Special

MmuEX0004294 @ mm9

Exon Skipping

Gene
ENSMUSG00000041936 | Agrn
Description
agrin [Source:MGI Symbol;Acc:MGI:87961]
Coordinates
chr4:155551332-155552744:-
Coord C1 exon
chr4:155552538-155552744
Coord A exon
chr4:155551931-155551988
Coord C2 exon
chr4:155551332-155551550
Length
58 bp
Sequences
Splice sites
3' ss Seq
CCGACTCTTGTGTCTTCCAGCCT
3' ss Score
7.71
5' ss Seq
GAGGTCTGC
5' ss Score
3.9
Exon sequences
Seq C1 exon
ACCAGTGCCCGGAGACCTGCCAGTTTAACTCTGTATGCCTGTCCCGCCGCGGCCGTCCCCACTGTTCCTGCGATCGCGTCACCTGTGATGGGGCTTACAGGCCAGTGTGTGCCCAGGATGGGCACACGTATGACAATGACTGTTGGCGCCAACAGGCCGAGTGTCGACAACAGCAGACCATTCCCCCCAAGCACCAGGGCCCGTGTG
Seq A exon
CCTGACCTGCTGGCAGGATGAGGTGCTGCGCCTGCCCGCCAGGAGCCCACAGCCCGAG
Seq C2 exon
ACCAGACCCCATCCCCGTGCCGTGGAGCGCAGTGTGCATTTGGGGCAACATGCACAGTGAAGAATGGGAAAGCTGTGTGCGAGTGCCAGCGGGTGTGCTCGGGCGGCTACGATCCTGTGTGCGGCAGTGATGGTGTCACTTACGGCAGTGTGTGCGAGCTGGAATCCATGGCCTGTACCCTTGGGCGGGAAATCCGAGTGGCCCGCAGAGGACCGTGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000041936-'16-18,'16-17,18-18
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact





	

	
ORF disruption upon sequence inclusion





No structure available

		

			
Features


			

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

				
Domain overlap (PFAM):

					





						

							
C1:
PF0005016=Kazal_1=PD(95.8=97.1)

							
A:
NO

							
C2:
PF0764810=Kazal_2=WD(100=55.4)

						

					

				








    
Main Inclusion Isoform:
ENSMUSP00000101200f4305A





     
                   









    
Main Skipping Isoform:
ENSMUSP00000101200





     
      









    
Other Inclusion Isoforms:
NA
          









    
Other Skipping Isoforms:
ENSMUSP00000071229, ENSMUSP00000075191, ENSMUSP00000101199, ENSMUSP00000101200f4306A, ENSMUSP00000101200f4307A, ENSMUSP00000101200f4308A
  



Associated events






Other assemblies


mm10




Conservation


Human
(hg38)
chr1:1042691-1042748 
ALTERNATIVE
HsaEX0003153
(AGRN)
Human
(hg19)
chr1:978071-978128 
LOW PSI
HsaEX0003153
(AGRN)
Rat
(rn6)
chr5:173603098-173603155 
ALTERNATIVE
RnoEX0008002
(Agrn)
Cow
(bosTau6)
chr16:52685939-52685995 
Chicken
(galGal4)
chr21:2732135-2732195 
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected




Primers PCR

	

		

			
Suggestions for RT-PCR validation

			

				
F: 
CAGGATGGGCACACGTATGAC

				
R: 
CATGTTGCCCCAAATGCACAC

				
Band lengths: 
146-204

			

		

	





	
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"