Special

MmuINT0050672 @ mm9

Intron Retention

Gene
ENSMUSG00000018581 | Dnahc11
Description
dynein, axonemal, heavy chain 11 [Source:MGI Symbol;Acc:MGI:1100864]
Coordinates
chr12:119298767-119302424:-
Coord C1 exon
chr12:119302264-119302424
Coord A exon
chr12:119298924-119302263
Coord C2 exon
chr12:119298767-119298923
Length
3340 bp
Sequences
Splice sites
5' ss Seq
CAGGTAACA
5' ss Score
8.88
3' ss Seq
TTGTGTTTTGTTGTGTGAAGGTG
3' ss Score
7.72
Exon sequences
Seq C1 exon
GTTGTCAGCCCCCATGCTTTTACCTGGCTGTCTCAACTCCGACACGAGTGGGAGGATTCAAGGAAACACTGCGTTGTTAATATTTGTGACGCCCACTTCCAGTACTTCTACGAATACTTGGGAAACAGTCCACGGCTGGTGATCACTCCTCTCACTGACAG
Seq A exon
GTAACACATATAGCTTCCCACAGAGGAGAGAACCAAGCCCCAGTGTCCTTTTGTGTAGATGGAGTGGCATAAGGATGAGAAGAGAGGCCAAGGGGAACAGAGGGACCTGTTAGGAAGCAATAATGAAAGCAGCATGGAAAGTAACTATGCAAGACACCAAGTGTTAACTTTAGAGATAAGATGAAGAAAATTTGAATTAAGAGAGACAGAATTACAGAAGTAATGCAATCATAACAAACGGAGAAGGGATGTGTGGATTAATGTGGCTCAAGGAAGCCTGGTTGTGCCTGAGGCCTTTGTCCACTATCTCTGCCATCATCATCTCCTCTGTCCCTGTCCTCTTTTTGGAAGTGCAGGCGTAGCGAGGACAGCCTATGATGACTGCCATTTTCCTGCATACAGTGATGAGAGAGAAACTAAGATTCATTAAAGGAGTTATCAAGTATTTATGAAGAGCTGTGCTAAGAACTGTCCACAGTGTCTTTGCTGTCACAGTGATCAAGTTCCAGCCGAGTGTGGTGTTCAAGTAGGTGAGGATGAGAGAAATGGCAGGTATTTATTTTAGGGCGCATTGCTTGCTATAATAGAAGCATAATAGAGTGATTTGTCAAAAAGGGTCTGGAAGGAATCATCTACTTCAGATTGAGTTTCCCTGTCTGAAATGCTTGGGTCCAGAAATATTTCCAATTCAGGATATTTTTAGATTTTTGAAATATTTGCATAGATGCTCCAAGTTGAGCATCCATAATCTGAAAATGAAACTCTCAAATGCTTAAAAAGCATGTTTTAGAGCATTTCAGACTTTGGATTAAAATCTTTGTAGGCTAAGAAGACCTTTGAGATAAGACCCAAGTATAGAATCAGCTGCACCCAGATTCTAGGGTAGAGATTTACAGACATAGTTAAATACTGAAGTTCCAAGGTAGGCAGGAGCTTGGCTGAGCTAAAGGACAGGAAGACAGCCAAAGTGGTCTAGGAAAATCGTAGGGCCAGCCAACTGATTGCTACCAAAAGCTCATTGCTATTTCGTGATCCACAAATAGATACATAGAATTTTGCAGAGGTAAAGATGTCTCCCAGATATGAATTCTTTTATTAGGATTATGGCTCCTTTTAATTATGTGGTATGAGCAAGCACACTTAATCTTTGGTATTTAGGAGGTGGGGAATCCTACCTCATTGTTTCTAACTATGTCCTATGACTGAAGTATAAACAGATTGTAAGATATTTATGTCCCTGAAGACTCTGGCAGGATTTCCTAGGGCGGGGATTGTTTGTGTACACATTAATAACAACACAAGTTTATCACTTATATATTGTACAACTTCTGGAACTGTCTAAATCAGGTCTCCTTAACTTTACCTTCGCTCTGTCATTTAAGTACAATTAAAAAGAACTGGGCGTCGTAGTTTGACGTAATTACCTGAAAGTAGCCGCAGATACTTTGTGCATACCACCATGAAGAGAGACGAGGGGAAGAGAGGGGAAGGAACAGGAGAAAAGAAGGGAAATGTAAACTATTCCAGTGTGTAACGTTGGTTGCTTAGTAAATTTTGAATTGAAAACTCTCTGTGTGCTTCATTTGGAAGTTTAAGAAGTGCATGTTCTCTTGGTAGCACAGATAATGTTGGAAAGGGTATTCATTCAATGGTGCATTTCATTTCCCTTTCATCGCTGGCATACCTGTGAATTGTTGTAAGTGTGAGGATTCCCTCTAAGTGCATCCATTCTGTCTCATTTGACATTTGATGTGGCCATCTCTTTGGAAATTAGGTAGGGCCAATGCTGACTCCCCTTACGTCATCACATTCAGAGACAGGCTGGCCAGCTTGCCACTGACAGACTGGTAATGCCTGCAGTGGCTATAGTGGTGAAGATATTGCTGGTTAAGGTGTCAGTAAGAAAAACACTAAAATTCAATGTCTTTTTTTATCTTTATTTTTTTTTTTTCGAGACAGGGTTTCTCTGTGTAGCCCTGGCTGTCCTGTCTACTTTGTAGACCAGGCTGGCCTCGAACTCAGAAATCTGCCTGCCTCTGCCTCCTGTGTGCTGGGATTAAAGGTCTGTGCCACCACGTCTGGCAAATTCAATGTCTTAATGAACACAGAAGCTGATGTCTCACTGTAGAGGTGAGCATGCCCAATCATGGCCAACTGAGTATGGCTTCCCCGGTTGCTACAGTCAGTAGAAAGGGAGTCCAGAGGAAATGTCCTCAAGCAGGTGTCCTAGAAATGCCATTTTTGCATACACTACATTTGTTAGGCATTTGGTTCCTACTGTGGACAGAGAGGACAGGTTCTACAAAGAGGGCTCAGTTCCTGGTATACGAGTCTTTTCTCCTCTATTTTGCTGTGAATTGCTCTTCAACCTGCATCTGACAGAAGGGCTGTTGCCCATTTTCTGCTTATTTCTATTGGCATGGCACTTTGAACTCTTCAGAGCTTTCCCCCTGGACTTTCTTCATGCAGCCCCACAGAAAGCTCACTTTGTAGATAAGAGGCCTCAGGATGCAGAGGTCAGAAGGCTTCGGGCTGATGATATCTGATGATCTACAGAATAGATCTTAGATCTTAGTCCCTGGTCTACCAACTCTAGGCATGACTGTCACTATCTGTACTAACACAGAAATAGCATGGAGACCCCAGGTAAAGATCACCAGCTGCTTGAGGAATACTTGTTACTAGTTGCTCCTTTTGCAGATATTAAGTTCTATCCTTTGGATGAGACTTTTAGTCTCAGAACCTCTGGCCTCTACCTACCCAAATAAGTATCATGGTCTAAATGCATGTGCAACACATTCTAAATAAATTCCTAAAGTACGTTGACTGCAGTGTTTTAGTCAGTATAGTACCGTGCACTTGCAATCACCTTCTGTATTGAAGTAGGCATATATTCTTGCTCACATATACATGCACATTTCAACTCTTAGTGTATTTGTTACAGAACAATTTAATGCAGTCATATTTAACTTATCATCATCTAAGGCCCATTCCCCCTCACTAGTCTGTCTATACCCAGTTTGAGGTATTATCTACCTTATTAATAATATCTTCACCTAGAAGTATCAGATATTCAATCACATCACAAATAAAGATATTTTTATCTCAGCCCTTAGGAGATGAGACAGTGGGTAAATAAAATAGCACACTCTTTTCTACTTGTTTTAAATGGCCAACCTAGAAGGCTGATTCACATTTGCCATGAACAAATCCAAAGCTCACAGTTGGTTTTTGCTTCTAGGCTTTGGTTTTTAGCCACTTTTTAAAAGAAAATCATTTAGACTCAGTGTACCGTAAAAGAGCAGGCTTGACTGCAGTGTTTGTGTTTTGTTGTGTGAAG
Seq C2 exon
GTGTTACATCACTTTAACTCAATCACTTCATCTGACCATGAGCGGCGCTCCGGCTGGCCCAGCTGGAACAGGGAAAACGGAAACCACCAAAGACCTTGGCCGTGCCCTGGGCATGATGGTTTACGTATTCAACTGCTCAGAGCAAATGGACTACAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000018581-Dnahc11:NM_010060:32
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=0.151
 
