Special

MmuEX0035466 @ mm9

Exon Skipping

Gene
ENSMUSG00000026991 | Pkp4
Description
plakophilin 4 [Source:MGI Symbol;Acc:MGI:109281]
Coordinates
chr2:59104445-59143254:+
Coord C1 exon
chr2:59104445-59104557
Coord A exon
chr2:59127275-59127309
Coord C2 exon
chr2:59143123-59143254
Length
35 bp
Sequences
Splice sites
3' ss Seq
TTTTTTCCTTTTTTCTCTAGCTC
3' ss Score
10.63
5' ss Seq
CAGGTATGG
5' ss Score
9.99
Exon sequences
Seq C1 exon
GAGCTTCAGTTTCAACGACTCACCCGAGAACTGGAAGTGGAAAGGCAGATTGTTGCCAGTCAGCTAGAAAGATGTAGGCTTGGAGCAGAATCGCCAAGCATCGCCAGCACCAG
Seq A exon
CTCAACTGAAAAGTCATTTCCTTGGAGATCAACAG
Seq C2 exon
ATGTGCCAAATCCTGGTGTGAGCAAACCTAGAGTTTCTGACACTATTCATCCCAACAACTATCTCATCAGGACAGAGCCAGAACAGGGGACCCTCTACTCACCAGAACAGACTTCTCTCCATGAAAGTGAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026991_MULTIEX1-4/4=3-C2
Average complexity
C1
Mappability confidence:
100%=100=100%
Protein Impact





	

	
ORF disruption upon sequence exclusion





No structure available

		

			
Features


			

				
Disorder rate (Iupred):
  C1=0.921 A=1.000 C2=1.000
 
                        

				
Domain overlap (PFAM):

					





						

							
C1:
NO

							
A:
NO

							
C2:
NO

						

					

				








    
Main Inclusion Isoform:
ENSMUSP00000099815





     
                   









    
Main Skipping Isoform:
NA





     
      









    
Other Inclusion Isoforms:
ENSMUSP00000042249, ENSMUSP00000099815f2035A, ENSMUSP00000099815f2036A, ENSMUSP00000122152, ENSMUSP00000129836, ENSMUSP00000131442
          









    
Other Skipping Isoforms:
NA
  



Associated events







Other assemblies


mm10




Conservation


Human
(hg38)
chr2:158603070-158603104 
HIGH PSI
HsaEX0047800
(PKP4)
Human
(hg19)
chr2:159459582-159459616 
HIGH PSI
HsaEX0047800
(PK4P)
Rat
(rn6)
chr3:45349289-45349323 
HIGH PSI
RnoEX0066479
(Pkp4)
Cow
(bosTau6)
chr2:37905212-37905246 
Chicken
(galGal4)
chr7:35905539-35905573 
ALTERNATIVE
GgaEX0018987
(PKP4)
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
chr6:12021650-12021684 
HIGH PSI
DreEX0055927
(pkp4)
Fruitfly
(dm6)
No conservation detected




Primers PCR

	

		

			
Suggestions for RT-PCR validation

			

				
F: 
ACCCGAGAACTGGAAGTGGAA

				
R: 
TCTAGGTTTGCTCACACCAGGA

				
Band lengths: 
124-159

			

		

	





	
Functional annotations
(Submit an annotation)

	


There are 0 annotated functions for this event 


		










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






Retrieved from "https://vastdb.crg.eu/wiki/Special:VastDB"