Human Gene CASP16 (uc002cuf.1)
  Description: RecName: Full=Putative caspase-16; EC=3.4.22.-;
Transcript (Including UTRs)
   Position: hg19 chr16:3,194,220-3,199,964 Size: 5,745 Total Exon Count: 10 Strand: +
Coding Region
   Position: hg19 chr16:3,197,340-3,199,809 Size: 2,470 Coding Exon Count: 5 

Page IndexSequence and LinksUniProtKB CommentsPrimersGene AllelesRNA-Seq Expression
Microarray ExpressionRNA StructureProtein StructureOther SpeciesmRNA DescriptionsOther Names
Model InformationMethods
Data last updated at UCSC: 2013-06-14

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr16:3,194,220-3,199,964)mRNA (may differ from genome)Protein (183 aa)
Gene SorterGenome BrowserOther Species FASTAGene interactionsTable SchemaAlphaFold
EnsemblExonPrimerGeneCardsH-INVHGNCLynx
MGIneXtProtPubMedUniProtKB

-  Comments and Description Text from UniProtKB
  ID: CASPG_HUMAN
DESCRIPTION: RecName: Full=Putative caspase-16; EC=3.4.22.-;
SIMILARITY: Belongs to the peptidase C14A family.
CAUTION: Could be the product of a pseudogene.

-  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


+  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: 8.38 RPKM in Small Intestine - Terminal Ileum
Total median expression: 20.33 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 -395.71750-0.528 Picture PostScript Text
3' UTR -60.90155-0.393 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
IPR011600 - Pept_C14_cat
IPR001309 - Pept_C14_ICE_p20
IPR002138 - Pept_C14_p10
IPR002398 - Pept_C14_p45

Pfam Domains:
PF00656 - Caspase domain

SCOP Domains:
52129 - Caspase-like

ModBase Predicted Comparative 3D Structure on P0CB46
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
      
      
      
      
      

-  Descriptions from all associated GenBank mRNAs
  JD449488 - Sequence 430512 from Patent EP1572962.
AK096989 - Homo sapiens cDNA FLJ39670 fis, clone SMINT2008690.
AF098666 - Homo sapiens caspace pseudogene mRNA sequence.
JD135083 - Sequence 116107 from Patent EP1572962.
BC111724 - Homo sapiens cDNA clone IMAGE:40024310.
JD496630 - Sequence 477654 from Patent EP1572962.
JD443512 - Sequence 424536 from Patent EP1572962.
JD439766 - Sequence 420790 from Patent EP1572962.
JD166796 - Sequence 147820 from Patent EP1572962.
JD192972 - Sequence 173996 from Patent EP1572962.
JD211040 - Sequence 192064 from Patent EP1572962.
JD389180 - Sequence 370204 from Patent EP1572962.
JD297823 - Sequence 278847 from Patent EP1572962.
JD222798 - Sequence 203822 from Patent EP1572962.
JD276435 - Sequence 257459 from Patent EP1572962.

-  Other Names for This Gene
  Alternate Gene Symbols: BC111724, CASP14L, CASPG_HUMAN, P0CB46
UCSC ID: uc002cuf.1
Representative RNA: BC111724
Protein: P0CB46 (aka CASPG_HUMAN)

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: BC111724.1
exon count: 10CDS single in 3' UTR: no RNA size: 1368
ORF size: 552CDS single in intron: no Alignment % ID: 100.00
txCdsPredict score: 1101.50frame shift in genome: no % Coverage: 100.00
has start codon: yes stop codon in genome: no # of Alignments: 1
has end codon: yes retained intron: no # AT/AC introns 0
selenocysteine: no end bleed into intron: 0# 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.