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CCNYL2 Gene

pseudogene   GIFtS: 28
GCID: GC10M042903

Cyclin Y-Like 2

(Previous name: chromosome 10 open reading frame 21)
(Previous symbol: C10orf21)
  Search for CCNYL2
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(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc, 7Ensembl, 8DME, 9miRBase, 10fRNAdb, 12H-InvDB, 13NCBI, 14NONCODE, and/or 15RNAdb)
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This gene clusters with an RNA gene
Subcategory (RNA class): lncRNA

Quality score for the ORGUL clustered with this gene is 3

Aliases
Cyclin Y-Like 21 2
C10orf211 2 3
Chromosome 10 Open Reading Frame 211
bA178A10.22

External Ids:    HGNC: 234951   Entrez Gene: 4141942   Ensembl: ENSG000001826327   UniProtKB: Q5T2Q43   
ORGUL members:         

Export aliases for CCNYL2 gene to outside databases

Previous GC identifers: GC10M042225 GC10M039430


(According to Entrez Gene, GeneCards, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
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GeneCards Summary for CCNYL2 Gene:
CCNYL2 (cyclin Y-like 2) is a pseudogene, and is affiliated with the lncRNA class. GO annotations related to this gene include protein kinase binding.


(According to GeneLoc and/or HGNC, and/or
Entrez Gene (NCBI build 37),
and/or miRBase,
Genomic Views according to UCSC (hg19) and Ensembl (release 75), Regulatory elements and Epigenetics data according to QIAGEN, and/or SwitchGear Genomics)
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Regulatory elements:
   Regulatory transcription factor binding sites in the CCNYL2 gene promoter:
         AREB6   USF1   p53   FOXC1   AML1a   USF2   USF-1:USF-2   Tal-1beta   Pax-4a   E47   
         Other transcription factors

Browse SwitchGear Promoter luciferase reporter plasmids
   Search Chromatin IP Primers for CCNYL2

Epigenetics:
DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat CCNYL2


Genomic Location:
Genomic View: UCSC Golden Path with GeneCards custom track

Entrez Gene cytogenetic band: 10q11.21   Ensembl cytogenetic band:  10q11.21   HGNC cytogenetic band: 10q11.21

CCNYL2 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
CCNYL2 gene location

GeneLoc information about chromosome 10         GeneLoc Exon Structure

GeneLoc location for GC10M042903:  view genomic region     (about GC identifiers)

Start:
42,903,616 bp from pter      End:
42,967,688 bp from pter
Size:
64,073 bases      Orientation:
minus strand
ORGUL member locations:
Legend (see complete legend)

ORGUL Member Locations for CCNYL2

(According to 1UniProtKB, HORDE, 2neXtProt, Ensembl, and/or Reactome, Modification sites according to PhosphoSitePlus, Specific Peptides from DME, RefSeq according to NCBI, PDB rendering according to OCA and/or Proteopedia, Recombinant Proteins from EMD Millipore, R&D Systems, GenScript, Enzo Life Sciences, OriGene, Novus Biologicals, Sino Biological, ProSpec, and/or Cloud-Clone Corp.,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, and/or Cloud-Clone Corp., Antibodies by EMD Millipore, R&D Systems, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, LSBio, Abcam, and/or Cloud-Clone Corp.)
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UniProtKB/Swiss-Prot: CCYL2_HUMAN, Q5T2Q4 (See protein sequence)
Recommended Name: Cyclin-Y-like protein 2  
Size: 361 amino acids; 41278 Da
Sequence caution: Sequence=CAI12446.1; Type=Erroneous gene model prediction;

Explore the universe of human proteins at neXtProt for CCNYL2: NX_Q5T2Q4

Explore proteomics data for CCNYL2 at MOPED

Post-translational modifications: 

  • Modification sites at neXtProt
  • Modification sites at PhosphoSitePlus

  • See CCNYL2 Protein Expression from SPIRE MOPED, PaxDB, and MaxQB


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    (According to HGNC, IUPHAR, InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
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    3 InterPro protein domains:
     IPR012399 Cyclin_Y
     IPR013763 Cyclin-like
     IPR013922 Cyclin_PHO80-like

    Graphical View of Domain Structure for InterPro Entry Q5T2Q4

    ProtoNet protein and cluster: Q5T2Q4

    UniProtKB/Swiss-Prot: CCYL2_HUMAN, Q5T2Q4
    Similarity: Belongs to the cyclin family. Cyclin Y subfamily
    Similarity: Contains 1 cyclin N-terminal domain


