Special

MmuEX0022267 @ mm9

Exon Skipping

Gene
ENSMUSG00000073411 | H2-D1
Description
histocompatibility 2, D region locus 1 [Source:MGI Symbol;Acc:MGI:95896]
Coordinates
chr17:35403427-35404444:+
Coord C1 exon
chr17:35403427-35403459
Coord A exon
chr17:35403633-35403671
Coord C2 exon
chr17:35403811-35404444
Length
39 bp
Sequences
Splice sites
3' ss Seq
TTTGTTTTGTTTTACCCTAGGCT
3' ss Score
10.16
5' ss Seq
AAGGTGACA
5' ss Score
5.19
Exon sequences
Seq C1 exon
GTGGAAAAGGAGGGGACTATGCTCTGGCTCCAG
Seq A exon
GCTCCCAGAGCTCTGAAATGTCTCTCCGAGATTGTAAAG
Seq C2 exon
CGTGAAGACAGCTGCCTGGACTGTACTGAGTGACAGACGATGTGTTCAGGTCTCTCCTGTGACATCCAGAGCCCTCAGTTCTCTTTACACAACATTGTCTGATGTTCCCTGTGAGCTTGGGTTCAGTGTGAAGAACTGTGGAGCCCAGCCTGCCCTGCACACCAGGACCCTATCCCTGCACTGCCCTGTGTTCCCTTCCATAGCCAACCTTGCTGCTCCAGCCAAACACTGGGGGACATCTGCATCCTGTAAGCTCCATGCTACCCTGAGCTGCAGCTCCTCACTTCCACACTGAGAATAATAATTTGAATGTGGGTGGCTGGAGAGATGGCTCAGCGCTGACTGCTCTTCCAAAGGTCCTGAGTTCAAATCCCAGCAACCACATGGTGGCTCACAACCATCTGTAATGGGATCTAACACCCTCTTCTGCAGTGTCTGAAGACAGCTACAGTGTACTTACATATAATAATAAATAAGTCTTTAAAAAATAATTTGAAAGT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000073411-'6-10,'6-8,7-10
Average complexity
S
Mappability confidence:
86%=100=100%
Protein Impact





	

	
Alternative protein isoforms (Ref)





No structure available

		

			
Features


			

				
Disorder rate (Iupred):
  C1=0.667 A=0.214 C2=0.000
 
                        

				
Domain overlap (PFAM):

					





						

							
C1:
PF066236=MHC_I_C=FE(42.3=100)

							
A:
PF066236=MHC_I_C=PD(46.2=85.7)

							
C2:
NO

						

					

				








    
Main Inclusion Isoform:
ENSMUSP00000084418





     
                   









    
Main Skipping Isoform:
NA





     
      









    
Other Inclusion Isoforms:
ENSMUSP00000133518, ENSMUSP00000134570, ENSMUSP00000134582
          









    
Other Skipping Isoforms:
NA
  



Associated events







Other assemblies


mm10




Conservation


Human
(hg38)
chr6:31269339-31269385 
HIGH PSI
HsaEX6046248
(HLA-C)
Human
(hg19)
chr6:31322256-31322303 
HIGH PSI
HsaEX6046252
(HLA-B)
Rat
(rn6)
chr20:4674742-4674788 
Cow
(bosTau6)
chr23:27603551-27603597 
HIGH PSI
BtaEX0000333
([1])
Chicken
(galGal4)
chr16_JH375196_random:6684-6688 
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
chr19:7130699-7130722 
HIGH PSI
DreEX6071829
(mhc1uka)
Fruitfly
(dm6)
No conservation detected




Primers PCR

	

		

			
Suggestions for RT-PCR validation

			

				
F: 
AAGGAGGGGACTATGCTCTGG

				
R: 
AAGAGAACTGAGGGCTCTGGA

				
Band lengths: 
112-151

			

		

	





	
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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