Special

MmuEX0035464 @ mm9

Exon Skipping

Gene
ENSMUSG00000026991 | Pkp4
Description
plakophilin 4 [Source:MGI Symbol;Acc:MGI:109281]
Coordinates
chr2:59052735-59104557:+
Coord C1 exon
chr2:59052735-59052871
Coord A exon
chr2:59052991-59053087
Coord C2 exon
chr2:59104445-59104557
Length
97 bp
Sequences
Splice sites
3' ss Seq
TCACGTTTTCTAATTATAAGGTG
3' ss Score
5.44
5' ss Seq
CAAGTAAGG
5' ss Score
7.66
Exon sequences
Seq C1 exon
GAGGAATGCCCGCCCCTGAACAGGGCTCACTGGTGGAGGAGGGGCAACCACAGACCCACCAGGAAGCTGTCTCCACTGGCCCAGGCATGGAACCCGAGACCACAGCCACCACTATTCTAGCTTCCGTGAAGGAGCAG
Seq A exon
GTGTTTACATCCCTGAGTACATTGGGATGACTGGCATGGAGAGCTGCTCCAGCTGCCAGTCAGAGCCGGAACATGCAGGATACTTGTGCGTCTGCAA
Seq C2 exon
GAGCTTCAGTTTCAACGACTCACCCGAGAACTGGAAGTGGAAAGGCAGATTGTTGCCAGTCAGCTAGAAAGATGTAGGCTTGGAGCAGAATCGCCAAGCATCGCCAGCACCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026991_MULTIEX1-2/4=1-3
Average complexity
C1
Mappability confidence:
100%=100=100%
Protein Impact





	

	
5' UTR





No structure available

		

			
Features


			

				
Disorder rate (Iupred):
  C1=0.997 A=0.444 C2=0.921
 
                        

				
Domain overlap (PFAM):

					





						

							
C1:
NO

							
A:
NO

							
C2:
NO

						

					

				








    
Main Inclusion Isoform:
ENSMUSP00000099815f5853A





     
                   









    
Main Skipping Isoform:
ENSMUSP00000099815





     
      









    
Other Inclusion Isoforms:
NA
          









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



Associated events







Other assemblies


mm10




Conservation


Human
(hg38)
chr2:158533438-158533534 
ALTERNATIVE
HsaEX0047804
(PKP4)
Human
(hg19)
chr2:159389950-159390046 
ALTERNATIVE
HsaEX0047804
(PK4P)
Rat
(rn6)
chr3:45277602-45277698 
ALTERNATIVE
RnoEX0066487
(Pkp4)
Cow
(bosTau6)
chr2:37929345-37929441 
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected




Primers PCR

	

		

			
Suggestions for RT-PCR validation

			

				
F: 
ACCAGGAAGCTGTCTCCACTG

				
R: 
GCGATTCTGCTCCAAGCCTAC

				
Band lengths: 
174-271

			

		

	





	
Functional annotations
(Submit an annotation)

	


There are 1 annotated functions for this event 


PMID: 31911676
HsaEX0047804
[CRISPR screen]. Conserved poison exon with pro-oncogenic impact when depleted: HeLa Enriched at 14 days (FC=1.258, FDR=0.000), PC9 No Change at 14 days (FC=1.248, FDR=0.033), Late Xenograft No change (FC=1.363, FDR=0.273).


		










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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