Special

MmuEX6025147 @ mm10

Exon Skipping

Gene
ENSMUSG00000026193 | Fn1
Description
fibronectin 1 [Source:MGI Symbol;Acc:MGI:95566]
Coordinates
chr1:71641152-71643151:-
Coord C1 exon
chr1:71642960-71643151
Coord A exon
chr1:71641952-71642131
Coord C2 exon
chr1:71641152-71641328
Length
180 bp
Sequences
Splice sites
3' ss Seq
ACTCTTGGTTATGCTTGTAGCCG
3' ss Score
4.25
5' ss Seq
CGGGTGAGT
5' ss Score
9.89
Exon sequences
Seq C1 exon
GATCTGGCTCCTTCACTGATGTCCGAACAGCTATTTACCAACCGCAGACTCACCCCCAGCCCGCTCCCTACGGCCACTGTGTCACCGACAGTGGTGTGGTCTACTCTGTGGGAATGCAGTGGCTGAAGTCGCAAGGAAACAAGCAAATGCTGTGCACGTGCCTGGGCAATGGCGTCAGCTGCCAGGAGACAG
Seq A exon
CCGTGACCCAGACTTATGGTGGCAATTCAAACGGGGAGCCCTGTGTCCTCCCGTTCACCTACAACGGTAGGACCTTCTATTCCTGCACCACCGAAGGGCGGCAAGACGGACATCTGTGGTGTAGCACAACTTCCAATTACGAACAAGACCAGAAGTATTCCTTCTGCACAGACCATGCGG
Seq C2 exon
TTTTGGTTCAGACTCGAGGCGGAAATTCCAATGGTGCTCTGTGCCACTTCCCCTTCCTGTACAACAACCGGAATTACACCGACTGTACTTCTGAGGGTCGCAGGGACAACATGAAATGGTGCGGCACCACCCAGAACTACGATGCCGATCAGAAGTTTGGATTCTGCCCAATGGCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026193-'20-12,'20-9,22-12=AN
Average complexity
A_S
Mappability confidence:
100%=100=100%
Protein Impact





	

	
Alternative protein isoforms (Ref)





No structure available

		

			
Features


			

				
Disorder rate (Iupred):
  C1=0.061 A=0.000 C2=0.000
 
                        

				
Domain overlap (PFAM):

					





						

							
C1:
PF0003913=fn1=WD(100=53.8)

							
A:
PF0004014=fn2=WD(100=68.9)

							
C2:
PF0004014=fn2=WD(100=70.0)

						

					

				








    
Main Inclusion Isoform:
ENSMUSP00000054499





     
                   









    
Main Skipping Isoform:
NA





     
      









    
Other Inclusion Isoforms:
ENSMUSP00000139702, ENSMUSP00000140471, ENSMUSP00000140816, ENSMUSP00000140907, ENSMUSP00000140975, ENSMUSP00000141123
          









    
Other Skipping Isoforms:
NA
  



Associated events






Other assemblies


mm9




Conservation


Human
(hg38)
chr2:215424146-215424325 
HIGH PSI
HsaEX6018353
(FN1)
Human
(hg19)
chr2:216288869-216289048 
HIGH PSI
HsaEX6018353
(FN1)
Rat
(rn6)
chr9:78957883-78958062 
RnoEX0036494
(Fn1)
Cow
(bosTau6)
chr2:103938423-103938602 
HIGH PSI
BtaEX6011328
(FN1)
Chicken
(galGal4)
chr7:4374637-4374816 
HIGH PSI
GgaEX1066080
(fn1)
Chicken
(galGal3)
chr7:4403042-4403221 
HIGH PSI
GgaEX1066080
(FN1)
Zebrafish
(danRer10)
chr1:4838605-4838769 
Fruitfly
(dm6)
No conservation detected




Primers PCR

	

		

			
Suggestions for RT-PCR validation

			

				
F: 
TGGTGTGGTCTACTCTGTGGG

				
R: 
CATCGTAGTTCTGGGTGGTGC

				
Band lengths: 
245-425

			

		

	





	
Functional annotations
(Submit an annotation)

	


There are 2 annotated functions for this event 


PMID: 1532572
HsaEX6018353
Encodes an experimentally validated Eukaryotic Linear Motif (ELM). Method: affinity chromatography technology, coimmunoprecipitation, polyclonal antibody, western blot. ELM ID: ELMI002207; ELM sequence: NGR; Overlap: FULL


PMID: 1694173
HsaEX6018353
Encodes an experimentally validated Eukaryotic Linear Motif (ELM). Method: affinity chromatography technology, coimmunoprecipitation, polyclonal antibody, western blot. ELM ID: ELMI002207; ELM sequence: NGR; Overlap: FULL


		










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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