Special

MmuEX6091276 @ mm10

Exon Skipping

Gene
ENSMUSG00000020758 | Itgb4
Description
integrin beta 4 [Source:MGI Symbol;Acc:MGI:96613]
Coordinates
chr11:116006461-116007414:+
Coord C1 exon
chr11:116006461-116006610
Coord A exon
chr11:116006986-116007174
Coord C2 exon
chr11:116007259-116007414
Length
189 bp
Sequences
Splice sites
3' ss Seq
CTATCCTCACTCCACCTCAGGCG
3' ss Score
5.96
5' ss Seq
CAGGTGAGC
5' ss Score
9.6
Exon sequences
Seq C1 exon
ATTCCCGTGGGGCTGTGGGTGTGCCTGACACACCCACTCGGCTGGTGTTCTCTGCCCTGGGGCCCACGTCTTTGAAGGTGAGCTGGCAGGAGCCACAGTGTGATCGGATGCTGCTGGGCTACAGTGTGGAATACCAGCTACTAAACGGCG
Seq A exon
GCGAGATGCATCGGCTCAACATCCCTAACCCTGGCCAAACCTCGGTGGTGGTAGAGGATCTCCTGCCTAACCACTCCTATGTGTTCCGGGTACGGGCCCAGAGCCAGGAGGGCTGGGGCCGAGAGCGAGAGGGTGTCATCACCATCGAGTCCCAGGTGCACCCGCAGAGCCCTCTCTGCCCCCTGCCAG
Seq C2 exon
GCTCAGCCTTCACTCTGAGCACCCCCAGCGCCCCGGGACCGCTGGTGTTCACTGCCCTAAGCCCAGACTCCCTGCAGCTCAGCTGGGAGCGGCCGAGGAGGCCCAATGGAGATATCCTTGGCTACCTGGTGACCTGTGAGATGGCCCAAGGAGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000020758-'55-66,'55-61,58-66=AN
Average complexity
A_S
Mappability confidence:
NA
Protein Impact





	

	
Alternative protein isoforms (Ref)





No structure available

		

			
Features


			

				
Disorder rate (Iupred):
  C1=0.151 A=0.312 C2=0.189
 
                        

				
Domain overlap (PFAM):

					





						

							
C1:
PF0004116=fn3=PU(48.8=80.4)

							
A:
PF0004116=fn3=PD(50.0=65.6)

							
C2:
PF0004116=fn3=PU(49.4=81.1)

						

					

				








    
Main Inclusion Isoform:
ENSMUSP00000102066





     
                   









    
Main Skipping Isoform:
NA





     
      









    
Other Inclusion Isoforms:
ENSMUSP00000021107, ENSMUSP00000070811, ENSMUSP00000102068, ENSMUSP00000102069, ENSMUSP00000127604
          









    
Other Skipping Isoforms:
NA
  



Associated events







Other assemblies


mm9




Conservation


Human
(hg38)
chr17:75756429-75756617 
HIGH PSI
HsaEX6024824
(ITGB4)
Human
(hg19)
chr17:73752510-73752698 
HIGH PSI
HsaEX6024824
(ITGB4)
Rat
(rn6)
chr10:104558777-104558965 
HIGH PSI
RnoEX0045231
(Itgb4)
Cow
(bosTau6)
chr19:56473589-56473777 
HIGH PSI
BtaEX6090744
(ITGB4)
Chicken
(galGal4)
chr18:4696409-4696597 
HIGH PSI
GgaEX1030785
(ITGB4)
Chicken
(galGal3)
chr18:4715319-4715507 
HIGH PSI
GgaEX1030785
(E1C9G7_CHICK)
Zebrafish
(danRer10)
chr8:13113736-13113924 
HIGH PSI
DreEX6048663
(itgb4)
Fruitfly
(dm6)
No conservation detected




Primers PCR

	

		

			
Suggestions for RT-PCR validation

			

				
F: 
CCACGTCTTTGAAGGTGAGCT

				
R: 
CTCCTCCTTGGGCCATCTCA

				
Band lengths: 
243-432

			

		

	





	
Functional annotations
(Submit an annotation)

	


There are 1 annotated functions for this event 


PMID: 11044453
HsaEX6024824
Encodes an experimentally validated Eukaryotic Linear Motif (ELM). Method: coimmunoprecipitation, glutathione s tranferase tag, mutation analysis, pull down. ELM ID: ELMI001551; ELM sequence: LLPNHSY; 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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