Human Gene TSNARE1 (ENST00000524325.6_13) from GENCODE V47lift37
  Description: t-SNARE domain containing 1, transcript variant 1 (from RefSeq NM_145003.5)
Gencode Transcript: ENST00000524325.6_13
Gencode Gene: ENSG00000171045.16_19
Transcript (Including UTRs)
   Position: hg19 chr8:143,293,441-143,484,543 Size: 191,103 Total Exon Count: 14 Strand: -
Coding Region
   Position: hg19 chr8:143,310,845-143,436,085 Size: 125,241 Coding Exon Count: 12 

Page IndexSequence and LinksUniProtKB CommentsPrimersCTDGene Alleles
RNA-Seq ExpressionRNA StructureProtein StructureOther SpeciesGO AnnotationsmRNA Descriptions
Other NamesModel InformationMethods
Data last updated at UCSC: 2024-08-22 23:36:26

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr8:143,293,441-143,484,543)mRNA (may differ from genome)Protein (513 aa)
Gene SorterGenome BrowserOther Species FASTAGene interactionsTable SchemaAlphaFold
BioGPSEnsemblEntrez GeneExonPrimerGeneCardsHGNC
MGIPubMedUniProtKBBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: TSNA1_HUMAN
DESCRIPTION: RecName: Full=t-SNARE domain-containing protein 1;
SUBCELLULAR LOCATION: Membrane; Single-pass membrane protein (By similarity).
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: 10.44 RPKM in Skin - Not Sun Exposed (Suprapubic)
Total median expression: 248.44 RPKM



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

-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -43.50118-0.369 Picture PostScript Text
3' UTR -94.50245-0.386 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
IPR010989 - t-SNARE
IPR000727 - T_SNARE_dom

Pfam Domains:
PF05739 - SNARE domain
PF13873 - Myb/SANT-like DNA-binding domain
PF14523 - Syntaxin-like protein

SCOP Domains:
47661 - t-snare proteins
58038 - SNARE fusion complex
58104 - Methyl-accepting chemotaxis protein (MCP) signaling domain

ModBase Predicted Comparative 3D Structure on Q96NA8
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 Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0000149 SNARE binding
GO:0005484 SNAP receptor activity

Biological Process:
GO:0006886 intracellular protein transport
GO:0006906 vesicle fusion
GO:0016192 vesicle-mediated transport
GO:0048278 vesicle docking

Cellular Component:
GO:0012505 endomembrane system
GO:0016020 membrane
GO:0016021 integral component of membrane
GO:0031201 SNARE complex


-  Descriptions from all associated GenBank mRNAs
  KJ895811 - Synthetic construct Homo sapiens clone ccsbBroadEn_05205 TSNARE1 gene, encodes complete protein.
KJ904003 - Synthetic construct Homo sapiens clone ccsbBroadEn_13397 TSNARE1 gene, encodes complete protein.
AK055726 - Homo sapiens cDNA FLJ31164 fis, clone KIDNE1000104, weakly similar to SYNTAXIN 7.
BC113556 - Homo sapiens t-SNARE domain containing 1, mRNA (cDNA clone MGC:142116 IMAGE:8322608), complete cds.
BC126343 - Homo sapiens t-SNARE domain containing 1, mRNA (cDNA clone MGC:161621 IMAGE:8992059), complete cds.
BC143684 - Homo sapiens t-SNARE domain containing 1, mRNA (cDNA clone MGC:177215 IMAGE:9052198), complete cds.
BC143686 - Homo sapiens t-SNARE domain containing 1, mRNA (cDNA clone MGC:177217 IMAGE:9052200), complete cds.
HQ258458 - Synthetic construct Homo sapiens clone IMAGE:100072887 t-SNARE domain containing 1 (TSNARE1) gene, encodes complete protein.
BC065226 - Homo sapiens t-SNARE domain containing 1, mRNA (cDNA clone IMAGE:5768818), partial cds.
JD273188 - Sequence 254212 from Patent EP1572962.
JD355083 - Sequence 336107 from Patent EP1572962.
JD541611 - Sequence 522635 from Patent EP1572962.
JD234917 - Sequence 215941 from Patent EP1572962.
JD401091 - Sequence 382115 from Patent EP1572962.
JD233231 - Sequence 214255 from Patent EP1572962.
JD371973 - Sequence 352997 from Patent EP1572962.
JD198912 - Sequence 179936 from Patent EP1572962.
JD129803 - Sequence 110827 from Patent EP1572962.
JD496696 - Sequence 477720 from Patent EP1572962.
JD075629 - Sequence 56653 from Patent EP1572962.

-  Other Names for This Gene
  Alternate Gene Symbols: B7ZLB0, ENST00000524325.1, ENST00000524325.2, ENST00000524325.3, ENST00000524325.4, ENST00000524325.5, NM_145003, Q14D03, Q96NA8, TSNA1_HUMAN, uc323zbr.1, uc323zbr.2
UCSC ID: ENST00000524325.6_13
RefSeq Accession: NM_145003.5
Protein: Q96NA8 (aka TSNA1_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.