Special

MmuEX0026864 @ mm9

Exon Skipping

Gene
ENSMUSG00000049252 | Lrp1b
Description
low density lipoprotein-related protein 1B (deleted in tumors) [Source:MGI Symbol;Acc:MGI:2151136]
Coordinates
chr2:40707151-40716292:-
Coord C1 exon
chr2:40716170-40716292
Coord A exon
chr2:40713922-40714103
Coord C2 exon
chr2:40707151-40707350
Length
182 bp
Sequences
Splice sites
3' ss Seq
CTAAATTCTTATTTTGTTAGGTA
3' ss Score
5.64
5' ss Seq
CGGGTTTGT
5' ss Score
3.45
Exon sequences
Seq C1 exon
GGATTAAACAATGTTATTGCTCTAGACTTCGATTATAGAGAAGAATTCATATATTGGATTGATTCTAGCAGACCCAATGGAAGTCGCATAAACAGAATGTGTCTAAATGGAAGTGACATCAAG
Seq A exon
GTAGTGCATAACACTGCTGTCCCCAATGCACTTGCTGTTGATTGGATTGGCAAAAACCTTTATTGGTCTGACACAGAGAAAAGGATAATTGAAGTATCCAAACTCAATGGCTTATACCCTACTGTACTTGTTAGCAAAAGGCTGAAGTTTCCCAGGGACCTGTCTTTAGATCCACGAGCCGG
Seq C2 exon
GAATTTGTACTGGATTGATTGCTGTGAGTATCCTCACATTGGCCGTGTCGGAATGGATGGAACAAATCAGAGTGTTGTCATAGAAACCAAGATTTCTAGACCTATGGCACTAACAATAGATTATGTCAACCATAGACTCTATTGGGCTGATGAAAATCACATTGAATTTAGCAACATGGATGGATCTCATAGACACAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000049252-'62-70,'62-69,63-70
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact





	

	
ORF disruption upon sequence exclusion





No structure available

		

			
Features


			

				
Disorder rate (Iupred):
  C1=0.000 A=0.000 C2=0.029
 
                        

				
Domain overlap (PFAM):

					





						

							
C1:
PF0005812=Ldl_recept_b=PU(61.9=63.4)

							
A:
PF0005812=Ldl_recept_b=PD(33.3=23.0),PF0005812=Ldl_recept_b=WD(100=67.2),PF0005812=Ldl_recept_b=PU(0.1=0.0)

							
C2:
PF0005812=Ldl_recept_b=WD(100=61.8)

						

					

				








    
Main Inclusion Isoform:
ENSMUSP00000054275f4696A





     
                   









    
Main Skipping Isoform:
NA





     
      









    
Other Inclusion Isoforms:
ENSMUSP00000054275, ENSMUSP00000129192
          









    
Other Skipping Isoforms:
NA
  



Associated events






Other assemblies


mm10




Conservation


Human
(hg38)
chr2:140485343-140485524 
HIGH PSI
HsaEX6015764
(LRP1B)
Human
(hg19)
chr2:141242912-141243093 
HIGH PSI
HsaEX6015764
(LRP1B)
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
chr2:56731759-56731940 
BtaEX6009986
(LRP1B)
Chicken
(galGal4)
chr7:31435368-31435549 
ALTERNATIVE
GgaEX0018761
(LRP1B)
Chicken
(galGal3)
chr7:33549256-33549437 
HIGH PSI
GgaEX0018761
(LRP1B)
Zebrafish
(danRer10)
chr9:36800297-36800478 
HIGH PSI
DreEX6037422
(lrp1bb)
Fruitfly
(dm6)
No conservation detected




Primers PCR

	

		

			
Suggestions for RT-PCR validation

			

				
F: 
CAGACCCAATGGAAGTCGCAT

				
R: 
ATGAGATCCATCCATGTTGCT

				
Band lengths: 
245-427

			

		

	





	
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"