Mouse Gene Serpinb13 (ENSMUST00000027564.7) from GENCODE VM23 Comprehensive Transcript Set (only Basic displayed by default)
  Description: Mus musculus serine (or cysteine) peptidase inhibitor, clade B (ovalbumin), member 13 (Serpinb13), mRNA. (from RefSeq NM_172852)
Gencode Transcript: ENSMUST00000027564.7
Gencode Gene: ENSMUSG00000048775.10
Transcript (Including UTRs)
   Position: mm10 chr1:106,980,984-107,001,195 Size: 20,212 Total Exon Count: 8 Strand: +
Coding Region
   Position: mm10 chr1:106,982,155-107,000,821 Size: 18,667 Coding Exon Count: 7 

Page IndexSequence and LinksUniProtKB CommentsPrimersCTDRNA Structure
Protein StructureOther SpeciesGO AnnotationsmRNA DescriptionsPathwaysOther Names
Model InformationMethods
Data last updated at UCSC: 2019-09-19

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr1:106,980,984-107,001,195)mRNA (may differ from genome)Protein (389 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneTable SchemaAlphaFold
BioGPSEnsemblEntrez GeneExonPrimerGeneCardsMGI
PubMedReactomeSOURCEUniProtKBWikipedia

-  Comments and Description Text from UniProtKB
  ID: SPB13_MOUSE
DESCRIPTION: RecName: Full=Serpin B13;
FUNCTION: May play a role in the proliferation or differentiation of keratinocytes (By similarity).
SUBCELLULAR LOCATION: Cytoplasm (By similarity).
SIMILARITY: Belongs to the serpin family. Ov-serpin subfamily.

-  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

-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -12.3063-0.195 Picture PostScript Text
3' UTR -73.30374-0.196 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
IPR023795 - Protease_inhib_I4_serpin_CS
IPR023796 - Serpin_dom
IPR000215 - Serpin_fam

Pfam Domains:
PF00079 - Serpin (serine protease inhibitor)

SCOP Domains:
51735 - NAD(P)-binding Rossmann-fold domains
56574 - Serpins

ModBase Predicted Comparative 3D Structure on Q8CDC0
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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.
HumanRatZebrafishD. melanogasterC. elegansS. cerevisiae
No orthologGenome BrowserNo orthologNo orthologNo orthologNo ortholog
Gene Details     
Gene Sorter     
 RGD    
 Protein Sequence    
 Alignment    

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0002020 protease binding
GO:0004867 serine-type endopeptidase inhibitor activity
GO:0004869 cysteine-type endopeptidase inhibitor activity
GO:0030414 peptidase inhibitor activity

Biological Process:
GO:0010466 negative regulation of peptidase activity
GO:0010951 negative regulation of endopeptidase activity
GO:1902173 negative regulation of keratinocyte apoptotic process

Cellular Component:
GO:0005615 extracellular space
GO:0005654 nucleoplasm
GO:0005737 cytoplasm
GO:0005829 cytosol
GO:0016607 nuclear speck


-  Descriptions from all associated GenBank mRNAs
  AK030670 - Mus musculus 6 days neonate head cDNA, RIKEN full-length enriched library, clone:5430417G24 product:similar to headpin serine proteinase inhibitor [Homo sapiens], full insert sequence.
BC117990 - Mus musculus serine (or cysteine) peptidase inhibitor, clade B (ovalbumin), member 13, mRNA (cDNA clone MGC:144645 IMAGE:40104505), complete cds.
BC117991 - Mus musculus serine (or cysteine) peptidase inhibitor, clade B (ovalbumin), member 13, mRNA (cDNA clone IMAGE:40104507), complete cds.

-  Biochemical and Signaling Pathways
  KEGG - Kyoto Encyclopedia of Genes and Genomes
mmu05146 - Amoebiasis

Reactome (by CSHL, EBI, and GO)

Protein Q8CDC0 (Reactome details) participates in the following event(s):

R-MMU-8938108 SERPINB13 binds cathepsin L
R-MMU-8938121 SERPINB13 binds CTSK
R-MMU-8939242 RUNX1 regulates transcription of genes involved in differentiation of keratinocytes
R-MMU-8878171 Transcriptional regulation by RUNX1
R-MMU-212436 Generic Transcription Pathway
R-MMU-73857 RNA Polymerase II Transcription
R-MMU-74160 Gene expression (Transcription)

-  Other Names for This Gene
  Alternate Gene Symbols: NM_172852, Q148S5, Q148S6, Q8CDC0, SPB13_MOUSE, uc007chf.1
UCSC ID: uc007chf.1
RefSeq Accession: NM_172852
Protein: Q8CDC0 (aka SPB13_MOUSE)
CCDS: CCDS15213.1

-  Gene Model Information
  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.