Mouse Gene Prrxl1 (ENSMUST00000189022.7) from GENCODE VM23 Comprehensive Transcript Set (only Basic displayed by default)
  Description: Mus musculus paired related homeobox protein-like 1 (Prrxl1), transcript variant 1, mRNA. (from RefSeq NM_001347590)
Gencode Transcript: ENSMUST00000189022.7
Gencode Gene: ENSMUSG00000041730.14
Transcript (Including UTRs)
   Position: mm10 chr14:32,599,408-32,630,969 Size: 31,562 Total Exon Count: 7 Strand: +
Coding Region
   Position: mm10 chr14:32,600,031-32,629,000 Size: 28,970 Coding Exon Count: 6 

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Other SpeciesGO AnnotationsmRNA DescriptionsOther NamesModel InformationMethods
Data last updated at UCSC: 2019-09-20

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr14:32,599,408-32,630,969)mRNA (may differ from genome)Protein (263 aa)
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-  Comments and Description Text from UniProtKB
  ID: DRGX_MOUSE
DESCRIPTION: RecName: Full=Dorsal root ganglia homeobox protein; AltName: Full=Dorsal root ganglion 11; AltName: Full=Homeobox protein DRG11; AltName: Full=Paired-related homeobox protein-like 1;
FUNCTION: Transcription factor required for the formation of correct projections from nociceptive sensory neurons to the dorsal horn of the spinal cord and normal perception of pain.
SUBUNIT: Interacts with RGMB.
SUBCELLULAR LOCATION: Nucleus (By similarity).
TISSUE SPECIFICITY: Expressed in the dorsal horn of the spinal cord and dorsal root ganglia. Isoform 1 is higher expressed than isoform 2 both in the dorsal root ganglia and in the spinal cord. Isoform 2 is exclusively localized in neurons primarily involved in the processing of the pain somatosensory modality.
DEVELOPMENTAL STAGE: First detected at E12.5 in newly generated neurons adjacent to the ventricular zone of the dorsal spinal cord. Later expressed in lateral region of the dorsal spinal cord and dorsal root ganglia at E13.5 with increased levels at E15.5.
DISRUPTION PHENOTYPE: Defects in the projection pattern of nociceptive sensory neurons to the dorsal horn of the developing spinal cord leading to reduced sensitivity to painful stimuli. They die within 3 weeks of birth. Mice lacking Drgx exhibit reduced expression of Rgmb in dorsal root ganglion sensory neurons.
SIMILARITY: Belongs to the paired homeobox family.
SIMILARITY: Contains 1 homeobox DNA-binding 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


-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -87.50224-0.391 Picture PostScript Text
3' UTR -600.001969-0.305 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
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-  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
No orthologGenome BrowserNo orthologNo orthologNo orthologNo ortholog
Gene Details     
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+  Gene Ontology (GO) Annotations with Structured Vocabulary
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-  Descriptions from all associated GenBank mRNAs
  EU670678 - Mus musculus paired related homeobox protein-like 1b (Prrxl1) mRNA, complete cds, alternatively spliced.
AK039633 - Mus musculus adult male spinal cord cDNA, RIKEN full-length enriched library, clone:A330076B20 product:HOMEOBOX PROTEIN DRG11 homolog [Rattus norvegicus], full insert sequence.
BC132613 - Mus musculus paired related homeobox protein-like 1, mRNA (cDNA clone MGC:164244 IMAGE:40130890), complete cds.
BC145917 - Mus musculus paired related homeobox protein-like 1, mRNA (cDNA clone MGC:175804 IMAGE:40131220), complete cds.
BC171926 - Mus musculus paired related homeobox protein-like 1, mRNA (cDNA clone MGC:178921 IMAGE:9053913), complete cds.
EU670677 - Mus musculus paired related homeobox protein-like 1 (Prrxl1) mRNA, complete cds, alternatively spliced.
AY116506 - Mus musculus transcription factor DRG11 mRNA, partial cds.

+  Other Names for This Gene
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+  Gene Model Information
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-  Methods, Credits, and Use Restrictions
  Click here for details on how this gene model was made and data restrictions if any.