CDYL2 Gene (Protein Coding)

Chromodomain Y Like 2

GC16M080598
GIFtS:
36
See more...

Aliases for CDYL2 Gene

Aliases for CDYL2 Gene

  • Chromodomain Y Like 2 2 3 5
  • Chromodomain Y-Like Protein 2 2 3 4
  • CDY-Like 2 3 4
  • Prostate Cancer Candidate Protein 1, PCCP1 3
  • Chromodomain Protein, Y-Like 2 3
  • FLJ38866 2
  • PCCP1 3
  • CDYL2 5

External Ids for CDYL2 Gene

Previous GeneCards Identifiers for CDYL2 Gene

  • GC16M080376
  • GC16M080417
  • GC16M079195
  • GC16M080637
  • GC16M066394

Summaries for CDYL2 Gene

GeneCards Summary for CDYL2 Gene

CDYL2 (Chromodomain Y Like 2) is a Protein Coding gene. Gene Ontology (GO) annotations related to this gene include methylated histone binding. An important paralog of this gene is CDYL.

Additional gene information for CDYL2 Gene

No data available for Entrez Gene Summary , CIViC Summary , UniProtKB/Swiss-Prot Summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , Rfam classification and piRNA Summary for CDYL2 Gene

Genomics for CDYL2 Gene

GeneHancer (GH) Regulatory Elements Pubs

Download GeneHancer 2017 data
Promoters and enhancers for CDYL2 Gene
GeneHancer (GH) Identifier GH Type GH
Score		 GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites		 Gene Targets
GH16J080803 Promoter/Enhancer 2.2 EPDnew FANTOM5 Ensembl ENCODE CraniofacialAtlas 279.1 -2.1 -2057 8.6 CTCF ZIC2 CEBPB EP300 ZNF341 CTBP1 SIN3A SMC3 TBP KLF16 CDYL2 GCSH CENPN CMC2 ATMIN piR-38351-206 HSALNG0112951
GH16J080744 Enhancer 0.5 Ensembl 22 +60.0 60042 0.8 PKNOX1 MTA3 ATF3 EED RUNX3 CDYL2 ENSG00000260594 HSALNG0112951 DYNLRB2
GH16J080526 Enhancer 0.9 Ensembl ENCODE 11.1 +278.0 277956 1.4 CTCF REST TRIM22 MAFF SMC3 RAD21 ZNF316 SPI1 NFE2 ZNF2 CDYL2 DYNLRB2 DYNLRB2-AS1 ENSG00000259867 tRX-Ala-NNN-4-1 MAF
GH16J080718 Enhancer 1 Ensembl ENCODE 8.4 +85.2 85242 4 ZNF217 SIX4 ELF1 CEBPB MBD2 MAX CTBP1 SIN3A RFX5 CBFB CDYL2 piR-46002-239 lnc-CMC2-4 lnc-CMC2-5 DYNLRB2
GH16J080899 Enhancer 0.8 ENCODE dbSUPER 8.8 -95.4 -95412 1.3 RXRA FOXA2 JUND FOXA1 NFYC RAD21 MAX SP1 HNF4A ZFP69B CDYL2 ARLNC1 HSALNG0112955 CENPN ENSG00000286221
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around CDYL2 on the GeneHancer Hub at the UCSC Golden Path

Cistromic (ChIP-Seq) regulation report from SPP (The Signaling Pathways Project) for CDYL2

Top Transcription factor binding sites by QIAGEN in the CDYL2 gene promoter:
  • Lmo2
  • Oct-B1
  • oct-B2
  • oct-B3
  • Pax-4a
  • POU2F1
  • POU2F1a
  • POU3F2
  • POU3F2 (N-Oct-5a)
  • POU3F2 (N-Oct-5b)

Genomic Locations for CDYL2 Gene

Latest Assembly
chr16:80,597,899-80,805,043
(GRCh38/hg38)
Size:
207,145 bases
Orientation:
Minus strand

Previous Assembly
chr16:80,631,804-80,838,495
(GRCh37/hg19 by Entrez Gene)
Size:
206,692 bases
Orientation:
Minus strand

chr16:80,631,803-80,838,226
(GRCh37/hg19 by Ensembl)
Size:
206,424 bases
Orientation:
Minus strand

