Special

MmuINT0050889 @ mm9

Intron Retention

Gene
ENSMUSG00000005237 | Dnahc2
Description
dynein, axonemal, heavy chain 2 [Source:MGI Symbol;Acc:MGI:107731]
Coordinates
chr11:69234311-69234922:-
Coord C1 exon
chr11:69234772-69234922
Coord A exon
chr11:69234650-69234771
Coord C2 exon
chr11:69234311-69234649
Length
122 bp
Sequences
Splice sites
5' ss Seq
AGGGTGGGA
5' ss Score
2.36
3' ss Seq
CTTCTTTTCTTCTCCCCTAGGCA
3' ss Score
12.25
Exon sequences
Seq C1 exon
GATGGAGTTTGGGTTCGGGGCCTGTACCTGGAGGGTGCTGGCTGGGACCGAAAGAATTCTTGTTTAGTGGAGGCGGAGCCCATGCAGCTGGTCTGCCTCATGCCCACGATCCACTTCCGTCCAGCAGAGAGCCGAAAGAAAAGTGCCAAGG
Seq A exon
GTGGGAAACTGCCCCCTCCCTATCCCGTTTGGATACTAACCCATCCTCCCTGCTCCAGTTCCCAAATGCACTTGCTCTGATCTTCCAGGCTCCAGAATCTTACTTCTTTTCTTCTCCCCTAG
Seq C2 exon
GCATGTACTCCTGTCCCTGCTATTATTATCCCAACCGGGCAGGCAGCACAGATCGAGCCTCCTTTGTCATAGGCATCGATCTCCGATCTGGATCCATGACATCTGATCACTGGATTAAGAGGGGCACTGCTCTACTGATGAGCCTGGACAGCTGATGAGCTCTTCTCTCCTCCTTGAGAGGGTCGGAAGCCCTAGGACCTTGAACTAAAGCTGGATCTCAGGCTTTGACTTTAGCTGAATCTAGCATATAGTGACACTCTGACAGTACCTAGTGGCGCTAGCGGAAAAGGTGGAAGACTTGTATTGGCGCTCAGTGCAGTAAAAACCGTGCAAAACCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000005237-Dnahc2:NM_001081330:85
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact





	

	
Alternative protein isoforms





No structure available

		

			
Features


			

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

				
Domain overlap (PFAM):

					





						

							
C1:
PF0302810=Dynein_heavy=PD(5.9=89.4)

							
A:
NA

							
C2:
PF0302810=Dynein_heavy=PD(6.7=90.4)

						

					

				








    
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)
chr17:7833222-7833378 
ALTERNATIVE
HsaINT0049672
(DNAH2)
Human
(hg19)
chr17:7736540-7736696 
ALTERNATIVE
HsaINT0049672
(DNAH2)
Rat
(rn6)
chr10:56029361-56029483 
LOW PSI
RnoINT0048942
(Dnah2)
Cow
(bosTau6)
chr19:28134103-28134270 
BtaINT0050483
(DNAH2)
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
chr7:21359772-21359876 
LOW PSI
DreINT0009276
(DNAH2)
Fruitfly
(dm6)
No conservation detected




Primers PCR

	

		

			
Suggestions for RT-PCR validation

			

				
F: 
CTGGCTGGGACCGAAAGAATT

				
R: 
AGCAGTGCCCCTCTTAATCCA

				
Band lengths: 
245-367

			

		

	





	
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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