Special

MmuEX0020789 @ mm9

Exon Skipping

Gene
ENSMUSG00000078520 | Gm13011
Description
predicted gene 13011 [Source:MGI Symbol;Acc:MGI:3651647]
Coordinates
chr4:136959715-136961630:-
Coord C1 exon
chr4:136961496-136961630
Coord A exon
chr4:136960300-136960436
Coord C2 exon
chr4:136959715-136959844
Length
137 bp
Sequences
Splice sites
3' ss Seq
GGACTCCCCTTTTCCCCCAGCAA
3' ss Score
6.65
5' ss Seq
CTAGTACGT
5' ss Score
6.23
Exon sequences
Seq C1 exon
GCCTTATCTCAACTACCGGGTGGTACTTGGGGAGCATGAACATGGTGTGGAGGAGGGCTCAGAGCAGGTGATCCCCATCAATGCTGGAGAACTCTTTGTGCACCCCAAGTGGAACTCCGAATGTGTGAACTGTGG
Seq A exon
CAATAACATCGCTCTGGTCAAGCTCTCAAGAAGTGCCCAGCTGGGAGATGCAGTCCAGCTTGCCTGCCTCCCTCCTGCTGGTGAAATCCTACCCAACGGAGCACCCTGTTACATCAGCGGCTGGGGCCGGCTCTCTA
Seq C2 exon
CCAATGGACCTCTGCCAACCAAGCTGCAGCAGGCCTTGCTGCCTGTGGTGGACTATGAACACTGCTCCAGGTGGGACTGGTGGGGCCACTATGTGAAGAGGACCATGGTGTGCGCCGGCGGCTACATCCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000078520-'3-4,'3-3,4-4
Average complexity
S
Mappability confidence:
71%=50=67%
Protein Impact





	

	
ORF disruption upon sequence exclusion





No structure available

		

			
Features


			

				
Disorder rate (Iupred):
  C1=0.022 A=0.000 C2=0.000
 
                        

				
Domain overlap (PFAM):

					





						

							
C1:
PF0008921=Trypsin=FE(18.1=100)

							
A:
PF0008921=Trypsin=FE(18.5=100)

							
C2:
PF0008921=Trypsin=FE(17.3=100)

						

					

				








    
Main Inclusion Isoform:
ENSMUSP00000024200





     
                   









    
Main Skipping Isoform:
NA





     
      









    
Other Inclusion Isoforms:
NA
          









    
Other Skipping Isoforms:
NA
  



Associated events







Other assemblies


mm10




Conservation


Human
(hg38)
No conservation detected
Human
(hg19)
chr1:22333371-22333507 
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
chr2:131428178-131428314 
ALTERNATIVE
BtaEX0008333
(CELA3B)
Chicken
(galGal4)
chr21:4925906-4926042 
HIGH PSI
GgaEX6024233
(CTRC)
Chicken
(galGal3)
chr21:4995540-4995676 
GgaEX6024233
(F1P457_CHICK)
Zebrafish
(danRer10)
chr22:7413592-7413728 
HIGH PSI
DreEX0002621
(CELA1 (1 of 7))
Fruitfly
(dm6)
No conservation detected




Primers PCR

	

		

			
Suggestions for RT-PCR validation

			

				
F: 
GCCTTATCTCAACTACCGGGTG

				
R: 
GCACACCATGGTCCTCTTCAC

				
Band lengths: 
248-385

			

		

	





	
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"