Fischle W. (J. Biol. Chem. 2009) 3 4 64

Products for CDYL Gene

Sources for CDYL Gene

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