Human Gene STX17 (ENST00000259400.11_5) from GENCODE V47lift37
  Description: syntaxin 17 (from RefSeq NM_017919.3)
Gencode Transcript: ENST00000259400.11_5
Gencode Gene: ENSG00000136874.11_8
Transcript (Including UTRs)
   Position: hg19 chr9:102,668,936-102,736,816 Size: 67,881 Total Exon Count: 8 Strand: +
Coding Region
   Position: hg19 chr9:102,677,522-102,730,955 Size: 53,434 Coding Exon Count: 7 

Page IndexSequence and LinksUniProtKB CommentsPrimersCTDGene Alleles
RNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther SpeciesGO Annotations
mRNA DescriptionsPathwaysOther NamesModel InformationMethods
Data last updated at UCSC: 2024-08-22 23:36:26

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr9:102,668,936-102,736,816)mRNA (may differ from genome)Protein (302 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
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HGNCMGIOMIMPubMedReactomeUniProtKB
WikipediaBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: STX17_HUMAN
DESCRIPTION: RecName: Full=Syntaxin-17;
FUNCTION: Implicated in vesicle trafficking to lysosomes. Could be involved in processes related to cell division (By similarity).
SUBCELLULAR LOCATION: Membrane; Single-pass type IV membrane protein (By similarity). Note=Appears to be associated with a membrane compartment, perhaps a subset of the ER such as exit or entrance sites (By similarity).
SIMILARITY: Belongs to the syntaxin family.
SIMILARITY: Contains 1 t-SNARE coiled-coil homology domain.

-  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

+  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: 7.39 RPKM in Cells - EBV-transformed lymphocytes
Total median expression: 205.14 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 -36.30115-0.316 Picture PostScript Text
3' UTR -1511.505861-0.258 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
IPR006012 - Syntaxin/epimorphin_CS
IPR010989 - t-SNARE
IPR000727 - T_SNARE_dom

SCOP Domains:
47661 - t-snare proteins
58038 - SNARE fusion complex

ModBase Predicted Comparative 3D Structure on P56962
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 DetailsGene Details    
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-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0000149 SNARE binding
GO:0005484 SNAP receptor activity
GO:0005515 protein binding
GO:0019901 protein kinase binding
GO:0019903 protein phosphatase binding

Biological Process:
GO:0006886 intracellular protein transport
GO:0006887 exocytosis
GO:0006888 ER to Golgi vesicle-mediated transport
GO:0006906 vesicle fusion
GO:0006914 autophagy
GO:0007030 Golgi organization
GO:0016192 vesicle-mediated transport
GO:0016240 autophagosome docking
GO:0034497 protein localization to pre-autophagosomal structure
GO:0048278 vesicle docking
GO:0097111 endoplasmic reticulum-Golgi intermediate compartment organization
GO:0097352 autophagosome maturation

Cellular Component:
GO:0000421 autophagosome membrane
GO:0005737 cytoplasm
GO:0005739 mitochondrion
GO:0005776 autophagosome
GO:0005783 endoplasmic reticulum
GO:0005789 endoplasmic reticulum membrane
GO:0005793 endoplasmic reticulum-Golgi intermediate compartment
GO:0005829 cytosol
GO:0005886 plasma membrane
GO:0012507 ER to Golgi transport vesicle membrane
GO:0016020 membrane
GO:0016021 integral component of membrane
GO:0030134 ER to Golgi transport vesicle
GO:0030868 smooth endoplasmic reticulum membrane
GO:0031201 SNARE complex
GO:0031410 cytoplasmic vesicle
GO:0033116 endoplasmic reticulum-Golgi intermediate compartment membrane
GO:0044233 ER-mitochondrion membrane contact site
GO:0030897 HOPS complex
GO:0005765 lysosomal membrane
GO:0005791 rough endoplasmic reticulum


