Special

MmuEX6071974 @ mm10

Exon Skipping

Gene
ENSMUSG00000028064 | Sema4a
Description
sema domain, immunoglobulin domain (Ig), transmembrane domain (TM) and short cytoplasmic domain, (semaphorin) 4A [Source:MGI Symbol;Acc:MGI:107560]
Coordinates
chr3:88438443-88448141:-
Coord C1 exon
chr3:88447991-88448141
Coord A exon
chr3:88440698-88440878
Coord C2 exon
chr3:88438443-88438561
Length
181 bp
Sequences
Splice sites
3' ss Seq
CTGCTTCCCTCCTCCTCTAGTGC
3' ss Score
10.38
5' ss Seq
CCTGTAAGT
5' ss Score
7.52
Exon sequences
Seq C1 exon
GCAGGTTGGCGGGACCAGGAGCTCAGCAGTCTGTGCCTTCTCTCTCACGGACATTGAGCGAGTCTTTAAAGGGAAGTACAAGGAGCTGAACAAGGAGACCTCCCGCTGGACCACTTACCGGGGCTCAGAGGTCAGCCCGAGGCCAGGCAGT
Seq A exon
TGCTCCATGGGCCCCTCCTCTGACAAAGCCTTGACCTTCATGAAGGACCATTTTCTGATGGATGAGCACGTGGTAGGAACACCCCTGCTGGTGAAGTCTGGTGTGGAGTACACACGGCTTGCTGTGGAGTCAGCTCGGGGCCTTGATGGGAGCAGCCATGTGGTCATGTATCTGGGTACCT
Seq C2 exon
CCACGGGGTCCCTGCACAAGGCTGTGGTGCCTCAGGACAGCAGTGCTTATCTCGTGGAGGAGATTCAGCTGAGCCCTGACTCTGAGCCTGTTCGAAACCTGCAGCTGGCCCCCGCCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000028064_CASSETTE1
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact





	

	
ORF disruption upon sequence exclusion





No structure available

		

			
Features


			

				
Disorder rate (Iupred):
  C1=0.216 A=0.049 C2=0.100
 
                        

				
Domain overlap (PFAM):

					





						

							
C1:
PF0140314=Sema=FE(12.0=100)

							
A:
PF0140314=Sema=FE(14.5=100)

							
C2:
PF0140314=Sema=FE(12.0=100)

						

					

				








    
Main Inclusion Isoform:
ENSMUSP00000029700





     
                   









    
Main Skipping Isoform:
NA





     
      









    
Other Inclusion Isoforms:
ENSMUSP00000103155, ENSMUSP00000125909, ENSMUSP00000128510, ENSMUSP00000128887
          









    
Other Skipping Isoforms:
NA
  



Associated events






Other assemblies


mm9




Conservation


Human
(hg38)
chr1:156172826-156173006 
HIGH PSI
HsaEX6033963
(SEMA4A)
Human
(hg19)
chr1:156142617-156142797 
HIGH PSI
HsaEX6033963
(SEMA4A)
Rat
(rn6)
chr2:187803014-187803194 
HIGH PSI
RnoEX6010211
(Sema4a)
Cow
(bosTau6)
chr3:14664961-14665141 
ALTERNATIVE
BtaEX0031863
(SEMA4A)
Chicken
(galGal4)
chr10:19533663-19533873 
HIGH PSI
GgaEX7007564
(SEMA4B)
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
chr19:24797814-24798003 
HIGH PSI
DreEX6073051
(sema4ab)
Fruitfly
(dm6)
No conservation detected




Primers PCR

	

		

			
Suggestions for RT-PCR validation

			

				
F: 
GACCAGGAGCTCAGCAGTCT

				
R: 
CTGCAGGTTTCGAACAGGCTC

				
Band lengths: 
243-424

			

		

	





	
Functional annotations
(Submit an annotation)

	


There are 0 annotated functions for this event 


		










GENOMIC CONTEXT[edit]












INCLUSION PATTERN[edit]






SPECIAL DATASETS
  • Ribosome-engaged transcriptomes of neuronal types
  • Neural differentiation time course
  • Muscular differentiation time course
  • Spermatogenesis cell types
  • Reprogramming of fibroblasts to iPSCs
  • Hematopoietic precursors and cell types





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