Special

MmuEX0016412 @ mm9

Exon Skipping

Gene
ENSMUSG00000063600 | Egfem1
Description
EGF-like and EMI domain containing 1 [Source:MGI Symbol;Acc:MGI:1922990]
Coordinates
chr3:29547139-29556189:+
Coord C1 exon
chr3:29547139-29547258
Coord A exon
chr3:29549691-29549813
Coord C2 exon
chr3:29556052-29556189
Length
123 bp
Sequences
Splice sites
3' ss Seq
GTCTCTCTCTCTCTCTGTAGATA
3' ss Score
13.33
5' ss Seq
ACAGTAAGT
5' ss Score
9.49
Exon sequences
Seq C1 exon
AGACAGACCCCTGTGCAGGTGCAAATGGATGTGCTCACCTATGTCAAACTGAAAATGGCATGGCCAGGTGTGCCTGCCACGCTGGGTACCAGCTGTCTGAAGACAAAAAGGCCTGCGAAG
Seq A exon
ATATAAATGAGTGTGCTGAAGAACTCGCTCCCTGTGCTCATCACTGTGTGAACTCAAAGGGGTCCTTCACATGTACCTGCCACCCTGGCTTTGAGCTAGGAGCTGACAGAAAACATTGTTACA
Seq C2 exon
GAATTGAATTAGAAATTGTCAATATCTGTGAGAAGAACAATGGCGGCTGTTCTCATCACTGCGAGCCTGCAATTGGTGGAGCCCACTGTTCCTGTAACCACGGACATCAACTGGATACCGATGGGAAAACATGTATAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000063600-'14-17,'14-16,15-17
Average complexity
C1
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:
PF146701=FXa_inhibition=WD(100=85.4),PF0764510=EGF_CA=PU(0.1=0.0)

							
A:
PF0764510=EGF_CA=WD(100=95.2)

							
C2:
PF146701=FXa_inhibition=WD(100=76.6),PF0764510=EGF_CA=PU(0.1=0.0)

						

					

				








    
Main Inclusion Isoform:
ENSMUSP00000112943





     
                   









    
Main Skipping Isoform:
ENSMUSP00000112907





     
      









    
Other Inclusion Isoforms:
ENSMUSP00000096772, ENSMUSP00000112943f5283A
          









    
Other Skipping Isoforms:
NA
  



Associated events







Other assemblies


mm10




Conservation


Human
(hg38)
No conservation detected
Human
(hg19)
chr3:168511803-168511925 
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
chr1:99423648-99423770 
Chicken
(galGal4)
chr9:19830734-19830856 
HIGH PSI
GgaEX0013954
([1])
Chicken
(galGal3)
chr9:21909954-21910076 
HIGH PSI
GgaEX0013954
([2])
Zebrafish
(danRer10)
chr23:21240719-21240841 
HIGH PSI
DreEX6080160
(megf6a)
Fruitfly
(dm6)
No conservation detected




Primers PCR

	

		

			
Suggestions for RT-PCR validation

			

				
F: 
GCAGGTGCAAATGGATGTGCT

				
R: 
ATACATGTTTTCCCATCGGTATCCA

				
Band lengths: 
242-365

			

		

	





	
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






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