Special

MmuALTA0009393-1/2 @ mm9

Alternative 3'ss

Gene
ENSMUSG00000020758 | Itgb4
Description
integrin beta 4 [Source:MGI Symbol;Acc:MGI:96613]
Coordinates
chr11:115850204-115851155:+
Coord C1 exon
chr11:115850204-115850333
Coord A exon
NA
Coord C2 exon
chr11:115851036-115851155
Length
0 bp
Sequences
Splice sites
5' ss Seq
AAGGTAGGG
5' ss Score
8.76
3' ss Seq
ACAGTCTGTGGATTTAGCAGAAG
3' ss Score
1.61
Exon sequences
Seq C1 exon
ATACGCCTGGGTCTCTGTGAGGATCTCCGCTCCTGCGTACAGTGCCAGGCCTGGGGCACCGGGGAGAAGAAAGGGCGCGCGTGTGACGATTGCCCCTTTAAAGTCAAGATGGTAGACGAGCTTAAGAAAG
Seq A exon
NA
Seq C2 exon
AAGAGGTGGTGGAGTACTGCTCCTTCCGGGATGAGGATGACGACTGCACTTACAGCTACAACGTGGAGGGCGATGGCAGCCCTGGGCCCAACAGCACAGTCCTGGTCCACAAAAAGAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000020758-17-19,17-18-1/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact





	

	
Protein isoform when splice site is used (Ref)





No structure available

		

			
Features


			

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

				
Domain overlap (PFAM):

					





						

							
C1:
PF079657=Integrin_B_tail=PU(44.2=86.4)

							
A:
NA

							
C2:
NO

						

					

				








    
Main Inclusion Isoform:
ENSMUSP00000021107





     
                   









    
Main Skipping Isoform:
ENSMUSP00000102066





     
      









    
Other Inclusion Isoforms:
ENSMUSP00000127604
          









    
Other Skipping Isoforms:
ENSMUSP00000070811, ENSMUSP00000102068, ENSMUSP00000102069
  



Associated events







Other assemblies


mm10




Conservation


Human
(hg38)
No conservation detected
Human
(hg19)
chr17:73733404-73733405 
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
chr19:56491105-56491106 
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
chr18:4726819-4726820 
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected




Primers PCR

	

		

			
Suggestions for RT-PCR validation

			

				
F: 
CGTGTGACGATTGCCCCTTTA

				
R: 
GTGCAGTCGTCATCCTCATCC

				
Band lengths: 
100-103

			

		

	





	
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






Retrieved from "https://vastdb.crg.eu/wiki/Special:VastDB"