Genomic View for CDYL2 Gene

Genes around CDYL2 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
CDYL2 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for CDYL2 Gene
GeneLoc Logo Genomic Neighborhood • Exon Structure • Gene Density

RefSeq DNA sequence for CDYL2 Gene

Proteins for CDYL2 Gene

Products:

  1. Antibodies for research
  2. Protein products for research
  3. Assay products for research

  • Protein details for CDYL2 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q8N8U2-CDYL2_HUMAN
    Recommended name:
    Chromodomain Y-like protein 2
    Protein Accession:
    Q8N8U2
    Secondary Accessions:
    • Q7Z5I8

    Protein attributes for CDYL2 Gene

    Size:
    506 amino acids
    Molecular mass:
    56500 Da
    Quaternary structure:
    • Interacts (via chromo domain) with histone H3K9me3.

    Three dimensional structures from OCA and Proteopedia for CDYL2 Gene

neXtProt entry for CDYL2 Gene

Protein Expression for CDYL2 Gene

See protein expression from ProteomicsDB, MOPED, PaxDb, and MaxQB

Post-translational modifications for CDYL2 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for CDYL2 Gene

ENSEMBL proteins:
REFSEQ proteins:

Antibodies for research

  • Abcam antibodies for CDYL2

No data available for DME Specific Peptides for CDYL2 Gene

Domains & Families for CDYL2 Gene

Gene Families for CDYL2 Gene

Human Protein Atlas (HPA):
  • Predicted intracellular proteins

Protein Domains for CDYL2 Gene

InterPro:
Blocks:
  • Chromo domain
ProtoNet:

Suggested Antigen Peptide Sequences for CDYL2 Gene

GenScript: Design optimal peptide antigens:
  • Chromodomain Y-like protein 2 (CDYL2_HUMAN)
genes like me logo Genes that share domains with CDYL2: view

No data available for Graphical View of Domain Structure and UniProtKB/Swiss-Prot for CDYL2 Gene

Function for CDYL2 Gene

Products:

  1. Animal Models for research
  2. CRISPR products for research
  3. miRNA products for research
  4. Inhibitory RNAs for research
  5. Clone products for research
  6. Cell Lines for research

Phenotypes From GWAS Catalog for CDYL2 Gene

Gene Ontology (GO) - Molecular Function for CDYL2 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003714 transcription corepressor activity IBA 21873635
GO:0003824 catalytic activity IEA --
GO:0005515 protein binding IPI 17577209
GO:0035064 methylated histone binding IEA --
genes like me logo Genes that share ontologies with CDYL2: view
genes like me logo Genes that share phenotypes with CDYL2: view

Animal Models for research

  • Taconic Biosciences Mouse Models for CDYL2

miRNA for CDYL2 Gene

miRTarBase miRNAs that target CDYL2

Inhibitory RNAs for research

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for CDYL2

No data available for Molecular function , Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for CDYL2 Gene

Localization for CDYL2 Gene

Subcellular locations from UniProtKB/Swiss-Prot for CDYL2 Gene

Nucleus.

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 CDYL2 gene
Compartment Confidence
nucleus 5
cytosol 2
plasma membrane 1
extracellular 1

Gene Ontology (GO) - Cellular Components for CDYL2 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus IEA,IBA 21873635
genes like me logo Genes that share ontologies with CDYL2: view

No data available for Subcellular locations from the Human Protein Atlas (HPA) for CDYL2 Gene

Pathways & Interactions for CDYL2 Gene

PathCards logo

SuperPathways for CDYL2 Gene

No Data Available

Gene Ontology (GO) - Biological Process for CDYL2 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0045892 negative regulation of transcription, DNA-templated IEA --
genes like me logo Genes that share ontologies with CDYL2: view

No data available for Pathways by source and SIGNOR curated interactions for CDYL2 Gene

Drugs & Compounds for CDYL2 Gene

Products:

  1. Drug products for research
No Compound Related Data Available

Transcripts for CDYL2 Gene

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  1. CRISPR products for research
  2. miRNA products for research
  3. Inhibitory RNAs for research
  4. Clone products for research

mRNA/cDNA for CDYL2 Gene

1 REFSEQ mRNAs :
12 NCBI additional mRNA sequence :
7 Ensembl transcripts including schematic representations, and UCSC links to gene/alias where relevant :

