Special

MmuINT0103261 @ mm9

Intron Retention

Gene
ENSMUSG00000018830 | Myh11
Description
myosin, heavy polypeptide 11, smooth muscle [Source:MGI Symbol;Acc:MGI:102643]
Coordinates
chr16:14224071-14226745:-
Coord C1 exon
chr16:14226552-14226745
Coord A exon
chr16:14224193-14226551
Coord C2 exon
chr16:14224071-14224192
Length
2359 bp
Sequences
Splice sites
5' ss Seq
AGGGTGAGG
5' ss Score
7.13
3' ss Seq
GGCCTCTTCCATCCCCACAGTCT
3' ss Score
9
Exon sequences
Seq C1 exon
TGGACCGCATTGTGGGGCTGGACCAGATGGCCAAGATGACTGAGAGCTCACTGCCCAGTGCCTCCAAGACCAAAAAGGGCATGTTCCGCACCGTGGGCCAGCTCTACAAAGAGCAGTTGGGGAAACTGATGACTACACTGCGCAATACCACGCCTAACTTTGTGCGCTGCATCATCCCCAACCATGAGAAGAGG
Seq A exon
GTGAGGCATATCCCAACTTGGGCCTCCTGCATACGGGATAGTACTGGGGTGGGGGACTGTGGAAAGGAACCTGGGAGACAGCAAGGTACACTAATGAGGTGAATGGGCAGAAAGAGGGGTCTGACCTTGGTTCCTGCCCTGAGCACCATCAAAGAAGGCCTGCACCTACACATGTAGAAAGTTGTCTGGATTTGGGCCTCTTCCACATGTCTGAAAGCAAAGGAAAGCAAGGAGGGAAAGAAGGGACAGAAGGGGGAGGGAACAAAGGAGGGAAGGAGGAAGGAGGGAAGGGCATCTTCCCAGAGAATGCTCAGCTAGTTAGAAGCATTGGGGTGTGAGGCCACCATTTCTTCCATTCTTCCAGTAAATGCTGGCCAAGCTGCCACTGTGACTGACAGTTGGGATACAGTGTTGAAGAAATCACTGAGCACACATTTGCTTTTGTCACAATGGAAAGAGGATTGCTACAGCATCTAGAGAGAGGTCACAGAGGCTGAGGGACAGCTCAGTGTGTTCCCACAACAAAGAATTAGTGGGCCCAAAATGTCACTGAGGCTGAGGTTATGAGAGACCACAGGGACCTTGATACATAGCCTAGAAACATGATAATAAATCAGGAAAATAACAAAAATCTGGGCTAACTGCTTCTGCTTCAAGAACTTTTAGAATGGGTAGATGGGCTGGGCAGGTAGCTCAGTGGGCAGAGGCTCTTGCTGTTAAGGCTAATGACCTGAGTTCCATCCCCAAGATCCACATGGTAGGAGGAAAACCTGCCTGCCACAGGATGTCCTCTGACCTTCACATATGTATGTGGCATACCTGTACCCACACCTACCCCCATATACAACATAAATAAATAAATGCCATTTTTAAAGGTATGGGTATCATCAACTTGGTGAAGTACGTAGCAGAGTATGAGTGTGTTTGGAGGCATTTTAGGCCAAGATCTTGGGGTAAGAAAAAAGAGAGAGGGGTAAGAAATTAAGTCTAGGCAGGAAAGCTATAGCTAGGTAACTGTGTATTGTTTTTGCTTGTGTACGTGTGTGTACACGCCTGTGGATGTGGGGTATACAAACACAGTGCACTGTAGAAGTAAAAACACAAGCTCTGGCATCGGGCCTTAGCCTTAGGTATCTTCTATTTCTGTGTGGAGCAGCTTGCTCACTGGCCTGGAGCTTTACCATGTCGAACAGATGAACTGGTCTGTAAGCTTTTTGTAATCCCCCTGTCTCTGTGCTCCCTTCTTACAGTTCTAGGATTATAGGTCCATGCCACTATGCCAGGTTTTTACATGGGTTCTGTGGATTTGAACTCTAGCTCTCATGCTTGCAAGGCAGGCACTTTGTGGAGCAAGGCATCCTCCCAGCCCCTTTGTTTCATATTGGTACATAAAGGTATAAAATAGGGATGGGACTATACTAGCTTATAGAGTTCCATTTGTGATGGCTAGAGATTGGTATCCTGTCTGTAGGAAACTACTGAAGGAATTTAAGTAGTAGGTCATGATCAAAATTATACTTTAGACCAAATGAGGAGTTAGAAGAGGCAGTCAGGGCTGAGGGGAGATGATCAAGTCGGAAGGTGCTGCAGTTGTCTGGGCAGAGACAGACAATGGCCTAAAAAAGTAGATTGGGGAGGTAACTTAGCCATTAACGTGCTTACCACACAAGTGTGACTTGGAACCCCAGAAACCCACATGAATGCTAGGTGAGTTTGGTGGCCACTTGTAACTTCAGTCTCAGAAGACAGAGGCAAGGAATCCCCAGAATTCCAGCTAAGAAACTACTGGTACTGGTGACTTTTGAGTTTGAGTGAGTGAATGAATGAATGAATGAATGTCTCAATGAATAAGATAGAAGAGTGAATGAGGATGATTTCTGACACCAACTTTGTGCATTCAAATGTGTACAAACACACGTGAATATACAGACATCACACAATGCACATCCACACCCACCACACACATATCATGCACACGTACACAAGTCAACATGTATGCTCTCATAGACATGCGAAGACATGAATGTATACATGTGCACACCACATCTGTTTTGGTTTTTATTTTTTAAAGAAATGTATTGGGAGAGACGTGGGGGGCAAGAGCTAAGGGTGGTAATGGCCCAGAAGTAAGAGAGAGGGTAGTGATGGAATAACAACTTCAGCTTCTAGCCAGGGGTGCTGGCACCACCAGGCACAATGGGGAATATAAGAAAAATAGGGCCAAAACGTGGAAACCCAGAGATGGTAACAAGGCACACTGTCTCTCAGATAACCCCTGTTAAGACCCCACAGATCTCCAGGTATATTTTCCAGCAGGGCTCGCTGCTCCAGTGCTCACTGGCCTCTTCCATCCCCACAG
Seq C2 exon
TCTGGCAAGCTGGATGCATTTCTAGTGCTGGAACAGCTGCGCTGCAACGGTGTGTTGGAAGGCATCCGCATCTGCCGTCAGGGCTTCCCCAACAGGATTGTCTTCCAAGAGTTCCGGCAACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000018830-Myh11:NM_013607:16
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact





