Special

MmuINT0050881 @ mm9

Intron Retention

Gene
ENSMUSG00000005237 | Dnahc2
Description
dynein, axonemal, heavy chain 2 [Source:MGI Symbol;Acc:MGI:107731]
Coordinates
chr11:69237009-69237557:-
Coord C1 exon
chr11:69237366-69237557
Coord A exon
chr11:69237194-69237365
Coord C2 exon
chr11:69237009-69237193
Length
172 bp
Sequences
Splice sites
5' ss Seq
GAGGTTTGT
5' ss Score
6.36
3' ss Seq
TGGGTTGGGACTTCACATAGGTG
3' ss Score
4.04
Exon sequences
Seq C1 exon
GGTCTAAAGGCCAACATGACACGTCTTTATCAGCTGATGACAGAGGCACAGTTTACCCACTGCTCCAAGCCTGCCAAGTATAAGAAGCTGCTCTTTGCCCTCTGCTTCTTCCATTCCATATTACTCGAGCGCAAAAAATTTTTACAGCTTGGCTGGAATATTATTTATGGCTTCAACGACTCTGACTTTGAG
Seq A exon
GTTTGTGCTAACCTGGGGTCTCCCATGCCATCTCTTTCTTCTCATACTTCAATGCGCCGTGGGATCTTTTGTGGGAATCTTGGTTGCCAGGAAGCTGATGTTAAACCCCCACTAGGAGAGCTCTTGCCATAACTATATGGCACTTGGGGGCTTGGGTTGGGACTTCACATAG
Seq C2 exon
GTGTCAGAGAACCTGCTGAGCCTCTATCTGGATGAGTATGAAGAGACACCCTGGGACGCGCTCAAATACCTCATCGCTGGTGTCAACTATGGGGGACATGTCACAGATGACTGGGACCGGCGTCTGCTCACCACCTATATCAATGATTATTTCTGTGATCTGAGCCTAACAACTCCCTTCTACCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000005237-Dnahc2:NM_001081330:78
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact





	

	
ORF disruption upon sequence inclusion





No structure available

		

			
Features


			

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

				
Domain overlap (PFAM):

					





						

							
C1:
PF0302810=Dynein_heavy=FE(8.9=100)

							
A:
NA

							
C2:
PF0302810=Dynein_heavy=FE(8.6=100)

						

					

				








    
Main Inclusion Isoform:
NA





     
                   









    
Main Skipping Isoform:
ENSMUSP00000104299





     
      









    
Other Inclusion Isoforms:
NA
          









    
Other Skipping Isoforms:
ENSMUSP00000047329, ENSMUSP00000104299f218A
  



Associated events







Other assemblies


mm10




Conservation


Human
(hg38)
chr17:7830492-7830657 
ALTERNATIVE
HsaINT0049664
(DNAH2)
Human
(hg19)
chr17:7733810-7733975 
ALTERNATIVE
HsaINT0049664
(DNAH2)
Rat
(rn6)
chr10:56032158-56032323 
LOW PSI
RnoINT0048935
(Dnah2)
Cow
(bosTau6)
chr19:28131703-28131857 
BtaINT0050475
(DNAH2)
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
chr7:21326508-21328615 
LOW PSI
DreINT0009268
(DNAH2)
Fruitfly
(dm6)
No conservation detected




Primers PCR

	

		

			
Suggestions for RT-PCR validation

			

				
F: 
AGTTTACCCACTGCTCCAAGC

				
R: 
TCATCTGTGACATGTCCCCCA

				
Band lengths: 
253-425

			

		

	





	
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
  • Muscular differentiation time course
  • Spermatogenesis cell types
  • Reprogramming of fibroblasts to iPSCs
  • Hematopoietic precursors and cell types






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