Special

MmuINT0103271 @ mm9

Intron Retention

Gene
ENSMUSG00000018830 | Myh11
Description
myosin, heavy polypeptide 11, smooth muscle [Source:MGI Symbol;Acc:MGI:102643]
Coordinates
chr16:14212611-14216000:-
Coord C1 exon
chr16:14215829-14216000
Coord A exon
chr16:14212824-14215828
Coord C2 exon
chr16:14212611-14212823
Length
3005 bp
Sequences
Splice sites
5' ss Seq
CAGGTGTGC
5' ss Score
6.46
3' ss Seq
GGGTTCTCCATTCCGGGCAGGCT
3' ss Score
5.92
Exon sequences
Seq C1 exon
TGAGGCTGAAGAAAGAGGAGAAGAGCCGGCAGGAGCTGGAGAAACTCAAGAGGAAACTGGAGGGTGATGCCAGTGACTTCCATGAGCAGATCGCTGACTTGCAGGCCCAGATTGCAGAGCTCAAGATGCAGCTGGCAAAGAAAGAGGAAGAGCTACAGGCAGCTCTAGCCAG
Seq A exon
GTGTGCTAGGTGTACATATGTGTGTCTATGTGTGTCCAGAGGCCCTTGGCATGGATGTCAATTGTCAGACCTGGTTTCCTGCAAGCTTTCCCAACGATGCTCTGACCCCTAAACCTCACATTTGATCCTCTTCCTTCCAAACTCATCTTTTCTGCAGTGCCCCTACTCCAATAGGATTGCGGCACCTGCGGTACTCAGAATTTCTCATTTGAACCCCAGTTCTAAATTCTCAGTCACCCACTGAGCTCATCTCTATTGGTATCATAAACATCACATGTCTAGGCTGGAGTGGCTTTCATCATCCCCATTCTACTCTCTCTCAAATCTTTCTGTGCATGCTAGCTTCTGCCCACACTTCTACCCACACAGTCCCAGTCACGTGTTCCTCCTAGTCCCTCTCCTCTTCCTTTTTCCTGGCATTCAGCTGGCCTCAAGCCAGGGATATCATGGTTGCAAGTGACATTTATCACTCTATTAAATGTTCAGCTCATTCCTGGAAGCATCCTCAAGGCCCCTAACCAGGTGTGCTCTCTTTCCCTCACTTCTCTGGAGAGTAAAGGAGAGACCTGCGCACACTGAGCAGGTCTGAGAGGCAGATCTGGGACTCAAGCCTGGGCTTCATGATTTGTCTCCGGGCTCGCCTCTCTTTTCTAATTTTGAGTGCATGGTAGAGCTTGGATGACTAATGAAAAAATGCTGCTCAGGGACACCAGTCTATGGCAGAACAGTAGCTGGGTTACTTGGTAAAAACCTAATCTCTCTGGGTGTAAGCACAATGACATCATCAGCTTGTCCCTCATCTTAGGCCTTCCCATGCATCACAGTCAAGTGGGATGGCAAAGCTGAATGTGATGTAATCCCAGCACTCTGGGGCTAAGGCAGGAGGATCATGGCTTTATGGACAGCCTAGGCTCCATAAGCAAGATTTTGTCTTAGAACACAAAAAGATGTTAGCTCCACCATGCCCCAGGAAAGAGCTCTACCTCCACTGAACTCCTGCAACTCTGTCATTTGGCATCATTCATATCCCACCTGGTCCGTGATCACCACATCTGCTCTACTGGAGAGCCGACTTTTTAATGATTTTGTTGTTGTCTGAGGTAATTACATTATGTTCTCCCTTCCCCTTCCTCTCTCCAACCCCTATCATACACCCCCTTGCTTTCTTTCTAATTCATGGTCTCTCTCATTGTTGTTATGTATATATGTGTATCTGTGTATATATGTGTCTTCTTCTTCTTCTTCTTCTTCTTCTTCTTCTTCTTCTTCTTCTTCTTCTTCTTCTTCTTCTTCTTCTTCATTTTTCGAGACAGGGTTTCTCTGTGTAGCCCTGGCTGTCTTGGAACTCACTCTGTAGACCAGGCTGGCCTCAAACTCAGAAATCTGCCTGCCTCTGCCTCCCAAGTGCTGGGATTAAAGGTATGAGCCACCACTGCCCAGCTATGTGTGTCTTCTTAAATATGTAATGTAAGATGTGGTTTTAATACCACTAAGAACACATGAACAAGGGTACACCCATGGACCCAGTCACTGGCTGAGCAAATGAAAGAACAGAAGTGTTTAGTGTTCACAAAGCATTTATTAAGAGTTGGAGATTGACTCAGGGCAGAGGCTTTACCTGACAAAGAGGCACAACACCACAAAAAAGTGTATGTATACACACTGACTTAGTTAGGGAACAGACACCATGACCAAGGCAATGCTTATAAGGACAGCATTTAATTGGGGTTGGCTTACAGGTTTAGAGGTTCAGTCCATTATCATCAAGGTGGGAACATGGCATCTTCCAGGGAGGCATGGTGCAGGAGGAGCCAAGAGTTCTACATCTTCATCTGAAGGCTACTAGCAGAATACTGGCTTCCAGGCAGCTAGGATGAGGGTCTTAAAGCCCACACCCACAGTGACACACCTACTCCAACAGGGCCACACCTTCTAATAGTGCCACTCCCTGGGCCAAGTATATACAAACCATCACACATACACACACAAGCATAGACATACAAACACACCCTTTGGGGAGCTTTCCTGGAACCCACTATGTAATTCAGACTAACCTTGAACTCTCAGCCACTCTCCTGCTTCAGCCTCCCCAGTGTTGAGATGACTGACAGGCATTAGCACACCCAGATCCTTTTTATTTTTGGTTTGTTTCCATTTTTTATTTTCTTGAGACGGGATCTCATTGTGTATCTCAGCCTGGCTTGGAACTTGAGGTCTTCCTGCCTTAGTCTTCCTAGTACAAGGAAGGCAGATGTTTGCCACCATCCCCTGTTTTAGCCTTTTTATATAAAACTCGGTGCTCTCATCCTATGCCACTCTCCAACATCAAAAGAAGCGCCTGGTTTTGGGAGATGTGGGGGGAATGAGTTCTAACTTCTTTGGTCTCAGGGACCCCATCCCCTAAGCCTGATGTCCGGGGTGGGGGTGGGGGGGCACAGGAGAGATGAAGCCTGAAACTCGGGACAGTACCATCTTCACGGGCACTGGGTCAAGACCTCCAGGGACTGACCTCACAGTTTCTCTCCCTTACACATTTAAATATAGTAGAACTTATGATTTTTTACAATAAGAATGAGTCCTACTGGCTGGTAAACAGCGCTCAGGACTAGGGTCTAGAAAAAGATCTGTGGTAAGCATAAGGACTGATTCTGATGGTGGACAGTGCAAAGTACATGGAGCCTCTTTCATAAGGAGGAGTTCTCTTTACTGTAGGACCAGAGCCCAAATAGTGCTCAGGATATAGGGGATCCTAATAGAAGAGCAAAGAGTCACCAGGCTGACTGAACACTTTTCACTTTGGAATTCCGGGTGACGAGCTGTCATTCATTTCCTTCTGTTGAAGAAAACAGGCCTGTGTAATTTACAATCCTTGTTTCTCCAATGCTTTCTTTAAACTGAACCTCCTACACTTTGAGACACAAGGAGTCAGACCCAGAACAGTTTTTGGTGGCATTGGATAGCCTGGGCTGTGGGGCTCTTAATCCTGGGTTCTCCATTCCGGGCAG
Seq C2 exon
GCTTGATGAAGAGATCGCCCAGAAAAACAATGCCCTAAAGAAGATTCGCGAGCTAGAGGGCCATATCTCAGACCTACAAGAGGACCTAGACTCAGAGCGGGCTGCCAGGAACAAGGCCGAGAAGCAGAAGCGAGACCTGGGGGAGGAGCTGGAGGCACTCAAGACGGAGCTGGAGGATACGCTGGACAGCACAGCTACCCAGCAGGAGCTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000018830-Myh11:NM_013607:25
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact





