Special

MmuEX0006578 @ mm9

Exon Skipping

Gene
ENSMUSG00000027104 | Atf2
Description
activating transcription factor 2 [Source:MGI Symbol;Acc:MGI:109349]
Coordinates
chr2:73654566-73666735:-
Coord C1 exon
chr2:73666529-73666735
Coord A exon
chr2:73661258-73661363
Coord C2 exon
chr2:73654566-73657205
Length
106 bp
Sequences
Splice sites
3' ss Seq
GTGAGTTGTTTCTTCTCCAGAGC
3' ss Score
7.32
5' ss Seq
ATAGTGAGT
5' ss Score
6.97
Exon sequences
Seq C1 exon
GCTTCTCCAGCTCACACAACTCCTCAGACCCAAAATACAAGTGGCCGTCGAAGAAGAGCAGCTAATGAAGATCCTGATGAGAAAAGGAGGAAGTTTCTAGAACGAAATAGAGCAGCAGCTTCAAGATGCCGACAAAAAAGGAAAGTGTGGGTTCAGTCCTTAGAGAAGAAAGCAGAAGACTTGAGTTCACTAAATGGCCAGCTGCAG
Seq A exon
AGCGAAGTCACCCTGCTGAGAAATGAAGTGGCCCAGCTGAAACAGCTTCTTCTGGCTCATAAAGATTGCCCTGTAACTGCCATGCAGAAGAAGTCTGGCTATCATA
Seq C2 exon
CTGCTGATAAAGATGACAGTTCAGAAGACCTTTCTGTGCCAAGCAGTCCACATACAGAAGCGATCCAGCACAGCTCTGTCAGCACATCCAATGGAGTCAGTTCAACATCAAAAGCAGAAGCTGTAGCCACTTCAGTCCTCACCCAGATGGCGGACCAGAGCACGGAGCCTGCACTTTCACAGATTGTCATGGCTCCTCCCTCCCAGGCACAGCCCTCAGGAAGTTGATTAAAACCTGCAGTGCAACAGTTTTAGATACTGATTAGTGACTTCAAAGGGAAATCAAGGAAAGACCAGTTTGCATTTATGCGAAATCTGTGGTTGTAAATTTTTTTTTTTTTACTTGAAGTTAAATTTGTCTCTGGAGTTGGTATAGCAGCAGTTGATGATCAGACTGAATATGTTTTTAGTCTCTGGAAGACTGATTTTCCTTTTTTATACATATTGTTAAGATTTATTAATTTTCCTGTGCTCAATGTGTAAATTGTATCATAACTCATT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000027104_CASSETTE1
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact





	

	
Alternative protein isoforms (No Ref, Alt. Stop)





No structure available

		

			
Features


			

				
Disorder rate (Iupred):
  C1=0.937 A=0.663 C2=0.968
 
                        

				
Domain overlap (PFAM):

					





						

							
C1:
PF0017016=bZIP_1=PU(70.8=66.7)

							
A:
PF0017016=bZIP_1=PD(26.2=47.2)

							
C2:
PF0017016=bZIP_1=PD(17.5=23.3)

						

					

				








    
Main Inclusion Isoform:
ENSMUSP00000058521





     
                   









    
Main Skipping Isoform:
ENSMUSP00000114828





     
      









    
Other Inclusion Isoforms:
ENSMUSP00000058521f2052A, ENSMUSP00000088311, ENSMUSP00000097588, ENSMUSP00000107636, ENSMUSP00000107638, ENSMUSP00000107641, ENSMUSP00000107647, ENSMUSP00000107648, ENSMUSP00000126034, ENSMUSP00000130822
          









    
Other Skipping Isoforms:
NA
  



Associated events







Other assemblies


mm10




Conservation


Human
(hg38)
chr2:175080660-175080765 
HIGH PSI
HsaEX6016818
(ATF2)
Human
(hg19)
chr2:175945388-175945493 
HIGH PSI
HsaEX6016818
(ATF2)
Rat
(rn6)
chr3:60726716-60726821 
HIGH PSI
RnoEX0012527
(Atf2)
Cow
(bosTau6)
chr2:21825530-21825635 
HIGH PSI
BtaEX0004677
(ATF2)
Chicken
(galGal4)
chr7:16196930-16197035 
HIGH PSI
GgaEX1009617
(ATF2)
Chicken
(galGal3)
chr7:17842017-17842122 
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected




Primers PCR

	

		

			
Suggestions for RT-PCR validation

			

				
F: 
TCCAGCTCACACAACTCCTCA

				
R: 
TGGACTGCTTGGCACAGAAAG

				
Band lengths: 
252-358

			

		

	





	
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"