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    CCNY cyclin Y [ Homo sapiens (human) ]

    Gene ID: 219771, updated on 27-Nov-2024

    Summary

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    Official Symbol
    CCNYprovided by HGNC
    Official Full Name
    cyclin Yprovided by HGNC
    Primary source
    HGNC:HGNC:23354
    See related
    Ensembl:ENSG00000108100 MIM:612786; AllianceGenome:HGNC:23354
    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
    CCNX; CFP1; CBCP1; C10orf9
    Summary
    Cyclins, such as CCNY, control cell division cycles and regulate cyclin-dependent kinases (e.g., CDC2; MIM 116940) (Li et al., 2009 [PubMed 18060517]).[supplied by OMIM, May 2009]
    Expression
    Ubiquitous expression in testis (RPKM 35.4), brain (RPKM 17.2) and 25 other tissues See more
    Orthologs
    mouse all
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    Genomic context

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    See CCNY in Genome Data Viewer
    Location:
    10p11.21
    Exon count:
    14
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 10 NC_000010.11 (35247025..35572667)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 10 NC_060934.1 (35275620..35601106)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 10 NC_000010.10 (35535953..35861595)

    Chromosome 10 - NC_000010.11Genomic Context describing neighboring genes Neighboring gene ATPase H+ transporting V1 subunit G1 pseudogene 4 Neighboring gene cAMP responsive element modulator Neighboring gene NANOG-H3K27ac hESC enhancer GRCh37_chr10:35500215-35500774 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr10:35503415-35503916 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 2302 Neighboring gene H3K27ac hESC enhancer GRCh37_chr10:35517588-35518088 Neighboring gene long intergenic non-protein coding RNA 2634 Neighboring gene ReSE screen-validated silencer GRCh37_chr10:35536556-35536734 Neighboring gene RNA, U6 small nuclear 794, pseudogene Neighboring gene RNA, U6 small nuclear 1167, pseudogene Neighboring gene uncharacterized LOC107984220 Neighboring gene P300/CBP strongly-dependent group 1 enhancer GRCh37_chr10:35588522-35589721 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 2304 Neighboring gene Sharpr-MPRA regulatory region 12265 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 2305 Neighboring gene CCNY antisense RNA 1 Neighboring gene Sharpr-MPRA regulatory region 1021 Neighboring gene Sharpr-MPRA regulatory region 675 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 2306 Neighboring gene uncharacterized LOC124902410 Neighboring gene NANOG-H3K27ac hESC enhancer GRCh37_chr10:35736957-35737627 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 2307 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr10:35751098-35751642 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr10:35751643-35752185 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr10:35752610-35753110 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 3264 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 3265 Neighboring gene H3K27ac hESC enhancer GRCh37_chr10:35806773-35807273 Neighboring gene H3K27ac hESC enhancer GRCh37_chr10:35806272-35806772 Neighboring gene CDK7 strongly-dependent group 2 enhancer GRCh37_chr10:35819404-35820603 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 3266 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 3267 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 3268 Neighboring gene uncharacterized LOC107984221 Neighboring gene OCT4-NANOG-H3K27ac hESC enhancer GRCh37_chr10:35883203-35883845 Neighboring gene ReSE screen-validated silencer GRCh37_chr10:35889926-35890176 Neighboring gene gap junction protein delta 4

    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. The role of cyclin Y in normal and pathological cells. Opacka A, et al. Cell Cycle, 2023 Apr. PMID 36576166, Free PMC Article
    2. Lentivirus-mediated knockdown of cyclin Y (CCNY) inhibits glioma cell proliferation. Xu Y, et al. Oncol Res, 2010. PMID 20441050
    3. Cell cycle protein cyclin Y is associated with human non-small-cell lung cancer proliferation and tumorigenesis. Yue W, et al. Clin Lung Cancer, 2011 Jan. PMID 21273179
    4. Orphan kinases turn eccentric: a new class of cyclin Y-activated, membrane-targeted CDKs. Mikolcevic P, et al. Cell Cycle, 2012 Oct 15. PMID 22895054, Free PMC Article
    5. Cyclin Y is expressed in Platelets and Modulates Integrin Outside-in Signaling. Kyselova A, et al. Int J Mol Sci, 2020 Nov 3. PMID 33153214, Free PMC Article

