Human Gene CCNYL1 (uc002vci.3) Description and Page Index
  Description: Homo sapiens cyclin Y-like 1 (CCNYL1), transcript variant 1, mRNA.
Transcript (Including UTRs)
   Position: hg19 chr2:208,576,264-208,620,896 Size: 44,633 Total Exon Count: 8 Strand: +
Coding Region
   Position: hg19 chr2:208,576,621-208,618,422 Size: 41,802 Coding Exon Count: 8 

Page IndexSequence and LinksCTDGene AllelesRNA-Seq ExpressionMicroarray Expression
RNA StructureProtein StructureOther SpeciesmRNA DescriptionsOther NamesModel Information
Methods
Data last updated: 2013-06-14

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr2:208,576,264-208,620,896)mRNA (may differ from genome)Protein (308 aa)
Gene SorterGenome BrowserOther Species FASTAGene interactionsTable SchemaBioGPS
CGAPEnsemblEntrez GeneExonPrimerGeneCardsGeneNetwork
H-INVHGNCHPRDLynxMGIPubMed
Stanford SOURCETreefamUniProtKB

-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene

+  Common Gene Haplotype Alleles
  Press "+" in the title bar above to open this section.

-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 8.73 RPKM in Testis
Total median expression: 200.33 RPKM



View in GTEx track of Genome Browser    View at GTEx portal     View GTEx Body Map

+  Microarray Expression Data
  Press "+" in the title bar above to open this section.

-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -203.40357-0.570 Picture PostScript Text
3' UTR -792.452474-0.320 Picture PostScript Text

The RNAfold program from the Vienna RNA Package is used to perform the secondary structure predictions and folding calculations. The estimated folding energy is in kcal/mol. The more negative the energy, the more secondary structure the RNA is likely to have.

-  Protein Domain and Structure Information
  Pfam Domains:
PF00134 - Cyclin, N-terminal domain
PF08613 - Cyclin

SCOP Domains:
47954 - Cyclin-like

ModBase Predicted Comparative 3D Structure on Q8N7R7-2
FrontTopSide
The pictures above may be empty if there is no ModBase structure for the protein. The ModBase structure frequently covers just a fragment of the protein. You may be asked to log onto ModBase the first time you click on the pictures. It is simplest after logging in to just click on the picture again to get to the specific info on that model.

-  Orthologous Genes in Other Species
  Orthologies between human, mouse, and rat are computed by taking the best BLASTP hit, and filtering out non-syntenic hits. For more distant species reciprocal-best BLASTP hits are used. Note that the absence of an ortholog in the table below may reflect incomplete annotations in the other species rather than a true absence of the orthologous gene.
MouseRatZebrafishD. melanogasterC. elegansS. cerevisiae
No orthologNo orthologNo orthologNo orthologNo orthologNo ortholog
Gene Details     
Gene Sorter     
      
      
      

-  Descriptions from all associated GenBank mRNAs
  LF205223 - JP 2014500723-A/12726: Polycomb-Associated Non-Coding RNAs.
AK097751 - Homo sapiens cDNA FLJ40432 fis, clone TESTI2039227.
JD444225 - Sequence 425249 from Patent EP1572962.
JD347083 - Sequence 328107 from Patent EP1572962.
BC047293 - Homo sapiens, clone IMAGE:5530198, mRNA.
JD072753 - Sequence 53777 from Patent EP1572962.
JD467686 - Sequence 448710 from Patent EP1572962.
JD428999 - Sequence 410023 from Patent EP1572962.
BC067253 - Homo sapiens cyclin Y-like 1, mRNA (cDNA clone MGC:74564 IMAGE:6500304), complete cds.
JD289245 - Sequence 270269 from Patent EP1572962.
JD445741 - Sequence 426765 from Patent EP1572962.
KJ903880 - Synthetic construct Homo sapiens clone ccsbBroadEn_13274 CCNYL1 gene, encodes complete protein.
LF318218 - JP 2014500723-A/125721: Polycomb-Associated Non-Coding RNAs.
AK095479 - Homo sapiens cDNA FLJ38160 fis, clone DFNES2002509.
JD290999 - Sequence 272023 from Patent EP1572962.
JD086376 - Sequence 67400 from Patent EP1572962.
JD555798 - Sequence 536822 from Patent EP1572962.
JD434788 - Sequence 415812 from Patent EP1572962.
JD491736 - Sequence 472760 from Patent EP1572962.
JD314162 - Sequence 295186 from Patent EP1572962.
LF318229 - JP 2014500723-A/125732: Polycomb-Associated Non-Coding RNAs.
JD038451 - Sequence 19475 from Patent EP1572962.
JD085350 - Sequence 66374 from Patent EP1572962.
JD465549 - Sequence 446573 from Patent EP1572962.
JD113111 - Sequence 94135 from Patent EP1572962.
JD529861 - Sequence 510885 from Patent EP1572962.
JD509125 - Sequence 490149 from Patent EP1572962.
AK026922 - Homo sapiens cDNA: FLJ23269 fis, clone COL09533.
HZ409581 - JP 2015528002-A/2178: CHIRAL CONTROL.
LG052915 - KR 1020150036642-A/2181: CHIRAL CONTROL.
JD112481 - Sequence 93505 from Patent EP1572962.
LF318230 - JP 2014500723-A/125733: Polycomb-Associated Non-Coding RNAs.
MA440800 - JP 2018138019-A/12726: Polycomb-Associated Non-Coding RNAs.
MA553795 - JP 2018138019-A/125721: Polycomb-Associated Non-Coding RNAs.
MA553806 - JP 2018138019-A/125732: Polycomb-Associated Non-Coding RNAs.
MA553807 - JP 2018138019-A/125733: Polycomb-Associated Non-Coding RNAs.

-  Other Names for This Gene
  Alternate Gene Symbols: NM_001142300, NP_001135772, Q8N7R7-2
UCSC ID: uc002vci.3
RefSeq Accession: NM_001142300
Protein: Q8N7R7-2, splice isoform of Q8N7R7 CCDS: CCDS46503.1

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: NM_001142300.1
exon count: 8CDS single in 3' UTR: no RNA size: 3773
ORF size: 927CDS single in intron: no Alignment % ID: 100.00
txCdsPredict score: 1887.00frame shift in genome: no % Coverage: 99.60
has start codon: yes stop codon in genome: no # of Alignments: 1
has end codon: yes retained intron: yes # AT/AC introns 0
selenocysteine: no end bleed into intron: 398# strange splices: 0
Click here for a detailed description of the fields of the table above.

-  Methods, Credits, and Use Restrictions
  Click here for details on how this gene model was made and data restrictions if any.