Human Gene STX4 (ENST00000313843.8_4) from GENCODE V47lift37
  Description: syntaxin 4, transcript variant 3 (from RefSeq NM_004604.5)
Gencode Transcript: ENST00000313843.8_4
Gencode Gene: ENSG00000103496.15_9
Transcript (Including UTRs)
   Position: hg19 chr16:31,044,879-31,051,485 Size: 6,607 Total Exon Count: 11 Strand: +
Coding Region
   Position: hg19 chr16:31,045,127-31,051,124 Size: 5,998 Coding Exon Count: 10 

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 (chr16:31,044,879-31,051,485)mRNA (may differ from genome)Protein (297 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblEntrez GeneExonPrimerGeneCards
HGNCHuman Cortex Gene ExpressionMGIOMIMPubMedReactome
UniProtKBWikipediaBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: STX4_HUMAN
DESCRIPTION: RecName: Full=Syntaxin-4; AltName: Full=Renal carcinoma antigen NY-REN-31;
FUNCTION: Plasma membrane t-SNARE that mediates docking of transport vesicles. Necessary for the translocation of SLC2A4 from intracellular vesicles to the plasma membrane. Together with STXB3 and VAMP2, may also play a role in docking/fusion of intracellular GLUT4-containing vesicles with the cell surface in adipocytes (By similarity). May also play a role in docking of synaptic vesicles at presynaptic active zones.
SUBUNIT: Component of the SNARE complex composed of STX4, SNAP23 and VAMP7 that interacts with SYT7 during lysosomal exocytosis. Found in a complex with VAMP8 and SNAP23. Detected in a complex with SNAP23 and STXBP4. Interacts with VAMP2. Interacts with SNAP23 and SNAPIN. Interacts with LLGL1. Interacts (via C- terminus) with CENPF. Interacts with DOC2B. Interacts with STXBP6. Interacts with STXBP3; excludes interaction with DOC2B and SNAP25. Interacts with STXBP4; excludes interaction with VAMP2 (By similarity).
INTERACTION: P54920:NAPA; NbExp=2; IntAct=EBI-744942, EBI-749652;
SUBCELLULAR LOCATION: Cell membrane; Single-pass type IV membrane protein (Potential).
TISSUE SPECIFICITY: Expressed in neutrophils and neutrophil- differentiated HL-60 cells. Expression in neutrophils increases with differentiation.
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           more ... click here to view the complete list

+  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: 27.95 RPKM in Spleen
Total median expression: 739.93 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 -105.80248-0.427 Picture PostScript Text
3' UTR -100.20268-0.374 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
IPR006011 - Syntaxin_N
IPR010989 - t-SNARE
IPR000727 - T_SNARE_dom

Pfam Domains:
PF00804 - Syntaxin
PF05739 - SNARE domain

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

ModBase Predicted Comparative 3D Structure on Q12846
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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 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:0016230 sphingomyelin phosphodiesterase activator activity

Biological Process:
GO:0006836 neurotransmitter transport
GO:0006886 intracellular protein transport
GO:0008284 positive regulation of cell proliferation
GO:0016192 vesicle-mediated transport
GO:0017157 regulation of exocytosis
GO:0019221 cytokine-mediated signaling pathway
GO:0030335 positive regulation of cell migration
GO:0031629 synaptic vesicle fusion to presynaptic active zone membrane
GO:0033194 response to hydroperoxide
GO:0035493 SNARE complex assembly
GO:0035774 positive regulation of insulin secretion involved in cellular response to glucose stimulus
GO:0043085 positive regulation of catalytic activity
GO:0043311 positive regulation of eosinophil degranulation
GO:0045785 positive regulation of cell adhesion
GO:0048278 vesicle docking
GO:0048284 organelle fusion
GO:0050921 positive regulation of chemotaxis
GO:0051024 positive regulation of immunoglobulin secretion
GO:0060291 long-term synaptic potentiation
GO:0071346 cellular response to interferon-gamma
GO:1902041 regulation of extrinsic apoptotic signaling pathway via death domain receptors
GO:1903078 positive regulation of protein localization to plasma membrane
GO:1990668 vesicle fusion with endoplasmic reticulum-Golgi intermediate compartment (ERGIC) membrane
GO:2000010 positive regulation of protein localization to cell surface

Cellular Component:
GO:0000322 storage vacuole
GO:0005615 extracellular space
GO:0005622 intracellular
GO:0005737 cytoplasm
GO:0005768 endosome
GO:0005773 vacuole
GO:0005802 trans-Golgi network
GO:0005829 cytosol
GO:0005886 plasma membrane
GO:0008021 synaptic vesicle
GO:0009986 cell surface
GO:0016020 membrane
GO:0016021 integral component of membrane
GO:0016323 basolateral plasma membrane
GO:0030027 lamellipodium
GO:0030670 phagocytic vesicle membrane
GO:0031201 SNARE complex
GO:0035749 myelin sheath adaxonal region
GO:0036477 somatodendritic compartment
GO:0042581 specific granule
GO:0043197 dendritic spine
GO:0043219 lateral loop
GO:0045202 synapse
GO:0045335 phagocytic vesicle
GO:0048471 perinuclear region of cytoplasm
GO:0070062 extracellular exosome


