Special

MmuEX0025276 @ mm10

Exon Skipping

Gene
ENSMUSG00000054611 | Kdm2a
Description
lysine (K)-specific demethylase 2A [Source:MGI Symbol;Acc:MGI:1354736]
Coordinates
chr19:4362776-4394892:-
Coord C1 exon
chr19:4394792-4394892
Coord A exon
chr19:4388941-4389057
Coord C2 exon
chr19:4362776-4362914
Length
117 bp
Sequences
Splice sites
3' ss Seq
CTTTTAATTCCAACATTCAGGTG
3' ss Score
7.62
5' ss Seq
AAGGTCAGT
5' ss Score
8.68
Exon sequences
Seq C1 exon
GAAGAGGAAGGCATCCCTGGAGTGGTTTCTTTACTGTACTTCCATCAGAAGAGTGAGAGATGGAACCTGAAGAAGAAAGGATTCGGTACAGCCAGAGATTG
Seq A exon
GTGGATCTTTGTCGAGGCCAGCCTAATATACAGAGCCATTTCCAGGACAGCCAAGGTACAAGATAAAAAAAAACTCTTGTCTTGAAAAGCCAAAACAACAACAAAAAAGCTAAAAAG
Seq C2 exon
CGTGGTACCATGCGTCGTCGCTATGAAGATGATGGCATTTCAGATGATGAAATTGAAGGGAAAAGAACTTTTGACTTGGAAGAGAAGCTCCAAACCAACAAATATAATGCCAATTTTGTTACTTTTATGGAGGGAAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000054611_MULTIEX2-2/2=1-C2
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact





	

	
ORF disruption upon sequence inclusion





Show structural model

		

			
Features


			

				
Disorder rate (Iupred):
  C1=0.893 A=0.810 C2=0.231
 
                        

				
Domain overlap (PFAM):

					





						

							
C1:
NO

							
A:
NO

							
C2:
NO

						

					

				








    
Main Inclusion Isoform:
ENSMUSP00000140253





     
                   









    
Main Skipping Isoform:
ENSMUSP00000047683





     
      









    
Other Inclusion Isoforms:
NA
          









    
Other Skipping Isoforms:
ENSMUSP00000076698, ENSMUSP00000139651
  



Associated events







Other assemblies


mm9




Conservation


Human
(hg38)
No conservation detected
Human
(hg19)
No conservation detected
Rat
(rn6)
chr1:219635282-219635406 
Cow
(bosTau6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected




Primers PCR

	

		

			
Suggestions for RT-PCR validation

			

				
F: 
AAGGCATCCCTGGAGTGGTTT

				
R: 
CCCTCCATAAAAGTAACAAAATTGGC

				
Band lengths: 
228-345

			

		

	





	
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
  • 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





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