Inhibitory RNAs for research

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for CDYL2

Alternative Splicing Database (ASD) splice patterns (SP) for CDYL2 Gene

No ASD Table

Relevant External Links for CDYL2 Gene

GeneLoc Exon Structure for
CDYL2

Expression for CDYL2 Gene

Products:

  1. Primer products for research
  2. Gene Expression Assays for research

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for CDYL2 Gene

mRNA expression in normal human tissues for CDYL2 Gene
mRNA expression by BioGPS for CDYL2 GenemRNA expression by GTEx for CDYL2 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for CDYL2 Gene

This gene is overexpressed in Brain - Cerebellar Hemisphere (x5.3).

Protein differential expression in normal tissues from HIPED for CDYL2 Gene

This gene is overexpressed in Placenta (69.0).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, MaxQB, and MOPED for CDYL2 Gene



Protein tissue co-expression partners for CDYL2 Gene

Transcriptomic regulation report from SPP (The Signaling Pathways Project) for CDYL2

SOURCE GeneReport for Unigene cluster for CDYL2 Gene:

Hs.373908

mRNA Expression by UniProt/SwissProt for CDYL2 Gene:

Q8N8U2-CDYL2_HUMAN
Tissue specificity: Ubiquitously expressed.
genes like me logo Genes that share expression patterns with CDYL2: view

Primer products for research

No data available for Evidence on tissue expression from TISSUES and Phenotype-based relationships between genes and organs from Gene ORGANizer for CDYL2 Gene

Orthologs for CDYL2 Gene

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

Orthologs for CDYL2 Gene

Organism Taxonomy Gene Similarity Type Details
Chimpanzee
(Pan troglodytes)
 Mammalia CDYL2 30 31
  • 99.03 (n)
 OneToOne
Dog
(Canis familiaris)
 Mammalia CDYL2 30 31
  • 90.68 (n)
 OneToOne
Cow
(Bos Taurus)
 Mammalia CDYL2 30 31
  • 88.32 (n)
 OneToOne
Rat
(Rattus norvegicus)
 Mammalia Cdyl2 30
  • 87.31 (n)
Oppossum
(Monodelphis domestica)
 Mammalia CDYL2 31
  • 87 (a)
 OneToOne
Mouse
(Mus musculus)
 Mammalia Cdyl2 30 17 31
  • 85.75 (n)
 OneToOne
Chicken
(Gallus gallus)
 Aves CDYL2 30 31
  • 74.22 (n)
 OneToOne
Lizard
(Anolis carolinensis)
 Reptilia CDYL2 31
  • 86 (a)
 OneToOne
Tropical Clawed Frog
(Silurana tropicalis)
 Amphibia cdyl2 30
  • 71.49 (n)
Fruit Fly
(Drosophila melanogaster)
 Insecta CG3680 31
  • 11 (a)
 OneToMany
Baker's yeast
(Saccharomyces cerevisiae)
 Saccharomycetes DCI1 31
  • 24 (a)
 ManyToMany
ECI1 31
  • 21 (a)
 ManyToMany
Sea Squirt
(Ciona savignyi)
 Ascidiacea CSA.2946 31
  • 26 (a)
 OneToMany
Species where no ortholog for CDYL2 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Eremothecium 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)
  • Platypus (Ornithorhynchus anatinus)
  • Rainbow Trout (Oncorhynchus mykiss)
  • Rice (Oryza sativa)
  • Rice Blast Fungus (Magnaporthe grisea)
  • Schistosome Parasite (Schistosoma mansoni)
  • Sea Anemone (Nematostella vectensis)
  • Sea Vase (Ciona intestinalis)
  • 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)
  • Zebrafish (Danio rerio)

Evolution for CDYL2 Gene

ENSEMBL:
Gene Tree for CDYL2 (if available)
TreeFam:
Gene Tree for CDYL2 (if available)
Aminode:
Evolutionary constrained regions (ECRs) for CDYL2: view image

Paralogs for CDYL2 Gene

Paralogs for CDYL2 Gene

(8) SIMAP similar genes for CDYL2 Gene using alignment to 2 proteins:

