Human Gene TMPRSS13 (uc009yzr.2)
  Description: Homo sapiens transmembrane protease, serine 13 (TMPRSS13), transcript variant 2, mRNA.
RefSeq Summary (NM_001206789): This gene encodes a member of the type II transmembrane serine protease family. Transmembrane serine proteases are regulated by protease inhibitors and known to function in development, homeostasis, infection, and tumorigenesis. Multiple transcript variants encoding different isoforms have been found for this gene. [provided by RefSeq, Oct 2011].
Transcript (Including UTRs)
   Position: hg19 chr11:117,771,356-117,800,168 Size: 28,813 Total Exon Count: 12 Strand: -
Coding Region
   Position: hg19 chr11:117,772,954-117,800,022 Size: 27,069 Coding Exon Count: 12 

Page IndexSequence and LinksUniProtKB CommentsPrimersGenetic AssociationsMalaCards
CTDGene AllelesRNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein Structure
Other SpeciesmRNA DescriptionsOther NamesModel InformationMethods
Data last updated at UCSC: 2013-06-14

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr11:117,771,356-117,800,168)mRNA (may differ from genome)Protein (532 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblEntrez GeneExonPrimerGeneCards
H-INVHGNCLynxMalacardsMGIOMIM
PubMedUniProtKBBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: E9PIJ5_HUMAN
DESCRIPTION: SubName: Full=Transmembrane protease serine 13;
SIMILARITY: Belongs to the peptidase S1 family.
CAUTION: The sequence shown here is derived from an Ensembl automatic analysis pipeline and should be considered as preliminary data.

-  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


-  Genetic Association Studies of Complex Diseases and Disorders
  Genetic Association Database (archive): TMPRSS13
CDC HuGE Published Literature: TMPRSS13
Positive Disease Associations: Coronary Disease
Related Studies:
  1. Coronary Disease
    , , . [PubMed 0]

-  MalaCards Disease Associations
  MalaCards Gene Search: TMPRSS13
Diseases sorted by gene-association score: avian influenza (3)

-  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: 16.76 RPKM in Skin - Sun Exposed (Lower leg)
Total median expression: 55.75 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 -44.50146-0.305 Picture PostScript Text
3' UTR -631.781598-0.395 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
IPR002172 - LDrepeatLR_classA_rpt
IPR009003 - Pept_cys/ser_Trypsin-like
IPR018114 - Peptidase_S1/S6_AS
IPR001254 - Peptidase_S1_S6
IPR001314 - Peptidase_S1A
IPR001190 - Srcr_rcpt
IPR017448 - Srcr_rcpt-rel

Pfam Domains:
PF00089 - Trypsin
PF09342 - Domain of unknown function (DUF1986)
PF15494 - Scavenger receptor cysteine-rich domain

SCOP Domains:
50494 - Trypsin-like serine proteases
56487 - SRCR-like
57424 - LDL receptor-like module

ModBase Predicted Comparative 3D Structure on E9PIJ5
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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.
MouseRatZebrafishD. melanogasterC. elegansS. cerevisiae
No orthologGenome BrowserNo orthologNo orthologNo orthologNo ortholog
Gene DetailsGene Details    
Gene SorterGene Sorter    
 RGD    
 Protein Sequence    
 Alignment    

-  Descriptions from all associated GenBank mRNAs
  KJ903371 - Synthetic construct Homo sapiens clone ccsbBroadEn_12765 TMPRSS13 gene, encodes complete protein.
BC018715 - Homo sapiens transmembrane protease, serine 13, mRNA (cDNA clone IMAGE:3505123).
AB048797 - Homo sapiens msps mRNA for mosaic serine protease, complete cds.
JD260699 - Sequence 241723 from Patent EP1572962.
JD549500 - Sequence 530524 from Patent EP1572962.
BC114928 - Homo sapiens transmembrane protease, serine 13, mRNA (cDNA clone MGC:133199 IMAGE:40028749), complete cds.
JD175231 - Sequence 156255 from Patent EP1572962.
JD043613 - Sequence 24637 from Patent EP1572962.
JD436308 - Sequence 417332 from Patent EP1572962.
JD123527 - Sequence 104551 from Patent EP1572962.
JD197683 - Sequence 178707 from Patent EP1572962.
JD475033 - Sequence 456057 from Patent EP1572962.
JD227211 - Sequence 208235 from Patent EP1572962.
JD079891 - Sequence 60915 from Patent EP1572962.
JD385046 - Sequence 366070 from Patent EP1572962.
JD527109 - Sequence 508133 from Patent EP1572962.
JD163388 - Sequence 144412 from Patent EP1572962.
JD538792 - Sequence 519816 from Patent EP1572962.
JD450528 - Sequence 431552 from Patent EP1572962.
JD167036 - Sequence 148060 from Patent EP1572962.
JD184414 - Sequence 165438 from Patent EP1572962.
JD343864 - Sequence 324888 from Patent EP1572962.
JD142904 - Sequence 123928 from Patent EP1572962.
JD554928 - Sequence 535952 from Patent EP1572962.
JD111506 - Sequence 92530 from Patent EP1572962.
JD142979 - Sequence 124003 from Patent EP1572962.
JD083868 - Sequence 64892 from Patent EP1572962.
JD513339 - Sequence 494363 from Patent EP1572962.
JD532043 - Sequence 513067 from Patent EP1572962.
JD498431 - Sequence 479455 from Patent EP1572962.
JD387027 - Sequence 368051 from Patent EP1572962.
JD205864 - Sequence 186888 from Patent EP1572962.
JD205863 - Sequence 186887 from Patent EP1572962.
JD511362 - Sequence 492386 from Patent EP1572962.
JD297006 - Sequence 278030 from Patent EP1572962.
AK300283 - Homo sapiens cDNA FLJ57344 complete cds, highly similar to Transmembrane protease, serine 13 (EC 3.4.21.-).
JD252115 - Sequence 233139 from Patent EP1572962.
JD395554 - Sequence 376578 from Patent EP1572962.
JD117778 - Sequence 98802 from Patent EP1572962.
JD328168 - Sequence 309192 from Patent EP1572962.
AY190317 - Homo sapiens transmembrane protease serine 6 (TMPRSS6) mRNA, complete cds.
AB048796 - Homo sapiens mspl mRNA for membrane-type mosaic serine protease, complete cds.
AK027798 - Homo sapiens cDNA FLJ14892 fis, clone PLACE1004270, weakly similar to TRANSMEMBRANE PROTEASE, SERINE 2 (EC 3.4.21.-).

-  Other Names for This Gene
  Alternate Gene Symbols: E9PIJ5, E9PIJ5_HUMAN, NM_001206789, NP_001193718
UCSC ID: uc009yzr.2
RefSeq Accession: NM_001206789
Protein: E9PIJ5 CCDS: CCDS55788.1

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: NM_001206789.1
exon count: 12CDS single in 3' UTR: no RNA size: 3343
ORF size: 1599CDS single in intron: no Alignment % ID: 100.00
txCdsPredict score: 3323.00frame 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.