-  Descriptions from all associated GenBank mRNAs
  BC039048 - Homo sapiens, clone IMAGE:3048570, mRNA.
AK295949 - Homo sapiens cDNA FLJ51864 complete cds, highly similar to Syntaxin-17.
BC051790 - Homo sapiens syntaxin 17, mRNA (cDNA clone IMAGE:6190506), with apparent retained intron.
AK311412 - Homo sapiens cDNA, FLJ18454.
BC111009 - Homo sapiens syntaxin 17, mRNA (cDNA clone MGC:102796 IMAGE:5768578), complete cds.
AK000658 - Homo sapiens cDNA FLJ20651 fis, clone KAT01814.
BC070269 - Homo sapiens syntaxin 17, mRNA (cDNA clone IMAGE:6620826), partial cds.
AK095262 - Homo sapiens cDNA FLJ37943 fis, clone CTONG2008621, highly similar to Syntaxin-17.
AL833620 - Homo sapiens mRNA; cDNA DKFZp686F0873 (from clone DKFZp686F0873).
BC101564 - Homo sapiens syntaxin 17, mRNA (cDNA clone MGC:126613 IMAGE:8069070), complete cds.
BC101566 - Homo sapiens syntaxin 17, mRNA (cDNA clone MGC:126615 IMAGE:8069072), complete cds.
BC143430 - Homo sapiens cDNA clone IMAGE:9051938.
KJ902741 - Synthetic construct Homo sapiens clone ccsbBroadEn_12135 STX17 gene, encodes complete protein.
AL834371 - Homo sapiens mRNA; cDNA DKFZp762D1813 (from clone DKFZp762D1813).
JD530133 - Sequence 511157 from Patent EP1572962.
JD486004 - Sequence 467028 from Patent EP1572962.
JD058786 - Sequence 39810 from Patent EP1572962.
JD390756 - Sequence 371780 from Patent EP1572962.
JD120786 - Sequence 101810 from Patent EP1572962.
JD386862 - Sequence 367886 from Patent EP1572962.
JD091921 - Sequence 72945 from Patent EP1572962.
AK124662 - Homo sapiens cDNA FLJ42671 fis, clone BRAMY2022493.
JD024369 - Sequence 5393 from Patent EP1572962.
JD029779 - Sequence 10803 from Patent EP1572962.
JD019542 - Sequence 566 from Patent EP1572962.
JD117129 - Sequence 98153 from Patent EP1572962.

-  Biochemical and Signaling Pathways
  Reactome (by CSHL, EBI, and GO)

Protein P56962 (Reactome details) participates in the following event(s):

R-HSA-5694425 NSF ATPase activity dissociates cis-SNARE
R-HSA-5694446 BET1:GOSR2:STX5 bind v-SNARES on tethered vesicle
R-HSA-5694423 NSF and SNAPs bind cis-SNARE complex
R-HSA-204005 COPII-mediated vesicle transport
R-HSA-199977 ER to Golgi Anterograde Transport
R-HSA-199991 Membrane Trafficking
R-HSA-948021 Transport to the Golgi and subsequent modification
R-HSA-5653656 Vesicle-mediated transport
R-HSA-446203 Asparagine N-linked glycosylation
R-HSA-597592 Post-translational protein modification
R-HSA-392499 Metabolism of proteins

-  Other Names for This Gene
  Alternate Gene Symbols: ENST00000259400.1, ENST00000259400.10, ENST00000259400.2, ENST00000259400.3, ENST00000259400.4, ENST00000259400.5, ENST00000259400.6, ENST00000259400.7, ENST00000259400.8, ENST00000259400.9, NM_017919, P56962, Q4VXC2, STX17 , STX17_HUMAN, uc317ggn.1, uc317ggn.2
UCSC ID: ENST00000259400.11_5
RefSeq Accession: NM_017919.3
Protein: P56962 (aka STX17_HUMAN or STXG_HUMAN)

-  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.