Special

MmuEX0045065 @ mm9

Exon Skipping

Gene
ENSMUSG00000029797 | Sspo
Description
SCO-spondin [Source:MGI Symbol;Acc:MGI:2674311]
Coordinates
chr6:48437901-48439828:+
Coord C1 exon
chr6:48437901-48438110
Coord A exon
chr6:48438329-48438496
Coord C2 exon
chr6:48439697-48439828
Length
168 bp
Sequences
Splice sites
3' ss Seq
AACCATTCTCTTTTCACCAGTGC
3' ss Score
7.19
5' ss Seq
GTGGTACTG
5' ss Score
2.53
Exon sequences
Seq C1 exon
CGCTGCTCCCGTGCCCTGGCCCTGGCTGTGGGTCAGGGAACTGTTTCTGGACGTCCTGGGCCCCATGGGAGCCTTGCTCCCGAAGCTGTGGTGTGGGCCAGCAGCGTCGCCTAAGAGCATATCACCCCCCTGGGCCTGGTGGACACTGGTGCCCTGACATCCTGACTGCGTACCAAGAGCGCCGCTTCTGCAACCTTCGTGCTTGTCCAG
Seq A exon
TGCCTGGGGGCTGGTCCCACTGGAGTCCCTGGTCCTGGTGTGATCGCAGCTGTGGAGGAGGTCGATCTTTGAGGAGCAGAAGCTGCTCAAGCCCACCACCCAAGAATGGGGGAACATCCTGTGTTGGGGAGAGGCACCATGTCCGGCCCTGCAATCCCATGCCCTGTG
Seq C2 exon
AGGAAGGCTGCCCAGCGGGCATGGAGATGGTGAGCTGTGCCAACCACTGCCCCTACAGCTGCTCAGACCTGCAGGAGGGAGGCATGTGTCAGGAGGACCAGGCCTGCCAGTTGGGCTGTCGCTGCTCTGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000029797_MULTIEX1-2/2=1-C2
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:
PF0009014=TSP_1=WD(100=73.2)

							
A:
PF0009014=TSP_1=WD(100=89.5)

							
C2:
PF0182612=TIL=PU(73.2=91.1)

						

					

				








    
Main Inclusion Isoform:
ENSMUSP00000131401





     
                   









    
Main Skipping Isoform:
NA





     
      









    
Other Inclusion Isoforms:
ENSMUSP00000047991
          









    
Other Skipping Isoforms:
NA
  



Associated events







Other assemblies


mm10




Conservation


Human
(hg38)
chr7:149819717-149819884 
HIGH PSI
HsaEX6011178
(SSPO)
Human
(hg19)
chr7:149516806-149516973 
HIGH PSI
HsaEX6011178
(SSPO)
Rat
(rn6)
chr4:78121446-78121613 
RnoEX6013461
(Sspo)
Cow
(bosTau6)
chr4:113478985-113479152 
HIGH PSI
BtaEX6029374
(SSPO)
Chicken
(galGal4)
chr2:438267-438441 
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected




Primers PCR

	

		

			
Suggestions for RT-PCR validation

			

				
F: 
GGGAACTGTTTCTGGACGTCC

				
R: 
AGGTCTGAGCAGCTGTAGGG

				
Band lengths: 
245-413

			

		

	





	
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"