Special

MmuINT0051249 @ mm10

Intron Retention

Gene
ENSMUSG00000056752 | Dnah9
Description
dynein, axonemal, heavy chain 9 [Source:MGI Symbol;Acc:MGI:1289279]
Coordinates
chr11:65911791-65915224:-
Coord C1 exon
chr11:65915036-65915224
Coord A exon
chr11:65912027-65915035
Coord C2 exon
chr11:65911791-65912026
Length
3009 bp
Sequences
Splice sites
5' ss Seq
AAAGTACGT
5' ss Score
7.99
3' ss Seq
GAGTGTCACCTCTTCATCAGGTT
3' ss Score
5.31
Exon sequences
Seq C1 exon
GTTGGAGGCCTTGCATCTGAGAACATAAGGTGGGCAGAGGCTGTGCAGAACTTCAGACAGCAGGAAAGGACGTTATGTGGCGACATTCTGCTTACTACAGCTTTCATCTCCTACTTGGGCTTCTTTACCAAAAAGTACCGAAAGAGCCTCATGGATGGGACCTGGAGACCCTATCTGAGCCAACTGAAA
Seq A exon
GTACGTAAGGCCTGAATTTGTCCTCTGTGTGTCACTGAGATCATATGAACCCAATCACCCAAACCTTCCTGTACTTGTCTATGTACTGCCACTCCAACCTGAGCAGCAGGCATGTAGGAACATGCATGCAACATGCCCTTGGTATAGTCTTACCACTCAGGCTCATCAGTTCCCCAAACATGCCATGTCAATGGAATGCAAAAGACATCCCAGGCCAGGAGGGCTTAAGTACATTCACAGTCCAATGGAGGTACTTAGGTCCACAGACTTCCTCAGCAGGAAGAGTGAGCACAATTCACACGGTACCCTGAGGTGTATCCCAAACTCCATTCATGATTATAGCCCGATAATGCAAACTGCATTTTGTATAGTGATAGCCAAGTTTTCCCAGATCCGCTCATAAAATTCTGCCCACTTGATCATTTTGATGGACTGGTTTAAAATGGTTACAGTTCTAGGAATGGCACAGATACTAGTTCAGCAGTAACTAGTGGCACTATTTGTGTTAAATCTTTGAGCGAACAGCACTAGTTGAACTGTGATTTCATTCATCATGAACTCATGGAGGAAGAACTGTCAATCATAGATGATGAATGGCCCTTAGCAACATAGAGGGATTGGGTTTGTTTGAGACTCATAAGTGTTTTGTGTCACAGGCTCCTTTGGGAGTGCCTTAGCCTGTTTTGGGGTGCTATAACAGAGTGCTGGAAAGCAGGAAATCAATAAAGACCTGATGTTTACTTGGTTCATGATGCAGCATCCTGGTAAGTCTGCTGCAGACCTCAGTATGTTGACATTGTATGCCAGTAGACAAGAGAGCAAGAGAATGAGAGCCAAGGAGATAGATGGGATCAAATTCACATTTGTGACCCACTGTCACAGGAACTAATTTACTACCATGATATCAATGGGAGCCATGTACAGAACAGAGCCACAGTGGCCTGTTCACTAGTGATTAAGTTTTTAACACCTAAGTTTTGGGGAACACATTCAAACCACATAAAGTAGTCTGGCAAAGTCTATGAATCCCAGATCAGAAACAAGTTTTAAGCTTGGTAGAGTATCTTATACATATGTGACATATATGTAATTACAACAGTTAGGCTGAGATGAGAGGATTCTGAGTTCAAGCTCAACATGAGCAACATAGTAAAAATGTTGTAGGGAAGGAAAAGAACGAAAGAGTAGAGAGAGTGTGTGTCTTAGTTAGGGTTTCATTGCTATGAAGAGACATCAAGACTACCGCAACTCTTATAAGGGCAATATTTAATTGGGGCTGGCTTACAGGTTCAGAGGTTTAGTTCATTATCATCAAGGTGGGAGCATGGCAGCATCCAGGCAGGCATGGTACAGGAGGAGCTGAGAGTTCTACATCTTCATCTGAAGGCTGCTAGGAGAGGACTGGCTTCCAAGGTTTTAAAGCCCACACCCACAGTGGCACACCTATTCCAACAAGGCCACACTTCCAAATAGTGCCACTCCCTGGTCCAAGCATATTCAATGATGAGAGAGAGAGGGGGGTAGAAAGAAGGGGGGAAGAGAGGGATGGAGGGAAGGAGAGAGAGAATATGAGTTTGATGCTGTATCATGGGCTATCTGTTTCCTTCATTTAAACTCATTTAACCTATGACATAGTAGCATAATATTCTCACCTATAAGCTTCACACTCTAGATTTATTTAATTGAGTTGAAAAAAACTCACACAAATGACATTATGATTTAAGTAAGTTGATGATTTTTGGAAGGACACATTCAAAGCTATCCTGGATATCATGTGGCCACAGGGCCACCACTTGAACATGCCTAAAGGAAAAGGAGATGGTTTAAATAGTTTCCCTGAGTTACCTAGGCAAAACAAACTACAAAGGGAGTTGAATCAAAGAGTTTAAATGGTGTTAAGTCTAAACCTTAAAACCATTATTCTAAATGAAAGTGGCCAGACACAAAAGGTCACATAGTATAAGATTCCATTTTTATTAAATATCCAAAGTAAGAAAATCTATAGAGACAGAAAGCATATTAGTAATTGCCAGGAGCTTGCAGTAGAGAGACACAGGGAGGGATTGTTTAATGAGCCCAAAACGTCCTTTGGGGCCATGAAAATACCTGAGAGTAAATGGACCAAGCTGAAAGCTGCATAGCCCTGTGACTGTACTATCCCCCACCGACCTGCACACCTTACAGTAGTTCATTTTACATTGTGTAAAGTTTACCTCCTTTTAAAAGTTCATAAGTCAATGAAAAAGGTTGTTTATAGAAGAATTAGGTGAGCTGAGAGAGGCCAAAATAGAAAAACAGAAAGGGTTCTTCAGCCCTGAGAGTGATGTGGGTGGAGTTCTCAGGGCTGAGGATGTACTCAAGGTATGCTTGCTTTTCGGGGAGGGGGTGTTGTGAGCAGTCTTGAGGAGGGAAGATTGGATTAGGGGAAAGGAAACTTCCCTAGCCTTTTACAAGCTGGTAAAATAGATGAGTGGAGAGAGTGGTCTATGTGAGCTGGTACTGTCACCAGAAAACTGACTTGAGAAATCAGAAAATGGCAGAGAAGTAAATGCTCATATGGCTTTGGACATTATAGAAATAATCAGGTTGGCAAGATAGCTCAGTCTCCAAACCTAACTACATGAGACAGATCATAGAGACCCATAGTAGAGGGAGAAAACTTATTCACCCAAATTATACTCTGACATTGACACACATGCCATATCATGTGCACGCCCACCCACATACATATACATGCATGTACACGCAATAATTATTTTAAAGACATAAATAACATATAAAAGAATGTTACTTAAATGAATATACTAAAGAACAAAGAATTGGTCACAGGGAAAATTTCTATTGTTCATCCTTCAGGGTGATTTCAGCAACAGTAACATAGCCAAGTAAGCCCACCCACATCAGGAGGATGTTGGTCTTGCTTTTAAAGGCATTATATTATGCAATGAGACACTGTGGATTCTCCCCCACAGAGATAGTTTTCCATTCAGAGTGTCACCTCTTCATCAG
Seq C2 exon
GTTCCCATTCCAACCACCCCAACTCTGGACCCCCTGAGGATGCTAACCGATGATGCTGAAGTGGCTGCCTGGCAGAATGAGGGTCTCCCTGCTGACCGCATGTCCATGGAGAATGCTACCATCCTCATCAACTGTGAGCGCTGGCCTCTCATGGTCGACCCTCAACTGCAAGGCATTAAATGGATCAAGAACAAATATGGAGAAGAACTCCGGGTCACCCAGATTGGCCAAAAGGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000056752:ENSMUST00000080665:52
Average complexity
IR
Mappability confidence:
NA
Protein Impact





