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Set-Cookie: hguid.genome-euro=432627255_OzK6GUU4raKlKHvCyVOoybobSYQM; path=/; domain=.ucsc.edu; expires=Thu, 31-Dec-2037 23:59:59 GMT Content-Type:text/html Mouse Gene Pax5 (ENSMUST00000014174.13) from GENCODE VM23 Comprehensive Transcript Set (only Basic displayed by default)
Mouse Gene Pax5 (ENSMUST00000014174.13) from GENCODE VM23 Comprehensive Transcript Set (only Basic displayed by default)
  Description: Mus musculus paired box 5 (Pax5), mRNA. (from RefSeq NM_008782)
Gencode Transcript: ENSMUST00000014174.13
Gencode Gene: ENSMUSG00000014030.15
Transcript (Including UTRs)
   Position: mm10 chr4:44,524,757-44,710,487 Size: 185,731 Total Exon Count: 10 Strand: -
Coding Region
   Position: mm10 chr4:44,531,506-44,710,408 Size: 178,903 Coding Exon Count: 10 

Page IndexSequence and LinksUniProtKB CommentsPrimersCTDRNA Structure
Protein StructureOther SpeciesGO AnnotationsmRNA DescriptionsPathwaysOther Names
Model InformationMethods
Data last updated at UCSC: 2019-09-20

+  Sequence and Links to Tools and Databases
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+  Comments and Description Text from UniProtKB
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-  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)
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-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -9.3079-0.118 Picture PostScript Text
3' UTR -2199.206749-0.326 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
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+  Gene Ontology (GO) Annotations with Structured Vocabulary
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-  Descriptions from all associated GenBank mRNAs
  M97013 - Mouse B-cell specific transcription factor (Pax-5) mRNA, complete cds.
BC156134 - Synthetic construct Mus musculus clone IMAGE:100062425, MGC:190876 paired box gene 5 (Pax5) mRNA, encodes complete protein.
BC157081 - Synthetic construct Mus musculus clone IMAGE:100063396, MGC:191076 paired box gene 5 (Pax5) mRNA, encodes complete protein.
JX065130 - Mus musculus Pax5 variant 1 mRNA, partial cds.
JX065132 - Mus musculus Pax5-like (Pax5) mRNA, complete sequence.
AK040987 - Mus musculus adult male aorta and vein cDNA, RIKEN full-length enriched library, clone:A530055P18 product:unclassifiable, full insert sequence.
AK144818 - Mus musculus lung RCB-0558 LLC cDNA, RIKEN full-length enriched library, clone:G730037P22 product:unclassifiable, full insert sequence.
JX065131 - Mus musculus Pax5 variant 2 mRNA, partial cds.

-  Biochemical and Signaling Pathways
  Reactome (by CSHL, EBI, and GO)

Protein Q02650 (Reactome details) participates in the following event(s):

R-MMU-8938951 RUNX1 binds PAX5 (BSAP)
R-MMU-8939245 RUNX1 regulates transcription of genes involved in BCR signaling
R-MMU-8878171 Transcriptional regulation by RUNX1
R-MMU-212436 Generic Transcription Pathway
R-MMU-73857 RNA Polymerase II Transcription
R-MMU-74160 Gene expression (Transcription)

-  Other Names for This Gene
  Alternate Gene Symbols: NM_008782, Pax-5, PAX5_MOUSE, Q02650, uc008srx.1, uc008srx.2
UCSC ID: uc008srx.2
RefSeq Accession: NM_008782
Protein: Q02650 (aka PAX5_MOUSE)
CCDS: CCDS18125.1

+  Gene Model Information
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+  Methods, Credits, and Use Restrictions
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