Human Gene STX1A (ENST00000222812.8_7) from GENCODE V47lift37
  Description: syntaxin 1A, transcript variant 1 (from RefSeq NM_004603.4)
Gencode Transcript: ENST00000222812.8_7
Gencode Gene: ENSG00000106089.12_9
Transcript (Including UTRs)
   Position: hg19 chr7:73,113,540-73,133,999 Size: 20,460 Total Exon Count: 10 Strand: -
Coding Region
   Position: hg19 chr7:73,114,737-73,133,961 Size: 19,225 Coding Exon Count: 10 

Page IndexSequence and LinksUniProtKB CommentsPrimersMalaCardsCTD
Gene AllelesRNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther Species
GO AnnotationsmRNA DescriptionsPathwaysOther NamesModel InformationMethods
Data last updated at UCSC: 2024-08-22 23:36:26

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr7:73,113,540-73,133,999)mRNA (may differ from genome)Protein (288 aa)
Gene SorterGenome BrowserOther Species FASTAGene interactionsTable SchemaAlphaFold
BioGPSEnsemblEntrez GeneExonPrimerGeneCardsHGNC
MalacardsMGIOMIMPubMedUniProtKBWikipedia
BioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: Q75ME0_HUMAN
DESCRIPTION: SubName: Full=Putative uncharacterized protein STX1A; SubName: Full=STX1A protein; SubName: Full=Syntaxin 1A (Brain), isoform CRA_e; SubName: Full=cDNA, FLJ94630, Homo sapiens syntaxin 1A (brain) (STX1A), mRNA;
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


-  MalaCards Disease Associations
  MalaCards Gene Search: STX1A
Diseases sorted by gene-association score: cystic fibrosis* (15), osteogenesis imperfecta, type xv (11), benign familial neonatal epilepsy (6), acute diarrhea (6), williams-beuren syndrome (3), attention deficit-hyperactivity disorder (1)
* = Manually curated disease association

-  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: 89.65 RPKM in Brain - Cortex
Total median expression: 597.32 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 -12.7038-0.334 Picture PostScript Text
3' UTR -511.301197-0.427 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
IPR015709 - Syntaxin-1
IPR006012 - Syntaxin/epimorphin_CS
IPR006011 - Syntaxin_N
IPR010989 - t-SNARE
IPR000727 - T_SNARE_dom

Pfam Domains:
PF00804 - Syntaxin
PF05739 - SNARE domain
PF14523 - Syntaxin-like protein

SCOP Domains:
47144 - HSC20 (HSCB), C-terminal oligomerisation domain
158414 - HP0062-like
47661 - t-snare proteins
58038 - SNARE fusion complex
58104 - Methyl-accepting chemotaxis protein (MCP) signaling domain

ModBase Predicted Comparative 3D Structure on Q75ME0
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 orthologGenome BrowserGenome Browser
Gene DetailsGene Details  Gene DetailsGene Details
Gene SorterGene Sorter  Gene SorterGene Sorter
 RGD  WormBaseSGD
    Protein SequenceProtein Sequence
    AlignmentAlignment

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0000149 SNARE binding
GO:0005484 SNAP receptor activity
GO:0017022 myosin binding
GO:0019855 calcium channel inhibitor activity
GO:0019904 protein domain specific binding
GO:0030674 protein binding, bridging
GO:0032028 myosin head/neck binding
GO:0043008 ATP-dependent protein binding
GO:0044325 ion channel binding
GO:0046982 protein heterodimerization activity
GO:0047485 protein N-terminus binding
GO:0048306 calcium-dependent protein binding

Biological Process:
GO:0001956 positive regulation of neurotransmitter secretion
GO:0006886 intracellular protein transport
GO:0009629 response to gravity
GO:0010701 positive regulation of norepinephrine secretion
GO:0010807 regulation of synaptic vesicle priming
GO:0016081 synaptic vesicle docking
GO:0016192 vesicle-mediated transport
GO:0017156 calcium ion regulated exocytosis
GO:0017157 regulation of exocytosis
GO:0031629 synaptic vesicle fusion to presynaptic active zone membrane
GO:0033605 positive regulation of catecholamine secretion
GO:0035493 SNARE complex assembly
GO:0045921 positive regulation of exocytosis
GO:0045956 positive regulation of calcium ion-dependent exocytosis
GO:0072657 protein localization to membrane
GO:0098815 modulation of excitatory postsynaptic potential
GO:2000463 positive regulation of excitatory postsynaptic potential

Cellular Component:
GO:0005886 plasma membrane
GO:0005887 integral component of plasma membrane
GO:0008021 synaptic vesicle
GO:0008076 voltage-gated potassium channel complex
GO:0014069 postsynaptic density
GO:0016020 membrane
GO:0016021 integral component of membrane
GO:0030141 secretory granule
GO:0030424 axon
GO:0030672 synaptic vesicle membrane
GO:0031965 nuclear membrane
GO:0032991 macromolecular complex
GO:0042641 actomyosin
GO:0042734 presynaptic membrane
GO:0043005 neuron projection
GO:0043229 intracellular organelle
GO:0048787 presynaptic active zone membrane
GO:0070032 synaptobrevin 2-SNAP-25-syntaxin-1a-complexin I complex
GO:0070033 synaptobrevin 2-SNAP-25-syntaxin-1a-complexin II complex
GO:0070044 synaptobrevin 2-SNAP-25-syntaxin-1a complex