	

	
ORF disruption upon sequence inclusion





No structure available

		

			
Features


			

				
Disorder rate (Iupred):
  C1=0.000 A=NA C2=0.013
 
                        

				
Domain overlap (PFAM):

					





						

							
C1:
PF127772=MT=PD(16.9=92.1)

							
A:
NA

							
C2:
PF127772=MT=PD(3.5=7.6),PF097314=Mitofilin=PD(0.1=0.0),PF127812=AAA_9=PU(64.4=82.3)

						

					

				








    
Main Inclusion Isoform:
NA





     
                   









    
Main Skipping Isoform:
ENSMUSP00000079494





     
      









    
Other Inclusion Isoforms:
NA
          









    
Other Skipping Isoforms:
ENSMUSP00000116499
  



Associated events






Other assemblies


mm9




Conservation


Human
(hg38)
chr17:11871787-11874948 
LOW PSI
HsaINT0050090
(DNAH9)
Human
(hg19)
chr17:11775104-11778265 
LOW PSI
HsaINT0050090
(DNAH9)
Rat
(rn6)
chr10:52417160-52420371 
LOW PSI
RnoINT0049280
(Dnah9)
Cow
(bosTau6)
chr19:31185587-31188448 
LOW PSI
BtaINT0050833
(DNAH9)
Chicken
(galGal4)
chr18:1136311-1137577 
LOW PSI
GgaINT0127383
(DNAH9)
Chicken
(galGal3)
chr18:1118598-1119864 
LOW PSI
GgaINT0127383
(DNAH9)
Zebrafish
(danRer10)
chr12:114903-115306 
DreINT0058341
(dnah9l)
Fruitfly
(dm6)
No conservation detected




Primers PCR

	

		

			
Suggestions for RT-PCR validation

			

				
F: 
No suggested primer sequences

				
R: 
No suggested primer sequences

				
Band lengths: 

			

		

	





	
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"