	

	
ORF disruption upon sequence inclusion





No structure available

		

			
Features


			

				
Disorder rate (Iupred):
  C1=0.276 A=NA C2=0.806
 
                        

				
Domain overlap (PFAM):

					





						

							
C1:
PF0157614=Myosin_tail_1=PD(30.4=77.6),PF0157614=Myosin_tail_1=PU(2.9=43.1)

							
A:
NA

							
C2:
PF0157614=Myosin_tail_1=FE(8.3=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)
chr16:15735579-15737448 
ALTERNATIVE
HsaINT0107516
(MYH11)
Human
(hg19)
chr16:15829436-15831305 
ALTERNATIVE
HsaINT0107516
(MYH11)
Rat
(rn6)
chr10:837497-840235 
LOW PSI
RnoINT0096359
(Myh11)
Cow
(bosTau6)
chr25:14242585-14244028 
LOW PSI
BtaINT0097136
(MYH11)
Chicken
(galGal4)
chr14:7571063-7571867 
ALTERNATIVE
GgaINT0015071
(MYH11)
Chicken
(galGal3)
chr14:7637593-7638397 
ALTERNATIVE
GgaINT0015071
(MYH11_CHICK)
Zebrafish
(danRer10)
chr3:36548804-36548895 
ALTERNATIVE
DreINT0099812
(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"