Special

MmuEX0032029 @ mm10

Exon Skipping

Gene
ENSMUSG00000026923 | Notch1
Description
notch 1 [Source:MGI Symbol;Acc:MGI:97363]
Coordinates
chr2:26478070-26479560:-
Coord C1 exon
chr2:26479447-26479560
Coord A exon
chr2:26478607-26478720
Coord C2 exon
chr2:26478070-26478303
Length
114 bp
Sequences
Splice sites
3' ss Seq
CTCGTCTTCCCTGGCCACAGGCT
3' ss Score
7.97
5' ss Seq
AAGGTACAA
5' ss Score
6.82
Exon sequences
Seq C1 exon
GTTATGAAGGTGTATACTGTGAAATCAACACGGATGAGTGCGCCAGCAGCCCCTGTCTGCACAATGGCCACTGCATGGACAAGATCAATGAGTTCCAATGTCAGTGCCCCAAAG
Seq A exon
GCTTCAACGGGCACCTGTGCCAGTATGATGTGGATGAGTGTGCCAGCACACCATGCAAGAACGGTGCCAAGTGCCTGGATGGGCCCAACACCTATACCTGCGTGTGTACAGAAG
Seq C2 exon
GTTACACAGGGACCCACTGCGAAGTGGACATTGACGAGTGTGACCCTGACCCCTGCCACTATGGTTCCTGTAAGGATGGTGTGGCCACCTTTACCTGCCTGTGCCAGCCAGGCTACACAGGCCATCACTGTGAGACCAACATCAATGAGTGCCACAGCCAACCGTGCCGCCATGGGGGCACCTGCCAGGACCGTGACAACTCCTACCTCTGCTTATGCCTCAAGGGAACCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026923-'17-16,'17-15,18-16
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact





	

	
Alternative protein isoforms (Ref)





No structure available

		

			
Features


			

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

				
Domain overlap (PFAM):

					





						

							
C1:
PF0764510=EGF_CA=PD(25.0=25.6),PF0000822=EGF=PU(80.6=64.1)

							
A:
PF0000822=EGF=PD(16.1=12.8),PF0000822=EGF=PU(80.6=64.1)

							
C2:
PF0000822=EGF=PD(16.1=6.3),PF0000822=EGF=WD(100=38.0),PF0000822=EGF=PU(90.3=35.4)

						

					

				








    
Main Inclusion Isoform:
ENSMUSP00000028288





     
                   









    
Main Skipping Isoform:
NA





     
      









    
Other Inclusion Isoforms:
NA
          









    
Other Skipping Isoforms:
NA
  



Associated events







Other assemblies


mm9




Conservation


Human
(hg38)
chr9:136515981-136516094 
ALTERNATIVE
HsaEX0043391
(NOTCH1)
Human
(hg19)
chr9:139410433-139410546 
HIGH PSI
HsaEX0043391
(NOTCH1)
Rat
(rn6)
chr3:3926076-3926189 
HIGH PSI
RnoEX6015999
(Notch1)
Cow
(bosTau6)
chr11:104005919-104006032 
HIGH PSI
BtaEX0024723
(NOTCH1)
Chicken
(galGal4)
chr17:7827294-7827407 
HIGH PSI
GgaEX1040077
(NOTCH1)
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
chr5:65047063-65047176 
HIGH PSI
DreEX0051113
(notch1b)
Fruitfly
(dm6)
No conservation detected




Primers PCR

	

		

			
Suggestions for RT-PCR validation

			

				
F: 
GTTCCAATGTCAGTGCCCCAA

				
R: 
CCCTTGAGGCATAAGCAGAGG

				
Band lengths: 
249-363

			

		

	





	
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
  • 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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