Special

MmuEX6102207 @ mm9

Exon Skipping

Gene
ENSMUSG00000027107 | Chrna1
Description
cholinergic receptor, nicotinic, alpha polypeptide 1 (muscle) [Source:MGI Symbol;Acc:MGI:87885]
Coordinates
chr2:73404759-73408701:-
Coord C1 exon
chr2:73408464-73408701
Coord A exon
chr2:73406149-73406372
Coord C2 exon
chr2:73404759-73404998
Length
224 bp
Sequences
Splice sites
3' ss Seq
TCTTCCTTTTGCCTTTCTAGGGG
3' ss Score
11.97
5' ss Seq
AAGGTGAGA
5' ss Score
8.68
Exon sequences
Seq C1 exon
GAAAGTGACCAGCCCGACCTGAGTAACTTCATGGAGAGCGGGGAGTGGGTGATCAAGGAAGCTCGGGGCTGGAAGCACTGGGTGTTCTACTCCTGCTGCCCCACCACTCCCTACCTGGACATCACCTACCACTTCGTCATGCAGCGCCTGCCCCTCTACTTCATTGTCAACGTCATCATTCCCTGCCTGCTCTTCTCCTTCTTAACCAGCCTGGTGTTCTACCTGCCCACAGACTCAG
Seq A exon
GGGAGAAGATGACGCTGAGCATCTCTGTCTTACTGTCCCTGACCGTGTTCCTTCTGGTCATTGTGGAGCTAATCCCTTCCACCTCCAGCGCTGTGCCCCTGATCGGGAAGTATATGTTGTTCACCATGGTCTTTGTCATTGCGTCCATCATCATCACCGTCATCGTCATCAACACACACCACCGTTCGCCCAGCACCCACATCATGCCCGAGTGGGTGCGGAAG
Seq C2 exon
GTTTTTATCGACACTATCCCAAACATCATGTTTTTCTCCACAATGAAAAGACCATCCAGAGATAAACAAGAGAAAAGGATTTTTACAGAAGACATAGATATATCTGACATCTCTGGGAAGCCGGGTCCTCCACCTATGGGCTTTCACTCTCCGCTGATCAAGCACCCTGAGGTGAAAAGCGCCATCGAGGGCGTGAAGTACATTGCAGAGACCATGAAGTCAGACCAGGAGTCCAATAAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000027107-'5-6,'5-5,6-6=AN
Average complexity
A_S
Mappability confidence:
100%=100=100%
Protein Impact





	

	
ORF disruption upon sequence exclusion





No structure available

		

			
Features


			

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

				
Domain overlap (PFAM):

					





						

							
C1:
PF0293118=Neur_chan_LBD=PD(24.0=62.5),PF0293211=Neur_chan_memb=PU(15.3=27.5)

							
A:
PF0293211=Neur_chan_memb=FE(51.4=100)

							
C2:
PF0293211=Neur_chan_memb=PD(31.9=57.5),PF0293211=Neur_chan_memb=PU(52.2=45.0)

						

					

				








    
Main Inclusion Isoform:
ENSMUSP00000028515





     
                   









    
Main Skipping Isoform:
NA





     
      









    
Other Inclusion Isoforms:
NA
          









    
Other Skipping Isoforms:
NA
  



Associated events






Other assemblies


mm10




Conservation


Human
(hg38)
chr2:174749946-174750169 
HIGH PSI
HsaEX6016809
(CHRNA1)
Human
(hg19)
chr2:175614674-175614897 
HIGH PSI
HsaEX6016809
(CHRNA1)
Rat
(rn6)
chr3:60448181-60448404 
HIGH PSI
RnoEX6017440
(Chrna1)
Cow
(bosTau6)
chr2:22135402-22135625 
HIGH PSI
BtaEX6008953
(CHRNA1)
Chicken
(galGal4)
chr7:16308975-16309198 
HIGH PSI
GgaEX1015431
(CHRNA1)
Chicken
(galGal3)
chr7:17986719-17986942 
Zebrafish
(danRer10)
chr6:10582803-10583026 
HIGH PSI
DreEX0021687
(chrna1)
Fruitfly
(dm6)
chr3R:24404969-24405429 
HIGH PSI
DmeEX6022955
(nAChRalpha1)
Fruitfly
(dm6)
chr3R:24513695-24513822 
HIGH PSI
DmeEX0008810
(nAChRbeta2)




Primers PCR

	

		

			
Suggestions for RT-PCR validation

			

				
F: 
CACCACTCCCTACCTGGACAT

				
R: 
GATCAGCGGAGAGTGAAAGCC

				
Band lengths: 
296-520

			

		

	





	
Functional annotations
(Submit an annotation)

	


There are 0 annotated functions for this event 


		










GENOMIC CONTEXT[edit]












INCLUSION PATTERN[edit]










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