    See all (65) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. The role of cyclin Y in normal and pathological cells.
      Title: The role of cyclin Y in normal and pathological cells.
    2. Cyclin Y binds and activates CDK4 to promote the G1/S phase transition in hepatocellular carcinoma cells via Rb signaling.
      Title: Cyclin Y binds and activates CDK4 to promote the G1/S phase transition in hepatocellular carcinoma cells via Rb signaling.
    3. Cyclin Y is expressed in Platelets and Modulates Integrin Outside-in Signaling.
      Title: Cyclin Y is expressed in Platelets and Modulates Integrin Outside-in Signaling.
    4. Fisetin inhibits TET1 expression and reduces 5hmC modification in specific loci in the promoters of CCNY/CDK16 in HuRSCs.
      Title: Fisetin decreases TET1 activity and CCNY/CDK16 promoter 5hmC levels to inhibit the proliferation and invasion of renal cancer stem cell.
    5. Cyclin Y and CDK16 complex is necessary for efficient AMPK-dependent activation of autophagy.This functional interaction is mediated by AMPK phosphorylating Serine 326 of Cyclin Y.
      Title: AMPK-dependent activation of the Cyclin Y/CDK16 complex controls autophagy.
    6. increased expression of CCNY was significantly associated with cell proliferation and migration.
      Title: Cyclin Y Modulates the Proliferation, Invasion, and Metastasis of Hepatocellular Carcinoma Cells.
    7. Amplification of gene CCNY is associated with metastatic lung adenocarcinoma.
      Title: The genomic dynamics during progression of lung adenocarcinomas.
    8. findings revealed an unrecognized role of Caprin-2 in facilitating LRP5/6 constitutive phosphorylation at G2/M through forming a quaternary complex with CDK14, Cyclin Y, and LRP5/6.
      Title: Activation/Proliferation-associated Protein 2 (Caprin-2) Positively Regulates CDK14/Cyclin Y-mediated Lipoprotein Receptor-related Protein 5 and 6 (LRP5/6) Constitutive Phosphorylation.
    9. we believe that CCNY has biological effect in breast cancer (BC) development, and its inhibition via an RNA interference lentiviral system may provide a therapeutic option for BC
      Title: RNAi-mediated downregulation of cyclin Y to attenuate human breast cancer cell growth.
    10. CCNY was significantly upregulated in ovarian cancer cell lines and tissues. Significant association was observed between CCNY expression and clinicopathological stage and lymph node metastasis. It significantly exacerbated proliferation, migration, and invasion of A2780 cells, in vitro and in nude mice. It significantly increased c-Myc, cyclin D1, PFTK1, ki67, and OGT protein expressions in xenograft tumor tissues.
      Title: Cyclin Y regulates the proliferation, migration, and invasion of ovarian cancer cells via Wnt signaling pathway.
    Submit: New GeneRIF Correction See all GeneRIFs (20)

    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 meta-analysis increases to 71 the number of confirmed Crohn's disease susceptibility loci.
    EBI GWAS Catalog
    Meta-analysis identifies 29 additional ulcerative colitis risk loci, increasing the number of confirmed associations to 47.
    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

    • FLJ95513

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables cyclin-dependent protein serine/threonine kinase regulator activity IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    enables protein kinase binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    involved_in G2/M transition of mitotic cell cycle IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in Wnt signaling pathway IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in cell division IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in positive regulation of autophagy IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in positive regulation of cyclin-dependent protein serine/threonine kinase activity IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in regulation of canonical Wnt signaling pathway IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in regulation of canonical Wnt signaling pathway IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in spermatogenesis NAS
    Non-traceable Author Statement
    more info
    		 PubMed 
    Component Evidence Code Pubs
    part_of cyclin-dependent protein kinase holoenzyme complex IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    part_of cytoplasmic cyclin-dependent protein kinase holoenzyme complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    part_of cytoplasmic cyclin-dependent protein kinase holoenzyme complex IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in nucleolus IDA
    Inferred from Direct Assay
    more info
    		  
    located_in nucleoplasm IDA
    Inferred from Direct Assay
    more info
    		  
    located_in nucleus IDA
    Inferred from Direct Assay
    more info
    		  
    is_active_in plasma membrane IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in plasma membrane IDA
    Inferred from Direct Assay
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    cyclin-Y
    Names
    cyc-Y
    cyclin box protein 1
    cyclin fold protein 1
    cyclin-X
    cyclin-box carrying protein 1