    CCNYL2 for domains           About GeneDecksing


    (According to 1UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or 2DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013, inGenious Targeting Laboratory, genOway,
    transcription factor targeting from QIAGEN and/or HOMER, miRNA Gene Targets from miRTarBase, shRNA from OriGene, siRNAs from OriGene, QIAGEN, microRNA from QIAGEN, SwitchGear Genomics, Gene Editing from DNA2.0, Clones from OriGene, GenScript, Sino Biological, DNA2.0, and Vector BioLabs, Cell Lines from GenScript, ESI BIO, In Situ Hybridization Assays from Advanced Cell Diagnostics, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
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         Gene Ontology (GO): 1 molecular function term:    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0019901protein kinase binding IEA--
         
    CCNYL2 for ontologies           About GeneDecksing


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    (According to UniProtKB, COMPARTMENTS Subcellular localization database, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
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    Subcellular locations from COMPARTMENTS: 

    CompartmentConfidence
    cytosol1
    extracellular1
    mitochondrion1
    nucleus1
    peroxisome1

    (SuperPaths according to PathCards, Pathways according to R&D Systems, Cell Signaling Technology, KEGG, PharmGKB, BioSystems, Sino Biological, Reactome, Tocris Bioscience, GeneGo (Thomson Reuters), QIAGEN, and/or UniProtKB, Sets of similar genes according to GeneDecks, Interaction Networks according to QIAGEN, and/or STRING, Interactions according to 1UniProtKB, 2MINT, 3I2D, and/or 4STRING, with links to IntAct and Ensembl, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene).
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        Custom Pathway & Disease-focused RT2 Profiler PCR Arrays for CCNYL2
    Interactions:

        Search GeneGlobe Interaction Network for CCNYL2

    Gene Ontology (GO): 1 biological process term:    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0000079regulation of cyclin-dependent protein serine/threonine kinase activity IEA--

    CCNYL2 for ontologies           About GeneDecksing



    (Chemical Compounds according to UniProtKB, Enzo Life Sciences, EMD Millipore, Tocris Bioscience, ApexBio, HMDB, BitterDB, and/or Novoseek, Ligands according to IUPHAR, and Drugs according to DrugBank, Enzo Life Sciences, and/or PharmGKB)
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    Browse Small Molecules at EMD Millipore
       Browse drugs & compounds from Enzo Life Sciences
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    Browse Tocris compounds for CCNYL2 (CCYL2)



    (Secondary structures according to fRNAdb,
    GenBank/EMBL/DDBJ Accessions according to
    Unigene (Build 236 Homo sapiens; Apr 25 2013) or GenBank,
    RefSeq according to Entrez Gene,
    DOTS (version 10), and/or AceView, transcript ids from Ensembl with links to UCSC,
    Conferences by KenesGroup, exon structure from GeneLoc, alternative splicing isoforms according to ASD and/or ECgene,
    siRNAs from OriGene, QIAGEN, shRNA from OriGene, microRNA from QIAGEN, SwitchGear Genomics,
    Tagged/untagged cDNA clones from OriGene, GenScript, DNA2.0, Vector BioLabs, Primers from OriGene, and/or QIAGEN )
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    3 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000483242(uc001izx.3) ENST00000472090 ENST00000426433
    miRNA
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    GeneLoc Exon Structure


    (RNA expression data according to H-InvDB, NONCODE, miRBase, and RNAdb, Expression images according to data from BioGPS, Illumina Human BodyMap, and CGAP SAGE, Sets of similar genes according to GeneDecks, in vivo and in vitro expression data from LifeMap Discovery™, Protein expression images according to data from SPIRE 1MOPED, 2PaxDb, and 3MaxQB, plus additional links to SOURCE, and/or BioGPS, and/or UniProtKB,
    PCR Arrays from QIAGEN, Primers from OriGene, and/or QIAGEN, In Situ Hybridization Assays from Advanced Cell Diagnostics)
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    CCNYL2 expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS <intensity>2/3
    CGAP TAG: --
    CCNYL2 Expression
    About this image

    CCNYL2 Protein expression data from MOPED1, PaxDb2 and MaxQB3    About this image

    CCNYL2 Protein Expression
        Custom PCR Arrays for CCNYL2
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    In Situ
    Assay Products:
     

     
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    (Orthologs according to 1,2HomoloGene (2older version, for species not in 1newer version), 3euGenes, 4SGD , 5MGI Mar 06 2013, with possible further links to Flybase and/or WormBase, and/or 6Ensembl pan taxonomic compara , Gene Trees according to Ensembl and TreeFam)
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      --

    ENSEMBL Gene Tree for CCNYL2 (if available)
    TreeFam Gene Tree for CCNYL2 (if available)

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
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    Paralogs for CCNYL2 gene
    8 SIMAP similar genes for CCNYL2 using alignment to 1 protein entry:     CCYL2_HUMAN:
    CCNYL1    AGAP4    AGAP8    CTGLF11P    CCNYL3    CCNY
    AGAP10    FLJ00312