-  Descriptions from all associated GenBank mRNAs
  AK091833 - Homo sapiens cDNA FLJ34514 fis, clone HLUNG2006599, highly similar to Syntaxin-4.
AX747209 - Sequence 734 from Patent EP1308459.
AK315716 - Homo sapiens cDNA, FLJ96817, Homo sapiens syntaxin 4A (placental) (STX4A), mRNA.
AK296652 - Homo sapiens cDNA FLJ57517 complete cds, highly similar to Syntaxin-4.
BC002436 - Homo sapiens syntaxin 4, mRNA (cDNA clone MGC:1480 IMAGE:3345863), complete cds.
AF318489 - Homo sapiens syntaxin 4 (STX4) precursor RNA, complete cds.
JD485911 - Sequence 466935 from Patent EP1572962.
JD488762 - Sequence 469786 from Patent EP1572962.
JD445552 - Sequence 426576 from Patent EP1572962.
U07158 - Human syntaxin mRNA, complete cds.
JD217028 - Sequence 198052 from Patent EP1572962.
JD461651 - Sequence 442675 from Patent EP1572962.
KJ892223 - Synthetic construct Homo sapiens clone ccsbBroadEn_01617 STX4 gene, encodes complete protein.
AB464273 - Synthetic construct DNA, clone: pF1KB8238, Homo sapiens STX4 gene for syntaxin 4, without stop codon, in Flexi system.
BT007326 - Homo sapiens syntaxin 4A (placental) mRNA, complete cds.
AF026007 - Homo sapiens syntaxin 4 (STX4) mRNA, complete cds.
AJ000541 - Homo sapiens mRNA for syntaxin 4 precursor.
CR541806 - Homo sapiens full open reading frame cDNA clone RZPDo834F0631D for gene STX4A, syntaxin 4A (placental); complete cds, incl. stopcodon.
X85784 - H.sapiens mRNA for syntaxin 4.
JD146077 - Sequence 127101 from Patent EP1572962.
JD054096 - Sequence 35120 from Patent EP1572962.
JD389141 - Sequence 370165 from Patent EP1572962.
JD375313 - Sequence 356337 from Patent EP1572962.
JD276244 - Sequence 257268 from Patent EP1572962.
JD544681 - Sequence 525705 from Patent EP1572962.

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

Protein Q12846 (Reactome details) participates in the following event(s):

R-HSA-114684 Phosphorylation of Syntaxin-4
R-HSA-376357 Vamp7 associated Lysosome to Plasma membrane transport
R-HSA-376364 Vamp8 associated secretory vesicle to plasma membrane transport
R-HSA-376369 Vamp2 associated secretory vesicle to plasma membrane transport
R-HSA-9014074 TXLNA (IL14) binds syntaxin4
R-HSA-8863858 SEC22B, CALR, STX4, TAP and TAPBP bind
R-HSA-8951595 CALR, TAP, TAPBP dissociate from SEC22B:STX4
R-HSA-114516 Disinhibition of SNARE formation
R-HSA-421837 Clathrin derived vesicle budding
R-HSA-449836 Other interleukin signaling
R-HSA-1236974 ER-Phagosome pathway
R-HSA-76005 Response to elevated platelet cytosolic Ca2+
R-HSA-1445148 Translocation of GLUT4 to the plasma membrane
R-HSA-199992 trans-Golgi Network Vesicle Budding
R-HSA-449147 Signaling by Interleukins
R-HSA-1236975 Antigen processing-Cross presentation
R-HSA-76002 Platelet activation, signaling and aggregation
R-HSA-199991 Membrane Trafficking
R-HSA-1280215 Cytokine Signaling in Immune system
R-HSA-983169 Class I MHC mediated antigen processing & presentation
R-HSA-109582 Hemostasis
R-HSA-5653656 Vesicle-mediated transport
R-HSA-168256 Immune System
R-HSA-1280218 Adaptive Immune System

-  Other Names for This Gene
  Alternate Gene Symbols: A8MXY0, ENST00000313843.1, ENST00000313843.2, ENST00000313843.3, ENST00000313843.4, ENST00000313843.5, ENST00000313843.6, ENST00000313843.7, NM_004604, Q12846, Q15525, Q6FHE8, STX4A, STX4_HUMAN, uc317pmr.1, uc317pmr.2
UCSC ID: ENST00000313843.8_4
RefSeq Accession: NM_004604.5
Protein: Q12846 (aka STX4_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.