                        

				
Domain overlap (PFAM):

					





						

							
C1:
PF127742=AAA_6=PU(8.2=35.2)

							
A:
NA

							
C2:
PF127742=AAA_6=FE(22.5=100)

						

					

				








    
Main Inclusion Isoform:
NA





     
                   









    
Main Skipping Isoform:
ENSMUSP00000081867





     
      









    
Other Inclusion Isoforms:
NA
          









    
Other Skipping Isoforms:
ENSMUSP00000081867f560A, ENSMUSP00000135748
  



Associated events






Other assemblies


mm10




Conservation


Human
(hg38)
chr7:21683945-21687098 
ALTERNATIVE
HsaINT1011331
(DNAH11)
Human
(hg19)
chr7:21723563-21726716 
HsaINT0049316
(DNAH11)
Rat
(rn6)
chr6:145971447-145974985 
LOW PSI
RnoINT0048662
(Dnah11)
Cow
(bosTau6)
chr4:30554051-30557586 
LOW PSI
BtaINT0050258
(DNAH11)
Chicken
(galGal4)
chr18:1068534-1069619 
LOW PSI
GgaINT0127357
(DNAH9)
Chicken
(galGal3)
chr18:1050819-1051895 
GgaINT0127357
(DNAH9)
Zebrafish
(danRer10)
chr5:2261860-2301048 
LOW PSI
DreINT0006794
(CIT)
Zebrafish
(danRer10)
chr6:10422100-10423664 
DreINT0058307
(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
  • 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"