Mouse Gene Snx20 (ENSMUST00000034087.8) from GENCODE VM23 Comprehensive Transcript Set (only Basic displayed by default)
  Description: Mus musculus sorting nexin 20 (Snx20), mRNA. (from RefSeq NM_027840)
Gencode Transcript: ENSMUST00000034087.8
Gencode Gene: ENSMUSG00000031662.8
Transcript (Including UTRs)
   Position: mm10 chr8:88,626,563-88,636,128 Size: 9,566 Total Exon Count: 4 Strand: -
Coding Region
   Position: mm10 chr8:88,627,159-88,631,889 Size: 4,731 Coding Exon Count: 3 

Page IndexSequence and LinksPrimersCTDRNA StructureOther Species
mRNA DescriptionsOther NamesModel InformationMethods
Data last updated at UCSC: 2019-09-20

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr8:88,626,563-88,636,128)mRNA (may differ from genome)Protein (313 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneTable SchemaAlphaFold
BioGPSEnsemblEntrez GeneExonPrimerGeneCardsPubMed
SOURCEUniProtKB

-  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

-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -41.00161-0.255 Picture PostScript Text
3' UTR -173.20596-0.291 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.

-  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 orthologNo orthologNo ortholog
Gene Details     
Gene Sorter     
GenBankRGDEnsembl   
Protein SequenceProtein Sequence    
AlignmentAlignment    

-  Descriptions from all associated GenBank mRNAs
  LF197122 - JP 2014500723-A/4625: Polycomb-Associated Non-Coding RNAs.
AK157884 - Mus musculus adult inner ear cDNA, RIKEN full-length enriched library, clone:F930003L11 product:Sorting nexin 20, full insert sequence.
AK042068 - Mus musculus 3 days neonate thymus cDNA, RIKEN full-length enriched library, clone:A630055K15 product:9130017C17RIK PROTEIN (SNX20) homolog [Mus musculus], full insert sequence.
BC039809 - Mus musculus sorting nexin 20, mRNA (cDNA clone MGC:48241 IMAGE:2938247), complete cds.
AK157032 - Mus musculus activated spleen cDNA, RIKEN full-length enriched library, clone:F830113J12 product:Sorting nexin 20, full insert sequence.
AK018632 - Mus musculus adult male cecum cDNA, RIKEN full-length enriched library, clone:9130017C17 product:hypothetical PX (Bem1/NCF1/PI3K) domain containing protein, full insert sequence.
LF301549 - JP 2014500723-A/109052: Polycomb-Associated Non-Coding RNAs.
AF395844 - Mus musculus SNX20 (Snx20) mRNA, complete cds.
AK170109 - Mus musculus NOD-derived CD11c +ve dendritic cells cDNA, RIKEN full-length enriched library, clone:F630017K13 product:hypothetical protein, full insert sequence.
MA432699 - JP 2018138019-A/4625: Polycomb-Associated Non-Coding RNAs.
MA537126 - JP 2018138019-A/109052: Polycomb-Associated Non-Coding RNAs.

-  Other Names for This Gene
  Alternate Gene Symbols: A0A0R4J0D0, NM_027840, uc009mrp.1, uc009mrp.2
UCSC ID: uc009mrp.2
RefSeq Accession: NM_027840
CCDS: CCDS22512.1

-  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.