    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_001282852.2 → NP_001269781.1  cyclin-Y isoform 3

      See identical proteins and their annotated locations for NP_001269781.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (3) lacks an alternate in-frame exon in the 5' coding region, compared to variant 1. This results in a shorter protein (isoform 3), compared to isoform 1.
      Source sequence(s)
      AA476431, AF413522, AF465728, AL117336, AL121749, BC094815
      Consensus CDS
      CCDS60513.1
      UniProtKB/TrEMBL
      B2RBH6
      Related
      ENSP00000344275.5, ENST00000339497.7
      Conserved Domains (1) summary
      cd20540
      Location:141 → 237
      CYCLIN_CCNY_like; cyclin box found in cyclin-Y (CCNY) family

    2. NM_001282853.2 → NP_001269782.1  cyclin-Y isoform 2

      See identical proteins and their annotated locations for NP_001269782.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (4) lacks a portion of the 5' coding region, and initiates translation at a downstream start codon, compared to variant 1. Variants 2 and 4 encode the same isoform (2), which has a shorter N-terminus than isoform 1.
      Source sequence(s)
      AA476431, AF413522, AL117336, AL121749, BC050310, BC094815
      Consensus CDS
      CCDS7190.1
      UniProtKB/TrEMBL
      B2RBH6
      Related
      ENSP00000265375.9, ENST00000265375.13
      Conserved Domains (1) summary
      cd20540
      Location:112 → 208
      CYCLIN_CCNY_like; cyclin box found in cyclin-Y (CCNY) family

    3. NM_001282854.2 → NP_001269783.1  cyclin-Y isoform 5

      See identical proteins and their annotated locations for NP_001269783.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (5) lacks a portion of the 5' coding region, and initiates translation at an alternate start codon, compared to variant 1. The encoded isoform (5) has a distinct N-terminus and is shorter than isoform 1.
      Source sequence(s)
      AA476431, AF413522, AK303283, AL117336, AL121749, BC094815
      UniProtKB/TrEMBL
      B7Z8E4
      Conserved Domains (1) summary
      pfam00134
      Location:10 → 132
      Cyclin_N; Cyclin, N-terminal domain

    4. NM_145012.6 → NP_659449.3  cyclin-Y isoform 1

      See identical proteins and their annotated locations for NP_659449.3

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) encodes the longest isoform (1).
      Source sequence(s)
      AA476431, AF413522, AL117336, AL121749, BC094815
      Consensus CDS
      CCDS7189.1
      UniProtKB/Swiss-Prot
      B7ZKX9, D3DRY9, Q2M3V4, Q2TU96, Q6NT86, Q7Z4U7, Q8ND76, Q8TEX2, Q8TEX3, Q96M99, Q96P45
      UniProtKB/TrEMBL
      B2RBH6
      Related
      ENSP00000363836.4, ENST00000374704.8
      Conserved Domains (1) summary
      cd20540
      Location:166 → 262
      CYCLIN_CCNY_like; cyclin box found in cyclin-Y (CCNY) family

    5. NM_181698.4 → NP_859049.2  cyclin-Y isoform 2

      See identical proteins and their annotated locations for NP_859049.2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) differs in the 5' UTR, lacks a portion of the 5' coding region, and uses a downstream start codon, compared to variant 1. Variants 2 and 4 encode the same isoform (2), which has a shorter N-terminus than isoform 1.
      Source sequence(s)
      AA476431, AF429969, AK057280, AL121749
      Consensus CDS
      CCDS7190.1
      UniProtKB/TrEMBL
      B2RBH6
      Related
      ENSP00000363838.1, ENST00000374706.5
      Conserved Domains (1) summary
      cd20540
      Location:112 → 208
      CYCLIN_CCNY_like; cyclin box found in cyclin-Y (CCNY) family

    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_000010.11 Reference GRCh38.p14 Primary Assembly

      Range
      35247025..35572667
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060934.1 Alternate T2T-CHM13v2.0

      Range
      35275620..35601106
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q8ND76.2 GenPept UniProtKB/Swiss-Prot:Q8ND76

    Gene LinkOut

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

    Other Literature Sources
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