    CCNYL2 for paralogs           About GeneDecksing


    2 Pseudogenes.org Pseudogenes for CCNYL2
    PGOHUM00000258515 PGOHUM00000234651


    (SNPs/Variants according to the 1NCBI SNP Database, 2Ensembl, 3PupaSUITE, 4UniProtKB, and DNA2.0, Linkage Disequilibrium by HapMap, Structural Variations(CNVs/InDels/Inversions) from the Database of Genomic Variants, Mutations from the Human Gene Mutation Database (HGMD), the Human Cytochrome P450 Allele Nomenclature Database, and the Locus Specific Mutation Databases (LSDB), Blood group antigen gene mutations by BGMUT, Resequencing Primers, Cancer Mutation PCR Arrays and Assays, and Copy Number PCR Arrays from QIAGEN)
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    Selected SNPs for CCNYL2 (see all 1176)    About this table    
    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 10 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs351316481,2
    C,F--39440252(+) TTTTTT/-GCAGA 1 -- int12Minor allele frequency- -:0.50NA 4
    rs285011911,2
    F--42909661(+) TATGTA/GTGTGT 1 -- int13Minor allele frequency- G:0.33NA CSA 6
    rs349139921,2
    C--42909709(+) GTGTG-/T/TA  
            
    TATAT
    1 -- int10--------
    rs580843421,2
    C--42909720(+) TATATAT/-GTATG 1 -- int11Minor allele frequency- -:0.00NA 2
    rs732597961,2
    C,F--42911939(+) AAGTAG/AGATTG 1 -- int13Minor allele frequency- A:0.26WA 122
    rs605521191,2
    C--42913276(+) TTTTT-/T/TT  
            
    GCAGA
    1 -- int10--------
    rs605995181,2
    C--42915159(+) AAAAA-/C/CA  
      A
    /CAAA
    AAAAA
    2 -- int1 cds10--------
    rs114297551,2
    C--42919101(+) TTTTTT/-GTAGA 1 -- int1 trp32Minor allele frequency- -:0.00NA CSA 4
    rs1113233821,2
    C--42919185(+) CCTTGG/ACCTCC 1 -- int11Minor allele frequency- A:0.50WA 2
    rs722326061,2
    C--42922618(+) AAAAA-/A/AA  
            
    AAAAA
    1 -- int10--------

    HapMap Linkage Disequilibrium report for CCNYL2 (42903616 - 42967688 bp)

    Structural Variations
          Database of Genomic Variants (DGV) variations for CCNYL2: --
    Site Specific Mutation Identification with PCR Assays
    Search QIAGEN SeqTarget long-range PCR primers for resequencing CCNYL2
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    (in which this Gene is Involved, According to MalaCards, OMIM, UniProtKB, the University of Copenhagen DISEASES database, Conferences by KenesGroup, Genatlas, GeneTests, GAD, HuGE Navigator, and/or TGDB.)
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      --

    (in PubMed. Associations of this gene to articles via 1Entrez Gene, 2UniProtKB/Swiss-Prot, 3HGNC, 4GAD, 5PharmGKB, 6HMDB, 7DrugBank, 8UniProtKB/TrEMBL, 9 Novoseek, and/or 10fRNAdb)
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    PubMed articles for CCNYL2 gene integrated from 10 sources:
    (articles sorted by number of sources associating them with CCNYL2)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. The DNA sequence and comparative analysis of human chromosome 10. (PubMed id 15164054)2 Deloukas P.... Rogers J. (Nature 2004)
    2. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. (PubMed id 12477932)1 Strausberg R.L....Marra M.A. (Proc. Natl. Acad. Sci. U.S.A. 2002)

    (in PubMed, OMIM, and NCBI Bookshelf)
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     ANDOR
    Aliases
    Free Text  

      Query String
    PubMed
    OMIM
    NCBI Bookshelf
      (Note: In FireFox, select the above section and copy using Ctrl-C)

    (According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
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    Entrez Gene: 414194 HGNC: 23495 Ensembl:ENSG00000182632 euGenes: HUgn414194 ECgene: CCNYL2
    H-InvDB: CCNYL2

    (According to HUGE)
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      --

    (According to PharmGKB, ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL, and/or others, e.g. Wikipedia and GeneReviews, via UniProtKB/Swiss-Prot)
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    NameDescription
    PharmGKB entry for CCNYL2 Pharmacogenomics, SNPs, Pathways

    (Patent information from GeneIP,
    Licensable technologies from WIS Yeda, Salk, Tufts,
    IP news from LifeMap Sciences, Inc.)
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    Patent Information for CCNYL2 gene:
    Search GeneIP for patents involving CCNYL2

    GeneCards and IP:
    Japan Patent Office Licenses GeneCards     European Patent Office Licenses GeneCards     Improving the IP Search



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    Advanced Cell Diagnostics, Animal models from inGenious Targeting Laboratory, genOway)
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