Human Gene STX10 (uc021upq.2) Description and Page Index
  Description: Homo sapiens syntaxin 10 (STX10), transcript variant 1, mRNA.
RefSeq Summary (NM_003765): This gene belongs to the syntaxin family and encodes a soluble N-ethylmaleimide sensitive factor attachment protein receptor (SNARE). The encoded protein is involved in docking and fusion events at the Golgi apparatus. Alternative splicing results in multiple transcript variants. [provided by RefSeq, Oct 2012].
Transcript (Including UTRs)
   Position: hg19 chr19:13,254,872-13,261,188 Size: 6,317 Total Exon Count: 8 Strand: -
Coding Region
   Position: hg19 chr19:13,255,224-13,260,987 Size: 5,764 Coding Exon Count: 8 

Page IndexSequence and LinksUniProtKB CommentsCTDGene AllelesRNA-Seq Expression
Microarray ExpressionRNA StructureProtein StructureOther SpeciesGO AnnotationsmRNA Descriptions
PathwaysOther NamesModel InformationMethods
Data last updated: 2013-06-14

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr19:13,254,872-13,261,188)mRNA (may differ from genome)Protein (249 aa)
Gene SorterGenome BrowserOther Species FASTAGene interactionsTable SchemaBioGPS
CGAPEnsemblEntrez GeneExonPrimerGeneCardsGeneNetwork
H-INVHGNCHPRDLynxMGIneXtProt
OMIMPubMedReactomeStanford SOURCEUniProtKBWikipedia

-  Comments and Description Text from UniProtKB
  ID: STX10_HUMAN
DESCRIPTION: RecName: Full=Syntaxin-10; Short=Syn10;
FUNCTION: SNARE involved in vesicular transport from the late endosomes to the trans-Golgi network.
SUBUNIT: Interacts with VPS52.
SUBCELLULAR LOCATION: Golgi apparatus membrane; Single-pass type IV membrane protein (Potential).
TISSUE SPECIFICITY: Expressed at high levels in heart, skeletal muscle and pancreas.
SIMILARITY: Belongs to the syntaxin family.
SIMILARITY: Contains 1 t-SNARE coiled-coil homology domain.

-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene

+  Common Gene Haplotype Alleles
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-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 53.63 RPKM in Whole Blood
Total median expression: 1134.23 RPKM



View in GTEx track of Genome Browser    View at GTEx portal     View GTEx Body Map

+  Microarray Expression Data
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-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -95.30201-0.474 Picture PostScript Text
3' UTR -152.56352-0.433 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
IPR015260 - Syntaxin-6_N
IPR006012 - Syntaxin/epimorphin_CS
IPR010989 - t-SNARE
IPR000727 - T_SNARE_dom

Pfam Domains:
PF05739 - SNARE domain
PF09177 - Syntaxin 6, N-terminal

SCOP Domains:
47661 - t-snare proteins

Protein Data Bank (PDB) 3-D Structure
MuPIT help

4DND
- X-ray MuPIT


ModBase Predicted Comparative 3D Structure on O60499
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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 Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0005484 SNAP receptor activity
GO:0005515 protein binding
GO:0019905 syntaxin binding

Biological Process:
GO:0006886 intracellular protein transport
GO:0006906 vesicle fusion
GO:0015031 protein transport
GO:0016192 vesicle-mediated transport
GO:0032880 regulation of protein localization
GO:0042147 retrograde transport, endosome to Golgi
GO:0048193 Golgi vesicle transport
GO:0048278 vesicle docking
GO:0034498 early endosome to Golgi transport

Cellular Component:
GO:0000139 Golgi membrane
GO:0005794 Golgi apparatus
GO:0005802 trans-Golgi network
GO:0005829 cytosol
GO:0016020 membrane
GO:0016021 integral component of membrane
GO:0031201 SNARE complex
GO:0031982 vesicle
GO:0032588 trans-Golgi network membrane
GO:0048471 perinuclear region of cytoplasm


-  Descriptions from all associated GenBank mRNAs
  BC017237 - Homo sapiens syntaxin 10, mRNA (cDNA clone MGC:19625 IMAGE:4125873), complete cds.
BC095459 - Homo sapiens cDNA clone IMAGE:30559205.
AF035531 - Homo sapiens syntaxin 10 mRNA, complete cds.
AY778966 - Homo sapiens syntaxin 10 (STX10) mRNA, complete cds, alternatively spliced.
KJ904606 - Synthetic construct Homo sapiens clone ccsbBroadEn_14000 STX10 gene, encodes complete protein.
CR457110 - Homo sapiens full open reading frame cDNA clone RZPDo834F087D for gene STX10, syntaxin 10; complete cds, incl. stopcodon.
CU677875 - Synthetic construct Homo sapiens gateway clone IMAGE:100017575 5' read STX10 mRNA.

-  Biochemical and Signaling Pathways
  KEGG - Kyoto Encyclopedia of Genes and Genomes
hsa04130 - SNARE interactions in vesicular transport

Reactome (by CSHL, EBI, and GO)

Protein O60499 (Reactome details) participates in the following event(s):

R-HSA-6814678 ATP hydrolysis by NSF disassembles the cis-SNARE at the TGN
R-HSA-6814674 Tethering of late endosome-derived vesicles by GARP, STX10:ST16:VTI1A and Golgins
R-HSA-6814676 SNAPs and NSF hexamer bind cis-SNARE at the TGN
R-HSA-6811440 Retrograde transport at the Trans-Golgi-Network
R-HSA-6811442 Intra-Golgi and retrograde Golgi-to-ER traffic
R-HSA-199991 Membrane Trafficking
R-HSA-5653656 Vesicle-mediated transport

-  Other Names for This Gene
  Alternate Gene Symbols: A6NC41, NM_003765, NP_003756, O60499, Q6IAP4, Q96AE8, STX10_HUMAN, SYN10, uc021upq.1
UCSC ID: uc021upq.2
RefSeq Accession: NM_003765
Protein: O60499 (aka STX10_HUMAN or STXA_HUMAN)
CCDS: CCDS32922.1

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: NM_003765.2
exon count: 8CDS single in 3' UTR: no RNA size: 1320
ORF size: 750CDS single in intron: no Alignment % ID: 100.00
txCdsPredict score: 1610.00frame shift in genome: no % Coverage: 98.71
has start codon: yes stop codon in genome: no # of Alignments: 1
has end codon: yes retained intron: no # AT/AC introns 1
selenocysteine: no end bleed into intron: 0# strange splices: 0
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-  Methods, Credits, and Use Restrictions
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