Special

MmuALTA0013387-3/3 @ mm9

Alternative 3'ss

Gene
ENSMUSG00000026991 | Pkp4
Description
plakophilin 4 [Source:MGI Symbol;Acc:MGI:109281]
Coordinates
chr2:59143362-59146294:+
Coord C1 exon
chr2:59143362-59143549
Coord A exon
chr2:59146065-59146146
Coord C2 exon
chr2:59146147-59146294
Length
82 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGT
5' ss Score
10.86
3' ss Seq
TTTTCTCCCCCTCTCATCAGCCA
3' ss Score
8.31
Exon sequences
Seq C1 exon
GATCGTTGGGAAACTCAAGAAGTTCAACACAGATGAATTCTTACTCTGACAGTGGGTACCAGGAAGCAGGGAGTTTCCACAACAGCCAAACCGTGAACAAGGCAGACAGCAGACAGCATCCATTCACAGGATCAACAAGTAACCATGTGGTGAGGACTTCAAGAGCTGAAGGACAAACACTGGTTCAG
Seq A exon
CCATCAGTAGCCAATCGGGCCATGCGGAGAGTTAGTTCAGTTCCATCTAGAGCACAGTCTCCTTCTTATGTTACCAGCACAG
Seq C2 exon
GCGTGTCTCCTTCAAGGGGGTCACTGAGAACTTCTCTGGGTAGTGGATTTGGCTCTCCATCAGTGACGGACTCCCGACCTCTGAACCCCAGTGCTTACTCCTCCAGCACGCTCCCTGCACAGCGGGCCGCCTCTCCATACTCACAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026991-18-21,18-20,18-19-3/3
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact





	

	
Protein isoform when splice site is used (Ref)





No structure available

		

			
Features


			

				
Disorder rate (Iupred):
  C1=1.000 A=NA C2=0.996
 
                        

				
Domain overlap (PFAM):

					





						

							
C1:
NO

							
A:
NA

							
C2:
NO

						

					

				








    
Main Inclusion Isoform:
ENSMUSP00000099815





     
                   









    
Main Skipping Isoform:
ENSMUSP00000108196





     
      









    
Other Inclusion Isoforms:
ENSMUSP00000042249, ENSMUSP00000122152, ENSMUSP00000129836, ENSMUSP00000131442
          









    
Other Skipping Isoforms:
NA
  



Associated events







Conservation


Human
(hg38)
No conservation detected
Human
(hg19)
chr2:159481390-159481816 
ALTERNATIVE
HsaALTA0006340-3/3
(PK4P)
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
chr2:37877153-37877705 
HIGH PSI
BtaALTA0022363-3/3
(PKP4)
Chicken
(galGal4)
chr7:35911242-35911243 
Chicken
(galGal3)
chr7:38046477-38046478 
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected




Primers PCR

	

		

			
Suggestions for RT-PCR validation

			

				
F: 
AACCGTGAACAAGGCAGACAG

				
R: 
GGAGTCCGTCACTGATGGAGA

				
Band lengths: 
174-256

			

		

	





	
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






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