-  Descriptions from all associated GenBank mRNAs
  D37932 - Homo sapiens mRNA for HPC-1, partial cds.
L37792 - Homo sapiens syntaxin 1A mRNA, complete cds.
BC064644 - Homo sapiens syntaxin 1A (brain), mRNA (cDNA clone MGC:70785 IMAGE:5769528), complete cds.
BC000444 - Homo sapiens syntaxin 1A (brain), mRNA (cDNA clone IMAGE:2820851), partial cds.
BC003011 - Homo sapiens syntaxin 1A (brain), mRNA (cDNA clone MGC:4038 IMAGE:2820851), complete cds.
U12918 - Human syntaxin mRNA, complete cds.
JD127129 - Sequence 108153 from Patent EP1572962.
JD282540 - Sequence 263564 from Patent EP1572962.
JD416911 - Sequence 397935 from Patent EP1572962.
JD411646 - Sequence 392670 from Patent EP1572962.
JD271189 - Sequence 252213 from Patent EP1572962.
JD376269 - Sequence 357293 from Patent EP1572962.
JD193808 - Sequence 174832 from Patent EP1572962.
JD337333 - Sequence 318357 from Patent EP1572962.
JD371164 - Sequence 352188 from Patent EP1572962.
JD245187 - Sequence 226211 from Patent EP1572962.
JD466816 - Sequence 447840 from Patent EP1572962.
JD079404 - Sequence 60428 from Patent EP1572962.
JD247571 - Sequence 228595 from Patent EP1572962.
AK299959 - Homo sapiens cDNA FLJ58938 complete cds, moderately similar to Syntaxin-1A.
JD317454 - Sequence 298478 from Patent EP1572962.
JD488917 - Sequence 469941 from Patent EP1572962.
JD433113 - Sequence 414137 from Patent EP1572962.
JD498617 - Sequence 479641 from Patent EP1572962.
JD220593 - Sequence 201617 from Patent EP1572962.
JD371740 - Sequence 352764 from Patent EP1572962.
JD098348 - Sequence 79372 from Patent EP1572962.
JD481145 - Sequence 462169 from Patent EP1572962.
JD043830 - Sequence 24854 from Patent EP1572962.
JD407996 - Sequence 389020 from Patent EP1572962.
JD280401 - Sequence 261425 from Patent EP1572962.
JD196368 - Sequence 177392 from Patent EP1572962.
JD397935 - Sequence 378959 from Patent EP1572962.
JD210295 - Sequence 191319 from Patent EP1572962.
JD152666 - Sequence 133690 from Patent EP1572962.
JD156861 - Sequence 137885 from Patent EP1572962.
JD059968 - Sequence 40992 from Patent EP1572962.
JD360682 - Sequence 341706 from Patent EP1572962.
JD379379 - Sequence 360403 from Patent EP1572962.
GQ129291 - Synthetic construct Homo sapiens clone HAIB:100068675; DKFZo004D0136 syntaxin 1A (brain) protein (STX1A) gene, partial cds.
GQ129292 - Synthetic construct Homo sapiens clone HAIB:100068578; DKFZo008D0135 syntaxin 1A (brain) protein (STX1A) gene, complete cds.
AK313980 - Homo sapiens cDNA, FLJ94630, Homo sapiens syntaxin 1A (brain) (STX1A), mRNA.
KJ897619 - Synthetic construct Homo sapiens clone ccsbBroadEn_07013 STX1A gene, encodes complete protein.
KJ534952 - Homo sapiens clone STX1A_iso-A_adult-A01 syntaxin 1A isoform A (STX1A) mRNA, partial cds, alternatively spliced.
KJ534980 - Homo sapiens clone STX1A_iso-B_fetal-F01 syntaxin 1A isoform B (STX1A) mRNA, partial cds, alternatively spliced.
AB464271 - Synthetic construct DNA, clone: pF1KB5463, Homo sapiens STX1A gene for syntaxin 1A, without stop codon, in Flexi system.
CR457018 - Homo sapiens full open reading frame cDNA clone RZPDo834H065D for gene STX1A, syntaxin 1A (brain); complete cds, incl. stopcodon.
AB086954 - Homo sapiens stx1c mRNA for syntaxin 1C, complete cds.

-  Biochemical and Signaling Pathways
  BioCarta from NCI Cancer Genome Anatomy Project
h_botulinPathway - Blockade of Neurotransmitter Relase by Botulinum Toxin

-  Other Names for This Gene
  Alternate Gene Symbols: ENST00000222812.1, ENST00000222812.2, ENST00000222812.3, ENST00000222812.4, ENST00000222812.5, ENST00000222812.6, ENST00000222812.7, hCG_96107 , NM_004603, Q75ME0, Q75ME0_HUMAN, STX1A , uc317dfx.1, uc317dfx.2
UCSC ID: ENST00000222812.8_7
RefSeq Accession: NM_004603.4
Protein: Q75ME0

-  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.