  • CDYL2_HUMAN
  • H3BS17_HUMAN
genes like me logo Genes that share paralogs with CDYL2: view

Variants for CDYL2 Gene

Products:

  1. SNP Genotyping and Copy Number Assays for research

Sequence variations, with clinical significance, from ClinVar and Humsavar, with links to dbSNP for CDYL2 Gene

SNP ID Clinical significance and condition Chr 16 pos Variation AA Info Type
rs115679401 Benign: not provided 80,612,779(-) C/A
NM_152342.4(CDYL2):c.1065G>T (p.Gly355=) 		SYNONYMOUS
rs148307202 Benign: not provided 80,633,070(-) C/T
NM_152342.4(CDYL2):c.783G>A (p.Thr261=) 		SYNONYMOUS

dbSNP identifiers (rs#s) for variants without ClinVar clinical significance for CDYL2 Gene

All consequence types are included: molecular consequences (e.g. missense, synonymous), and location-based (e.g. intron, upstream).

Structural Variations from Database of Genomic Variants (DGV) for CDYL2 Gene

Variant ID Type Subtype PubMed ID
dgv3043n100 CNV gain 25217958
dgv3044n100 CNV loss 25217958
dgv542e214 CNV gain 21293372
esv2618788 CNV insertion 19546169
esv2636902 OTHER inversion 19546169
esv26401 CNV loss 19812545
esv2673789 CNV deletion 23128226
esv2675473 CNV deletion 23128226
esv275156 CNV loss 21479260
esv27892 CNV gain 19812545
esv3309648 CNV mobile element insertion 20981092
esv33408 CNV loss 17666407
esv3368462 CNV insertion 20981092
esv3582379 CNV loss 25503493
esv3582380 CNV loss 25503493
esv3639277 CNV gain 21293372
esv3639279 CNV gain 21293372
esv3639281 CNV loss 21293372
esv3639283 CNV loss 21293372
nsv1058764 CNV loss 25217958
nsv1109024 CNV deletion 24896259
nsv1136218 CNV deletion 24896259
nsv457560 CNV loss 19166990
nsv478307 CNV novel sequence insertion 20440878
nsv521339 CNV loss 19592680
nsv523459 CNV loss 19592680
nsv525885 CNV loss 19592680
nsv573301 CNV loss 21841781
nsv573302 CNV loss 21841781
nsv833301 CNV loss 17160897

Variation tolerance for CDYL2 Gene

Residual Variation Intolerance Score: 9.26% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 1.35; 26.74% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for CDYL2 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
CDYL2

SNP Genotyping and Copy Number Assays for research

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for CDYL2 Gene

Disorders for CDYL2 Gene

Additional Disease Information for CDYL2

Genetic Association Database
(GAD)
Human Genome Epidemiology Navigator
(HuGE)
Atlas
ATLAS of Genetics and Cytogenetics in Oncology and Haematology
Open Targets Platform
Open Targets Platform

No disorders were found for CDYL2 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for CDYL2 Gene

Publications for CDYL2 Gene

  1. The CDY-related gene family: coordinated evolution in copy number, expression profile and protein sequence. (PMID: 12837688) Dorus S … Lahn BT (Human molecular genetics 2003) 2 3 4
  2. Fine mapping and association studies of a high-density lipoprotein cholesterol linkage region on chromosome 16 in French-Canadian subjects. (PMID: 19844255) Dastani Z … Genest J (European journal of human genetics : EJHG 2010) 3 41
  3. Personalized smoking cessation: interactions between nicotine dose, dependence and quit-success genotype score. (PMID: 20379614) Rose JE … Uhl GR (Molecular medicine (Cambridge, Mass.) 2010) 3 41
  4. Assessment of a polymorphism of SDK1 with hypertension in Japanese Individuals. (PMID: 19851296) Oguri M … Yamada Y (American journal of hypertension 2010) 3 41
  5. Association of genetic variants with hemorrhagic stroke in Japanese individuals. (PMID: 20198315) Yoshida T … Yamada Y (International journal of molecular medicine 2010) 3 41

ExternalLinks

View latest publications for CDYL2 gene in Mastermind

Products for CDYL2 Gene

  • Addgene plasmids for CDYL2

Sources for CDYL2 Gene