Special

MmuEX6099755 @ mm10

Exon Skipping

Gene
ENSMUSG00000026923 | Notch1
Description
notch 1 [Source:MGI Symbol;Acc:MGI:97363]
Coordinates
chr2:26471152-26473012:-
Coord C1 exon
chr2:26472784-26473012
Coord A exon
chr2:26472121-26472272
Coord C2 exon
chr2:26471152-26471305
Length
152 bp
Sequences
Splice sites
3' ss Seq
TGCTTCTCATCTGCCTCTAGCTC
3' ss Score
8.5
5' ss Seq
ATGGTACTT
5' ss Score
5.19
Exon sequences
Seq C1 exon
ACCCGTGTCACAATGGGGGTTCCTGCACCGATGGCATCAACACAGCCTTCTGCGACTGCCTGCCCGGCTTCCAGGGTGCCTTCTGTGAGGAGGACATCAATGAATGTGCCAGCAATCCCTGCCAAAATGGTGCCAATTGCACTGACTGTGTGGACAGCTACACATGTACCTGCCCCGTGGGCTTCAATGGCATCCACTGCGAGAACAACACACCTGACTGTACTGAGAG
Seq A exon
CTCCTGCTTCAATGGTGGTACCTGTGTGGATGGTATCAACTCCTTCACCTGTCTGTGTCCACCTGGCTTCACGGGCAGCTACTGTCAGTATGATGTCAATGAGTGTGATTCACGGCCCTGTCTGCACGGTGGTACCTGCCAAGACAGCTATG
Seq C2 exon
AACCTTGTGCGCTGGTGCGACTCGGCTCCCTGCAAGAATGGTGGCAGGTGCTGGCAGACCAACACGCAGTACCACTGTGAGTGCCGCAGCGGCTGGACTGGCGTCAACTGCGACGTGCTCAGTGTGTCCTGTGAGGTGGCTGCACAGAAGCGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026923-'29-27,'29-26,30-27
Average complexity
S*
Mappability confidence:
100%=100=100%
Protein Impact





	

	
ORF disruption upon sequence exclusion





No structure available

		

			
Features


			

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

				
Domain overlap (PFAM):

					





						

							
C1:
PF0000822=EGF=PD(87.1=35.1),PF0000822=EGF=WD(100=40.3),PF0000822=EGF=PU(9.7=3.9)

							
A:
PF0000822=EGF=PD(87.1=39.7),PF0000822=EGF=WD(100=45.6)

							
C2:
PF0000822=EGF=WD(100=59.6)

						

					

				








    
Main Inclusion Isoform:
ENSMUSP00000028288





     
                   









    
Main Skipping Isoform:
NA





     
      









    
Other Inclusion Isoforms:
ENSMUSP00000115258
          









    
Other Skipping Isoforms:
NA
  



Associated events






Other assemblies


mm9




Conservation


Human
(hg38)
chr9:136508870-136509071 
HIGH PSI
HsaEX6064052
(NOTCH1)
Human
(hg19)
chr9:139403322-139403523 
HIGH PSI
HsaEX6064052
(NOTCH1)
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
chr11:103998349-103998550 
HIGH PSI
BtaEX6047241
(NOTCH1)
Chicken
(galGal4)
chr17:7832292-7832493 
HIGH PSI
GgaEX1040082
(NOTCH1)
Chicken
(galGal3)
chr17:8520720-8520921 
HIGH PSI
GgaEX1040082
(Q9W737_CHICK)
Zebrafish
(danRer10)
chr21:4624809-4625010 
HIGH PSI
DreEX6082899
(notch1a)
Zebrafish
(danRer10)
chr5:65031188-65031389 
HIGH PSI
DreEX0051115
(notch1b)
Fruitfly
(dm6)
No conservation detected




Primers PCR

	

		

			
Suggestions for RT-PCR validation

			

				
F: 
GCCAAAATGGTGCCAATTGCA

				
R: 
CTCACAGGACACACTGAGCAC

				
Band lengths: 
244-396

			

		

	





	
Functional annotations
(Submit an annotation)

	


There are 0 annotated functions for this event 


		










GENOMIC CONTEXT[edit]












INCLUSION PATTERN[edit]






SPECIAL DATASETS
  • Ribosome-engaged transcriptomes of neuronal types
  • 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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