Human Gene CCNJL (ENST00000393977.7) from GENCODE V44
  Description: Homo sapiens cyclin J like (CCNJL), transcript variant 1, mRNA. (from RefSeq NM_024565)
Gencode Transcript: ENST00000393977.7
Gencode Gene: ENSG00000135083.17
Transcript (Including UTRs)
   Position: hg38 chr5:160,251,652-160,312,600 Size: 60,949 Total Exon Count: 7 Strand: -
Coding Region
   Position: hg38 chr5:160,253,378-160,311,923 Size: 58,546 Coding Exon Count: 6 

Page IndexSequence and LinksUniProtKB CommentsPrimersCTDRNA-Seq Expression
Microarray ExpressionRNA StructureProtein StructureOther SpeciesGO AnnotationsmRNA Descriptions
Other NamesMethods
Data last updated at UCSC: 2023-08-18 00:09:47

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr5:160,251,652-160,312,600)mRNA (may differ from genome)Protein (435 aa)
Gene SorterGenome BrowserOther Species FASTAGene interactionsTable SchemaAlphaFold
BioGPSEnsemblEntrez GeneExonPrimerGencodeGeneCards
HGNCHPRDLynxMGIneXtProtPubMed
UniProtKBBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: CCNJL_HUMAN
DESCRIPTION: RecName: Full=Cyclin-J-like protein;
SIMILARITY: Belongs to the cyclin family. Cyclin J subfamily.
SIMILARITY: Contains 1 cyclin N-terminal domain.
CAUTION: It is uncertain whether Met-1 or Met-2 is the initiator.
SEQUENCE CAUTION: Sequence=AAH13353.1; Type=Erroneous initiation; Sequence=BAB14856.1; Type=Erroneous initiation;

-  Primer design for this transcript
 

Primer3Plus can design qPCR Primers that straddle exon-exon-junctions, which amplify only cDNA, not genomic DNA.
Click here to load the transcript sequence and exon structure into Primer3Plus

Exonprimer can design one pair of Sanger sequencing primers around every exon, located in non-genic sequence.
Click here to open Exonprimer with this transcript

To design primers for a non-coding sequence, zoom to a region of interest and select from the drop-down menu: View > In External Tools > Primer3


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

-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 15.12 RPKM in Brain - Cerebellar Hemisphere
Total median expression: 94.96 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 -152.70286-0.534 Picture PostScript Text
3' UTR -577.201726-0.334 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
  InterPro Domains: Graphical view of domain structure
IPR013763 - Cyclin-like
IPR004367 - Cyclin_C
IPR006671 - Cyclin_N

Pfam Domains:
PF02984 - Cyclin, C-terminal domain
PF00134 - Cyclin, N-terminal domain

ModBase Predicted Comparative 3D Structure on Q8IV13
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
Genome BrowserGenome BrowserNo orthologNo orthologNo orthologNo ortholog
Gene Details     
Gene Sorter     
MGIRGD    
Protein SequenceProtein Sequence    
AlignmentAlignment    

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Cellular Component:
GO:0005634 nucleus


-  Descriptions from all associated GenBank mRNAs
  AK131381 - Homo sapiens cDNA FLJ16450 fis, clone BRAWH2010552.
AK302823 - Homo sapiens cDNA FLJ60987 complete cds, weakly similar to Mus musculus cyclin J (Ccnj), mRNA.
BC035871 - Homo sapiens cyclin J-like, mRNA (cDNA clone MGC:46554 IMAGE:5245637), complete cds.
AK294000 - Homo sapiens cDNA FLJ53725 complete cds, moderately similar to Mus musculus cyclin J (Ccnj), mRNA.
LF209041 - JP 2014500723-A/16544: Polycomb-Associated Non-Coding RNAs.
MA444618 - JP 2018138019-A/16544: Polycomb-Associated Non-Coding RNAs.
AK024228 - Homo sapiens cDNA FLJ14166 fis, clone NT2RP1000796.
BC013353 - Homo sapiens cyclin J-like, mRNA (cDNA clone IMAGE:3944075), complete cds.
JD131417 - Sequence 112441 from Patent EP1572962.
JD184148 - Sequence 165172 from Patent EP1572962.
JD207964 - Sequence 188988 from Patent EP1572962.
JD295581 - Sequence 276605 from Patent EP1572962.
JD556173 - Sequence 537197 from Patent EP1572962.
JD454428 - Sequence 435452 from Patent EP1572962.
JD099305 - Sequence 80329 from Patent EP1572962.
JD220757 - Sequence 201781 from Patent EP1572962.
JD128622 - Sequence 109646 from Patent EP1572962.
JD255427 - Sequence 236451 from Patent EP1572962.
JD391361 - Sequence 372385 from Patent EP1572962.
JD548622 - Sequence 529646 from Patent EP1572962.
JD499812 - Sequence 480836 from Patent EP1572962.
JD093194 - Sequence 74218 from Patent EP1572962.
JD473243 - Sequence 454267 from Patent EP1572962.
JD267146 - Sequence 248170 from Patent EP1572962.
JD160649 - Sequence 141673 from Patent EP1572962.
JD267209 - Sequence 248233 from Patent EP1572962.
JD252123 - Sequence 233147 from Patent EP1572962.
JD500213 - Sequence 481237 from Patent EP1572962.
JD364454 - Sequence 345478 from Patent EP1572962.
JD566792 - Sequence 547816 from Patent EP1572962.
JD203309 - Sequence 184333 from Patent EP1572962.
JD519813 - Sequence 500837 from Patent EP1572962.
JD236860 - Sequence 217884 from Patent EP1572962.
JD330426 - Sequence 311450 from Patent EP1572962.
JD301709 - Sequence 282733 from Patent EP1572962.
JD468547 - Sequence 449571 from Patent EP1572962.
JD176307 - Sequence 157331 from Patent EP1572962.
JD432137 - Sequence 413161 from Patent EP1572962.
CU680572 - Synthetic construct Homo sapiens gateway clone IMAGE:100018514 5' read CCNJL mRNA.
KJ903179 - Synthetic construct Homo sapiens clone ccsbBroadEn_12573 CCNJL gene, encodes complete protein.
KJ903180 - Synthetic construct Homo sapiens clone ccsbBroadEn_12574 CCNJL gene, encodes complete protein.
CU690220 - Synthetic construct Homo sapiens gateway clone IMAGE:100021089 5' read CCNJL mRNA.
JD095508 - Sequence 76532 from Patent EP1572962.
JD167043 - Sequence 148067 from Patent EP1572962.
JD134747 - Sequence 115771 from Patent EP1572962.
JD193779 - Sequence 174803 from Patent EP1572962.
JD476639 - Sequence 457663 from Patent EP1572962.
JD233695 - Sequence 214719 from Patent EP1572962.
JD217016 - Sequence 198040 from Patent EP1572962.
JD165107 - Sequence 146131 from Patent EP1572962.
JD314927 - Sequence 295951 from Patent EP1572962.
JD244731 - Sequence 225755 from Patent EP1572962.

-  Other Names for This Gene
  Alternate Gene Symbols: CCNJL_HUMAN, ENST00000393977.1, ENST00000393977.2, ENST00000393977.3, ENST00000393977.4, ENST00000393977.5, ENST00000393977.6, NM_024565, Q6ZN43, Q8IV13, Q9H7W8, uc003lyb.1, uc003lyb.2
UCSC ID: ENST00000393977.7
RefSeq Accession: NM_024565
Protein: Q8IV13 (aka CCNJL_HUMAN)
CCDS: CCDS4350.2

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