	

	
ORF disruption upon sequence inclusion





No structure available

		

			
Features


			

				
Disorder rate (Iupred):
  C1=0.046 A=NA C2=0.000
 
                        

				
Domain overlap (PFAM):

					





						

							
C1:
PF0006316=Myosin_head=FE(9.3=100)

							
A:
NA

							
C2:
PF0006316=Myosin_head=FE(5.8=100)

						

					

				








    
Main Inclusion Isoform:
NA





     
                   









    
Main Skipping Isoform:
ENSMUSP00000076484f572A





     
      









    
Other Inclusion Isoforms:
NA
          









    
Other Skipping Isoforms:
ENSMUSP00000076484, ENSMUSP00000087756
  



Associated events






Other assemblies


mm10




Conservation


Human
(hg38)
chr16:15748169-15750137 
LOW PSI
HsaINT0107506
(MYH11)
Human
(hg19)
chr16:15842026-15843994 
LOW PSI
HsaINT0107506
(MYH11)
Rat
(rn6)
chr10:819704-822067 
LOW PSI
RnoINT0096349
(Myh11)
Cow
(bosTau6)
chr25:14252233-14253879 
LOW PSI
BtaINT0097126
(MYH11)
Chicken
(galGal4)
chr14:7576806-7576941 
ALTERNATIVE
GgaINT1018538
(MYH11)
Chicken
(galGal3)
chr1:53802386-53802722 
LOW PSI
GgaINT0105090
(MYH9)
Zebrafish
(danRer10)
chr22:288973-289256 
DreINT0099802
(myh11b)
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"