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

    Gene ID: 124359, updated on 9-Dec-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 DNA-templated transcription. Predicted to be active in nucleus. [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Broad expression in testis (RPKM 6.1), placenta (RPKM 3.9) and 20 other tissues See more
    Orthologs
    mouse all
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    Genomic context

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    See CDYL2 in Genome Data Viewer
    Location:
    16q23.2
    Exon count:
    10
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 16 NC_000016.10 (80597907..80805037, complement)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 16 NC_060940.1 (86659589..86866895, complement)
    RS_2024_09 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. 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
    4. 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, Free PMC Article
    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)

    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_2024_08

    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

      UniProtKB/TrEMBL
      A0A0B4J291

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

      UniProtKB/TrEMBL
      A0A0B4J291

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

      UniProtKB/TrEMBL
      A0A0B4J291
    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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