Special

MmuEX0022301 @ mm9

Exon Skipping

Gene
ENSMUSG00000053835 | H2-T24
Description
histocompatibility 2, T region locus 24 [Source:MGI Symbol;Acc:MGI:95958]
Coordinates
chr17:36142640-36154482:-
Coord C1 exon
chr17:36154186-36154482
Coord A exon
chr17:36152329-36152601
Coord C2 exon
chr17:36142640-36143734
Length
273 bp
Sequences
Splice sites
3' ss Seq
CCTGTCCCCGGGGCTTCTAGGCC
3' ss Score
6.91
5' ss Seq
CTGGTAATG
5' ss Score
5.67
Exon sequences
Seq C1 exon
GGTCGCACTCTCTGCATTACTGTTACTCAGCTGTGACTGAGCCGGGCCCGGGAGTTCCTTCATTTTTCGCCAGTGGCTTCTTAGATAACCAGCCCTTCATCCACTACGACAGCAGGAGCATGAAGGCAGAGCCTTGTGCTGACTGGCTGAGGGAAAATGCACAGTACTTCACTCATGAGACTGAGGTTTTCACCAATCGGATGAAGATTTTCCAGTTGAGCCTGAGAAACATTCGGCAATACTACAACAGCTCTGGTACCCAGAGTCAGAGAGCAGATGGCTTCCGCCAGCAAGCAG
Seq A exon
GCCCTCACACCCTCCAGTTCACATACGGCTGTGAGATGCGGTACAACAGGACCACAGGGCATTGGCAGTATGGCTACGATGGCAGTGATTACCTGACCTTGGACTTGGGCTCTATGCAATATATAGCAGCCACCTTCATTGCTGGCTACACCAAGCGCAAGTGGGAAAACAATGAGTACTGGCTGGAGAAAGAGAAGACCTACTTGGAGAAGGAGTGCATCCTATGGCTGCAGAGATACTTAACCATGGGAGGAAAGAACTTTACCCGAACTG
Seq C2 exon
GTCAGAAGAAAGAACTGGCCTGCTCCATCTGTTCCTGAAGAAGAGAGGCTCTAGGACAGGACCCAGGGACAATGTAAATAGTTTACAGCTCAAGGCAGACCTGGCCATGATCCTCAGAGGACACAGGTTTCAGTGAAGAGCCTGGGCTACGCTTGCTTATATTGTGTAAGGCTTGCTGCTCTTTTTTTTTTTTTTTTAAGATTTATTTATTTATCTACTATATATAAGTACACTGTCGCTGTCCTCATACACTCCAGAAGAGGGAGTCAGATCTCATTACGGATGGTTGTGAGCCACCATGTGGTTGCTGGGATTTGAACTCAGGACCTTCGGAAGAACGGTGCTCTTAAGCACTGAGCCATCTCTCCAGCCCCGCTTGCTGCTCTTAGCTGAAGAGAGGCACAACTAAGCACTGGCATTGCTGTTGACCCTGGTCCTTTCTGCTGACTTGGGCTGAGGCTTGGCTGTGTCTGCTAGGTAGTGCCACTGCTGCTGATCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000053835_MULTIEX1-2/4=1-C2
Average complexity
C2
Mappability confidence:
100%=100=100%
Protein Impact





	

	
Alternative protein isoforms (Ref)





No structure available

		

			
Features


			

				
Disorder rate (Iupred):
  C1=0.033 A=0.022 C2=0.210
 
                        

				
Domain overlap (PFAM):

					





						

							
C1:
PF0012913=MHC_I=PU(52.9=99.0)

							
A:
PF0012913=MHC_I=PD(46.5=94.6)

							
C2:
NO

						

					

				








    
Main Inclusion Isoform:
ENSMUSP00000067933





     
                   









    
Main Skipping Isoform:
ENSMUSP00000133476





     
      









    
Other Inclusion Isoforms:
ENSMUSP00000109389
          









    
Other Skipping Isoforms:
NA
  



Associated events







Other assemblies


mm10




Conservation


Human
(hg38)
No conservation detected
Human
(hg19)
chr6:30256645-30256887 
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
chr23:28304695-28304752 
HIGH PSI
BtaEX0001217
([1])
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
chr16:352145-352420 
ALTERNATIVE
GgaEX0027562
(F1N816_CHICK)
Zebrafish
(danRer10)
chr19:7178393-7178668 
HIGH PSI
DreEX0046351
(mhc1uba)
Fruitfly
(dm6)
No conservation detected




Primers PCR

	

		

			
Suggestions for RT-PCR validation

			

				
F: 
GACTGGCTGAGGGAAAATGCA

				
R: 
CCCAGGCTCTTCACTGAAACC

				
Band lengths: 
303-576

			

		

	





	
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






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