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CDYL2 chromodomain Y like 2 [ Homo sapiens (human) ]

Gene ID: 124359, updated on 3-Apr-2024

Summary

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Official Symbol
CDYL2provided by HGNC
Official Full Name
chromodomain Y like 2provided by HGNC
Primary source
HGNC:HGNC:23030
See related
Ensembl:ENSG00000166446 MIM:618816; AllianceGenome:HGNC:23030
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
PCCP1
Summary
Predicted to enable transcription corepressor activity. Predicted to be involved in negative regulation of transcription, DNA-templated. Predicted to be active in nucleus. [provided by Alliance of Genome Resources, Apr 2022]
Expression
Broad expression in testis (RPKM 6.1), placenta (RPKM 3.9) and 20 other tissues See more
Orthologs
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Genomic context

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Location:
16q23.2
Exon count:
10
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 16 NC_000016.10 (80597907..80805037, complement)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 16 NC_060940.1 (86659589..86866895, complement)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 16 NC_000016.9 (80631804..80838495, complement)

Chromosome 16 - NC_000016.10Genomic Context describing neighboring genes Neighboring gene DYNLRB2 antisense RNA 1 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 11167 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 11168 Neighboring gene dynein light chain roadblock-type 2 Neighboring gene long intergenic non-protein coding RNA 1227 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr16:80641586-80642086 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr16:80642087-80642587 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 11169 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 11170 Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr16:80700312-80701272 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 11171 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr16:80761323-80761823 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr16:80760822-80761322 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 7743 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 7744 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 7745 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 7746 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 7747 Neighboring gene androgen receptor regulated long noncoding RNA 1 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 11172 Neighboring gene Sharpr-MPRA regulatory region 7727 Neighboring gene NANOG hESC enhancer GRCh37_chr16:81032399-81032965 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 11173 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 7748 Neighboring gene C-X9-C motif containing 2

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: HPA RNA-seq normal tissues
  • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
  • BioProject: PRJEB4337
  • Publication: PMID 24309898
  • Analysis date: Wed Apr 4 07:08:55 2018

Bibliography

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Related articles in PubMed

  1. circCDYL2 promotes trastuzumab resistance via sustaining HER2 downstream signaling in breast cancer. Ling Y, et al. Mol Cancer, 2022 Jan 3. PMID 34980129, Free PMC Article
  2. Discrete functional and mechanistic roles of chromodomain Y-like 2 (CDYL2) transcript variants in breast cancer growth and metastasis. Yang LF, et al. Theranostics, 2020. PMID 32373210, Free PMC Article
  3. Chromodomain on Y-like 2 (CDYL2) implicated in mitosis and genome stability regulation via interaction with CHAMP1 and POGZ. Siouda M, et al. Cell Mol Life Sci, 2023 Jan 20. PMID 36658409
  4. STAT5A modulates CDYL2/SLC7A6 pathway to inhibit the proliferation and invasion of hepatocellular carcinoma by targeting to mTORC1. Chen X, et al. Oncogene, 2022 Apr. PMID 35314791
  5. The CDY-related gene family: coordinated evolution in copy number, expression profile and protein sequence. Dorus S, et al. Hum Mol Genet, 2003 Jul 15. PMID 12837688

See all (28) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. Chromodomain on Y-like 2 (CDYL2) implicated in mitosis and genome stability regulation via interaction with CHAMP1 and POGZ.
    Title: Chromodomain on Y-like 2 (CDYL2) implicated in mitosis and genome stability regulation via interaction with CHAMP1 and POGZ.
  2. STAT5A modulates CDYL2/SLC7A6 pathway to inhibit the proliferation and invasion of hepatocellular carcinoma by targeting to mTORC1.
    Title: STAT5A modulates CDYL2/SLC7A6 pathway to inhibit the proliferation and invasion of hepatocellular carcinoma by targeting to mTORC1.
  3. circCDYL2 promotes trastuzumab resistance via sustaining HER2 downstream signaling in breast cancer.
    Title: circCDYL2 promotes trastuzumab resistance via sustaining HER2 downstream signaling in breast cancer.
  4. Discrete functional and mechanistic roles of chromodomain Y-like 2 (CDYL2) transcript variants in breast cancer growth and metastasis.
    Title: Discrete functional and mechanistic roles of chromodomain Y-like 2 (CDYL2) transcript variants in breast cancer growth and metastasis.
  5. Clinical trial of gene-disease association and gene-environment interaction. (HuGE Navigator)
    Title: Personalized smoking cessation: interactions between nicotine dose, dependence and quit-success genotype score.
  6. Observational study of gene-disease association. (HuGE Navigator)
    Title: Association of genetic variants with hemorrhagic stroke in Japanese individuals.
Submit: New GeneRIF Correction

