Special

MmuEX0038781 @ mm9

Exon Skipping

Gene
ENSMUSG00000022469 | Rapgef3
Description
Rap guanine nucleotide exchange factor (GEF) 3 [Source:MGI Symbol;Acc:MGI:2441741]
Coordinates
chr15:97592110-97597989:-
Coord C1 exon
chr15:97597826-97597989
Coord A exon
chr15:97597193-97597405
Coord C2 exon
chr15:97592110-97592163
Length
213 bp
Sequences
Splice sites
3' ss Seq
CTTTCCTCCCCACATCACAGGTC
3' ss Score
9.01
5' ss Seq
TGGGTGAGT
5' ss Score
8.73
Exon sequences
Seq C1 exon
AAACCCTATCTGCCTAGCCCTGCATCTTGCTGCTCCAGGCAACCTGTCTGACTAGGGGCTGGCCCTTCGCTGCATCTCGGGACTCACACTCATACCGCTCCAGGGATCCTGCAGCCTCTTGCTAGGGCGAGCACCGCGGTGTGAGCTGGAGAAGAAACATGAAG
Seq A exon
GTCAGCTGGCCAGGTGAGAACCACTGGCAGGTGGGCCCAGCTGTGGTGGAGAGTCCAGCTGTGGGGGCACCGCAGGTGGGAGGTCTCCCGGACGTGGTTCCGGAGGGCACGCTGCTCAATATGGTGTTGAAGAGAATGCACCGTCCCCGCTGCTGCTCTTACCAGCTAGTGTTCGAGCACCGGCGCCCCAGCTGCATCCAGGGACTCCGCTGG
Seq C2 exon
ACACCACTTACCAACAGCGAGGACTCCCTGGATTTCAGAGTGAGTCTGGAGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000022469_MULTIEX1-1/18=C1-2
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact





	

	
Alternative protein isoforms (Ref)





No structure available

		

			
Features


			

				
Disorder rate (Iupred):
  C1=0.167 A=0.070 C2=0.000
 
                        

				
Domain overlap (PFAM):

					





						

							
C1:
NO

							
A:
NO

							
C2:
NO

						

					

				








    
Main Inclusion Isoform:
ENSMUSP00000116426





     
                   









    
Main Skipping Isoform:
NA





     
      









    
Other Inclusion Isoforms:
ENSMUSP00000023109, ENSMUSP00000116426f1254A, ENSMUSP00000116673, ENSMUSP00000117337, ENSMUSP00000118148, ENSMUSP00000120126, ENSMUSP00000122285, ENSMUSP00000135194, ENSMUSP00000135238
          









    
Other Skipping Isoforms:
NA
  



Associated events






Other assemblies


mm10




Conservation


Human
(hg38)
chr12:47757866-47758078 
HIGH PSI
HsaEX6066144
(RAPGEF3)
Human
(hg19)
chr12:48151649-48151861 
HIGH PSI
HsaEX6066144
(RAPGEF3)
Rat
(rn6)
chr7:139253908-139254120 
HIGH PSI
RnoEX6033804
(Rapgef3)
Cow
(bosTau6)
chr5:32697815-32698027 
HIGH PSI
BtaEX6021160
(RAPGEF3)
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
chr2R:6773640-6773786 
HIGH PSI
DmeEX0004289
(Epac)




Primers PCR

	

		

			
Suggestions for RT-PCR validation

			

				
F: 
AACCCTATCTGCCTAGCCCTG

				
R: 
ACTCTGAAATCCAGGGAGTCCT

				
Band lengths: 
204-417

			

		

	





	
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






Retrieved from "https://vastdb.crg.eu/wiki/Special:VastDB"