Mouse Gene Syngr3 (ENSMUST00000007236.4) from GENCODE VM23 Comprehensive Transcript Set (only Basic displayed by default)
  Description: Mus musculus synaptogyrin 3 (Syngr3), mRNA. (from RefSeq NM_011522)
Gencode Transcript: ENSMUST00000007236.4
Gencode Gene: ENSMUSG00000007021.5
Transcript (Including UTRs)
   Position: mm10 chr17:24,685,092-24,689,955 Size: 4,864 Total Exon Count: 4 Strand: -
Coding Region
   Position: mm10 chr17:24,686,231-24,689,819 Size: 3,589 Coding Exon Count: 4 

Page IndexSequence and LinksUniProtKB CommentsPrimersCTDRNA Structure
Protein StructureOther SpeciesGO AnnotationsmRNA DescriptionsOther NamesModel Information
Methods
Data last updated at UCSC: 2019-09-19

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr17:24,685,092-24,689,955)mRNA (may differ from genome)Protein (229 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneTable SchemaAlphaFold
BioGPSEnsemblEntrez GeneExonPrimerGeneCardsMGI
PubMedSOURCEUniProtKBWikipedia

-  Comments and Description Text from UniProtKB
  ID: SNG3_MOUSE
DESCRIPTION: RecName: Full=Synaptogyrin-3;
FUNCTION: Involved in the positive regulation of dopamine transporter activity. Probably facilitates the physical and functional interactions of the transporter with the dopamine vesicular storage system, allowing a more efficient loading of the vesicles with extracellular dopamine after release.
SUBUNIT: Interacts (via N-terminus) with SLC6A3 (via N-terminus).
SUBCELLULAR LOCATION: Membrane; Multi-pass membrane protein. Cytoplasmic vesicle, secretory vesicle, synaptic vesicle. Cell junction, synapse. Note=Found at the neuromuscular synapses.
TISSUE SPECIFICITY: Found in the brain across the dorsal and ventral corpus striatum as well as in the cortex.
SIMILARITY: Belongs to the synaptogyrin family.
SIMILARITY: Contains 1 MARVEL domain.

-  Primer design for this transcript
 

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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

-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -52.80136-0.388 Picture PostScript Text
3' UTR -392.601139-0.345 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
IPR008253 - Marvel
IPR021128 - MARVEL-like_dom
IPR016579 - Synaptogyrin

Pfam Domains:
PF01284 - Membrane-associating domain

ModBase Predicted Comparative 3D Structure on Q8R191
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.
HumanRatZebrafishD. melanogasterC. elegansS. cerevisiae
Genome BrowserGenome BrowserNo orthologNo orthologGenome BrowserNo ortholog
Gene Details     
Gene Sorter     
GenBankRGDEnsembl WormBase 
Protein SequenceProtein Sequence  Protein Sequence 
AlignmentAlignment  Alignment 

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0005515 protein binding
GO:0042169 SH2 domain binding
GO:0047485 protein N-terminus binding

Biological Process:
GO:0032411 positive regulation of transporter activity
GO:0045055 regulated exocytosis

Cellular Component:
GO:0008021 synaptic vesicle
GO:0016020 membrane
GO:0016021 integral component of membrane
GO:0030054 cell junction
GO:0030672 synaptic vesicle membrane
GO:0031410 cytoplasmic vesicle
GO:0031594 neuromuscular junction
GO:0045202 synapse


-  Descriptions from all associated GenBank mRNAs
  LF200942 - JP 2014500723-A/8445: Polycomb-Associated Non-Coding RNAs.
BC025022 - Mus musculus synaptogyrin 3, mRNA (cDNA clone MGC:36037 IMAGE:5369651), complete cds.
AK048753 - Mus musculus 0 day neonate cerebellum cDNA, RIKEN full-length enriched library, clone:C230045P09 product:synaptogyrin 3, full insert sequence.
AK082167 - Mus musculus 0 day neonate cerebellum cDNA, RIKEN full-length enriched library, clone:C230016J23 product:synaptogyrin 3, full insert sequence.
AK080129 - Mus musculus adult male aorta and vein cDNA, RIKEN full-length enriched library, clone:A530065M24 product:synaptogyrin 3, full insert sequence.
AK087538 - Mus musculus 0 day neonate eyeball cDNA, RIKEN full-length enriched library, clone:E130315K17 product:synaptogyrin 3, full insert sequence.
AK081164 - Mus musculus 10 days neonate cerebellum cDNA, RIKEN full-length enriched library, clone:B930094O21 product:synaptogyrin 3, full insert sequence.
LF250767 - JP 2014500723-A/58270: Polycomb-Associated Non-Coding RNAs.
AF117207 - Mus musculus synaptogyrin 3 mRNA, complete cds.
LF250768 - JP 2014500723-A/58271: Polycomb-Associated Non-Coding RNAs.
LF250769 - JP 2014500723-A/58272: Polycomb-Associated Non-Coding RNAs.
MA436519 - JP 2018138019-A/8445: Polycomb-Associated Non-Coding RNAs.
MA486344 - JP 2018138019-A/58270: Polycomb-Associated Non-Coding RNAs.
MA486345 - JP 2018138019-A/58271: Polycomb-Associated Non-Coding RNAs.
MA486346 - JP 2018138019-A/58272: Polycomb-Associated Non-Coding RNAs.

-  Other Names for This Gene
  Alternate Gene Symbols: NM_011522, Q8R191, Q9WVG8, SNG3_MOUSE, uc008axq.1, uc008axq.2
UCSC ID: uc008axq.2
RefSeq Accession: NM_011522
Protein: Q8R191 (aka SNG3_MOUSE)
CCDS: CCDS28491.1

-  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.