Special

MmuEX0037004 @ mm9

Exon Skipping

Gene
ENSMUSG00000051977 | Prdm9
Description
PR domain containing 9 [Source:MGI Symbol;Acc:MGI:2384854]
Coordinates
chr17:15694265-15696036:-
Coord C1 exon
chr17:15695987-15696036
Coord A exon
chr17:15694511-15694538
Coord C2 exon
chr17:15694265-15694421
Length
28 bp
Sequences
Splice sites
3' ss Seq
CTTGTCTCTTCCTTATTCAGATA
3' ss Score
11.14
5' ss Seq
CAGGTGAAG
5' ss Score
6.66
Exon sequences
Seq C1 exon
TCAGTCCTCCTTGGGTGCCTTTCCGGGTGAAGCACAGTAAACAGCAGAAG
Seq A exon
ATACTCTACACATTAACTAAAGTCACAG
Seq C2 exon
GAATCATCTAGAATGCCATTTAGTGGTGAATCTAATGTGAAGGAAGGGTCTGGAATAGAAAATTTGCTGAATACAAGTGGCTCAGAACACGTCCAGAAACCAGTGTCCTCCCTTGAAGAAGGAAATACCTCTGGACAGCACTCTGGGAAAAAACTGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000051977_CASSETTE2
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact





	

	
ORF disruption upon sequence inclusion





No structure available

		

			
Features


			

				
Disorder rate (Iupred):
  C1=0.494 A=0.000 C2=0.970
 
                        

				
Domain overlap (PFAM):

					





						

							
C1:
NO

							
A:
NO

							
C2:
PF095145=SSXRD=PU(0.1=0.0)

						

					

				








    
Main Inclusion Isoform:
ENSMUSP00000131871f4794A





     
                   









    
Main Skipping Isoform:
ENSMUSP00000131871





     
      









    
Other Inclusion Isoforms:
NA
          









    
Other Skipping Isoforms:
ENSMUSP00000040727, ENSMUSP00000125785, ENSMUSP00000130976
  



Associated events






Other assemblies


mm10




Conservation


Human
(hg38)
No conservation detected
Human
(hg19)
chr5:23521010-23521056 
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
chrX:143421677-143421732 
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: 
CCGGGTGAAGCACAGTAAACA

				
R: 
GACGTGTTCTGAGCCACTTGT

				
Band lengths: 
121-149

			

		

	





	
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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