Special

MmuEX0033800 @ mm9

Exon Skipping

Gene
ENSMUSG00000027168 | Pax6
Description
paired box gene 6 [Source:MGI Symbol;Acc:MGI:97490]
Coordinates
chr2:105532894-105537521:+
Coord C1 exon
chr2:105532894-105533009
Coord A exon
chr2:105535463-105535613
Coord C2 exon
chr2:105536427-105537521
Length
151 bp
Sequences
Splice sites
3' ss Seq
GCTTTTCTTTCTTCTGGCAGCCC
3' ss Score
8.94
5' ss Seq
CAGGTGAGC
5' ss Score
9.6
Exon sequences
Seq C1 exon
TCTCCTCCTTCACATCAGGTTCCATGTTGGGCCGAACAGACACCGCCCTCACCAACACGTACAGTGCTTTGCCACCCATGCCCAGCTTCACCATGGCAAACAACCTGCCTATGCAA
Seq A exon
CCCCCAGTCCCCAGTCAGACCTCCTCATACTCGTGCATGCTGCCCACCAGCCCGTCAGTGAATGGGCGGAGTTATGATACCTACACCCCTCCGCACATGCAAACACACATGAACAGTCAGCCCATGGGCACCTCGGGGACCACTTCAACAG
Seq C2 exon
GACTCATTTCACCTGGAGTGTCAGTTCCCGTCCAAGTTCCCGGGAGTGAACCTGACATGTCTCAGTACTGGCCTCGATTACAGTAAAGAGAGAAGGAGAGAGCATGTGATCGAGAGAGGAAATTGTGTTCACTCTGCCAATGACTATGTGGACACAGCAGTTGGGTATTCAGGAAAGAAAGAGAAATGGCGGTTAGAAGCACTTCACTTTGTAACTGTCCTGAACTGGAGCCCGGGAATGGACTAGAACCAAGGACCTTTGCGTACAGAAGGCACGGTATCAGTTGGAACAAATCTTCATTTTGGTATCCAAACTTTTATTCATTTTGGTGTATTATTTGTAAATGGGCATTGGTATGTTATAATGAAGAAAAGAACAACACAGGCTGTTGGATCGCGGATCTGTGTTGCTCATGTGGTTGTTTAAAGGAAACCATGATCGACAAGATTTGCCATGGATTTAAGAGTTTTATCAAGATATATCAAATACTTCTCCCCATC
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000027168-'40-41,'40-40,42-41
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact





	

	
Alternative protein isoforms (No Ref, Alt. Stop)





No structure available

		

			
Features


			

				
Disorder rate (disopred):
  C1=0.992 A=0.992 C2=0.836
 
                        

				
Domain overlap (PFAM):

					





						

							
C1:
NO

							
A:
NO

							
C2:
NO

						

					

				








    
Main Inclusion Isoform:
ENSMUSP00000087870





     
                   









    
Main Skipping Isoform:
ENSMUSP00000016435





     
      









    
Other Inclusion Isoforms:
ENSMUSP00000039112, ENSMUSP00000087878, ENSMUSP00000106711, ENSMUSP00000106712, ENSMUSP00000106713, ENSMUSP00000106714, ENSMUSP00000106715, ENSMUSP00000106716, ENSMUSP00000121345, ENSMUSP00000128301, ENSMUSP00000133346, ENSMUSP00000133872
          









    
Other Skipping Isoforms:
ENSMUSP00000106717
  



Associated events






Other assemblies


mm10




Conservation


Human
(hg38)
chr11:31790710-31790860 
HIGH PSI
HsaEX0045711
(PAX6)
Human
(hg19)
chr11:31812258-31812408 
HIGH PSI
HsaEX0045711
(PAX6)
Rat
(rn6)
chr3:95726732-95726882 
HIGH PSI
RnoEX0063602
(Pax6)
Cow
(bosTau6)
chr15:63357648-63357798 
HIGH PSI
BtaEX6060190
(PAX6)
Chicken
(galGal4)
chr5:5219658-5219808 
HIGH PSI
GgaEX0018235
(Pax-6)
Chicken
(galGal3)
chr5:5256571-5256721 
HIGH PSI
GgaEX0018235
(PAX6_CHICK)
Zebrafish
(danRer10)
chr25:14935057-14935198 
HIGH PSI
DreEX0053710
(pax6a)
Fruitfly
(dm6)
No conservation detected




Primers PCR

	

		

			
Suggestions for RT-PCR validation

			

				
F: 
CCAGCTTCACCATGGCAAACA

				
R: 
GTGAAGTGCTTCTAACCGCCA

				
Band lengths: 
242-393

			

		

	





	
Functional annotations
(Submit an annotation)

	


There are 1 annotated functions for this event 


PMID: 10329718
DreEX0053710
Partially encodes an experimentally validated Eukaryotic Linear Motif (ELM). Method: . ELM ID: ELMI001441; ELM sequence: GLISPGV; Overlap: PARTIAL_RIGHT


		










GENOMIC CONTEXT[edit]












INCLUSION PATTERN[edit]






SPECIAL DATASETS
  • Pre-implantation embryo development
  • Neural differentiation time course
  • Muscular differentiation time course
  • Spermatogenesis cell types
  • Reprogramming of fibroblasts to iPSCs
  • Hematopoietic precursors and cell types






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