Special

MmuEX0037340 @ mm9

Exon Skipping

Gene
ENSMUSG00000023007 | Prpf40b
Description
PRP40 pre-mRNA processing factor 40 homolog B (yeast) [Source:MGI Symbol;Acc:MGI:1925583]
Coordinates
chr15:99125518-99134615:+
Coord C1 exon
chr15:99125518-99125704
Coord A exon
chr15:99133714-99133794
Coord C2 exon
chr15:99134472-99134615
Length
81 bp
Sequences
Splice sites
3' ss Seq
ACTTTTCTCTCCCTCAACAGTCG
3' ss Score
10.46
5' ss Seq
TTCGTAAGT
5' ss Score
9.77
Exon sequences
Seq C1 exon
GGAGCCGGGCCGGGCACACCGGGCCGGTTGGGGGCTCCGCTCCTCGGCGAGAGCAACCGGAGCCCCGGCCACGAAGGGGTGCGACCCCCCCACTGGCCCCGCCCTCCCGGCCGAAGCCCGGCCAATCAGAGCTGTTTTTACTGGCGAGTGGGCCGAGCCGGCCCAGCTGCTCTGAGGCTCTGGCATG
Seq A exon
TCGGTTCCCGATTCTGGTCCCCGGCCCCCAGCAGCGCCTGCCCCCTTCCCACCGGGGCCCCCCATGATGCCACCACCCTTC
Seq C2 exon
ATGCCCCCTCCAGGGCTCCCACCTCCTTTTCCTCCGATGGGGCTCCCCCCTATGAGTCAGAGACCACCAGCCATTCCCCCCATGCCACCTGGCATACTGCCCCCAATGCTTCCACCAATGGGGGCACCGCCACCACTTACACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000023007-'0-5,'0-3,6-5
Average complexity
C1
Mappability confidence:
100%=100=100%
Protein Impact





	

	
Alternative protein isoforms (Ref, Alt. ATG (>10 exons))





No structure available

		

			
Features


			

				
Disorder rate (Iupred):
  C1=NA A=0.906 C2=0.970
 
                        

				
Domain overlap (PFAM):

					





						

							
C1:
NA

							
A:
NO

							
C2:
NO

						

					

				








    
Main Inclusion Isoform:
ENSMUSP00000115869





     
                   









    
Main Skipping Isoform:
NA





     
      









    
Other Inclusion Isoforms:
ENSMUSP00000023745, ENSMUSP00000113282, ENSMUSP00000115869f1392A, ENSMUSP00000119556, ENSMUSP00000121260
          









    
Other Skipping Isoforms:
NA
  



Associated events







Other assemblies


mm10




Conservation


Human
(hg38)
chr12:49630545-49630625 
HsaEX0050374
(PRPF40B)
Human
(hg19)
chr12:50024328-50024408 
ALTERNATIVE
HsaEX0050374
(PRPF40B)
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
chr5:30387025-30387105 
ALTERNATIVE
BtaEX0028624
(PRPF40B)
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: 
TGTTTTTACTGGCGAGTGGGC

				
R: 
GGAAGCATTGGGGGCAGTATG

				
Band lengths: 
168-249

			

		

	





	
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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