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    CCNY cyclin Y [ Homo sapiens (human) ]

    Gene ID: 219771, updated on 9-Dec-2024

    Summary

    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
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    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

    Expression

    • 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

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?

    Phenotypes

    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

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    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
     
    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

    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)

    NEW Try the new Transcript table

    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_001282852.2NP_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:141237
      CYCLIN_CCNY_like; cyclin box found in cyclin-Y (CCNY) family
    2. NM_001282853.2NP_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:112208
      CYCLIN_CCNY_like; cyclin box found in cyclin-Y (CCNY) family
    3. NM_001282854.2NP_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:10132
      Cyclin_N; Cyclin, N-terminal domain
    4. NM_145012.6NP_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:166262
      CYCLIN_CCNY_like; cyclin box found in cyclin-Y (CCNY) family
    5. NM_181698.4NP_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:112208
      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)