Phenotypes

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Find tests for this gene in the NIH Genetic Testing Registry (GTR)

Review eQTL and phenotype association data in this region using PheGenI

EBI GWAS Catalog

Description
Genome-wide association study of smoking behaviours among Bangladeshi adults.
EBI GWAS Catalog
Large-scale genotyping identifies 41 new loci associated with breast cancer risk.
EBI GWAS Catalog

Variation

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See variants in ClinVar

See studies and variants in dbVar

See Variation Viewer (GRCh37.p13)

See Variation Viewer (GRCh38)

Genotypes

Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Markers

Homology

Clone Names

  • FLJ38866

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables methylated histone binding IEA
Inferred from Electronic Annotation
more info
  
enables protein binding IPI
Inferred from Physical Interaction
more info
 PubMed 
enables transcription corepressor activity IBA
Inferred from Biological aspect of Ancestor
more info
  
Process Evidence Code Pubs
involved_in negative regulation of DNA-templated transcription IEA
Inferred from Electronic Annotation
more info
  
Component Evidence Code Pubs
is_active_in nucleus IBA
Inferred from Biological aspect of Ancestor
more info
  

General protein information

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Preferred Names
chromodomain Y-like protein 2
Names
CDY-like 2
chromodomain protein, Y-like 2
prostate cancer candidate protein 1, PCCP1

NCBI Reference Sequences (RefSeq)

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RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

  1. NM_152342.4 → NP_689555.2  chromodomain Y-like protein 2

    See identical proteins and their annotated locations for NP_689555.2

    Status: VALIDATED

    Source sequence(s)
    AC009070, AC092332, AK096185, AW297969, BC100803, BX390259
    Consensus CDS
    CCDS32493.1
    UniProtKB/Swiss-Prot
    Q7Z5I8, Q8N8U2
    UniProtKB/TrEMBL
    A0A0B4J291
    Related
    ENSP00000476295.1, ENST00000570137.7
    Conserved Domains (2) summary
    cd06558
    Location:252 → 448
    crotonase-like; Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase. ...
    smart00298
    Location:7 → 55
    CHROMO; Chromatin organization modifier domain

RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2023_10

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCh38.p14 Primary Assembly

Genomic

  1. NC_000016.10 Reference GRCh38.p14 Primary Assembly

    Range
    80597907..80805037 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_011522866.2 → XP_011521168.1  chromodomain Y-like protein 2 isoform X1

    UniProtKB/TrEMBL
    A0A0B4J291
    Conserved Domains (2) summary
    cd06558
    Location:286 → 482
    crotonase-like; Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase. ...
    smart00298
    Location:40 → 89
    CHROMO; Chromatin organization modifier domain

  2. XM_011522867.3 → XP_011521169.1  chromodomain Y-like protein 2 isoform X2

    UniProtKB/TrEMBL
    A0A0B4J291
    Conserved Domains (2) summary
    cd06558
    Location:249 → 445
    crotonase-like; Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase. ...
    smart00298
    Location:6 → 52
    CHROMO; Chromatin organization modifier domain

  3. XM_024450151.2 → XP_024305919.1  chromodomain Y-like protein 2 isoform X3

    UniProtKB/TrEMBL
    A0A0B4J291
    Conserved Domains (1) summary
    cd06558
    Location:193 → 389
    crotonase-like; Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase. ...

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060940.1 Alternate T2T-CHM13v2.0

    Range
    86659589..86866895 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_054379596.1 → XP_054235571.1  chromodomain Y-like protein 2 isoform X1

  2. XM_054379597.1 → XP_054235572.1  chromodomain Y-like protein 2 isoform X2

  3. XM_054379598.1 → XP_054235573.1  chromodomain Y-like protein 2 isoform X3

Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q8N8U2.2 GenPept UniProtKB/Swiss-Prot:Q8N8U2

Gene LinkOut

The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

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