Special

MmuINT0103289 @ mm9

Intron Retention

Gene
ENSMUSG00000018830 | Myh11
Description
myosin, heavy polypeptide 11, smooth muscle [Source:MGI Symbol;Acc:MGI:102643]
Coordinates
chr16:14194620-14198181:-
Coord C1 exon
chr16:14198143-14198181
Coord A exon
chr16:14195278-14198142
Coord C2 exon
chr16:14194620-14195277
Length
2865 bp
Sequences
Splice sites
5' ss Seq
CAGGTACCT
5' ss Score
8.16
3' ss Seq
TTTCTGTTTCAAACCCATAGGAG
3' ss Score
8.63
Exon sequences
Seq C1 exon
AGGGCCCCCCCCACAGGAAACTTCGCAGTGAGCCACCAG
Seq A exon
GTACCTTGTGCCTCCAGCTTTACAGCTCGTGTGTCACACTGTCCCTTATATCTCTGTACCCAGCACTCCTTCCTTTGTCCCCATCCCTCTGTGCCCAGCACCCCTTCCTTTGTGTCCCCATCCCTCTGTGCCCTGCACCCCTTTCCTGTGTCTTCCCCTTTCCAAGTCCTTGCAAATTTCTGTGAGACACTCCCCCACCCCCCAACTCTAAAGGCTTGGCTTAGTTCAGAGCTGGGAATGTAAGCAGACCTCATCCCTTAGTCATTGTCCTTCCCTCTGGCATTCTGTCAAACATGGCTTCTAGCAAAACACTCTGATCACATCTCCATGAGATTTAAAAATACTGCATGTTGGAGTTTTTGTTGTTATTTTAGTTTGGTTTGTTGTTTTGAGACAGCGTCTGATGTAGCTCAGTTTGGCCTTGAGCTACAAATCTTCCTGTTTCTGCCTCCCAAGTGCTACAATGACAGGTGTGTACTGCTATACATGACAGGTGTGTACTGCTATACTCTTTTAAGTGATGCTGAGGACGGAACCCAGGGCTTCGTGCATGGTAAACACGCACTTTACCAACTGTGCTTTTGCTGGGATTACTCTTACCTGCATGCGGAGCCACTATTACACTGTCAAGACTCTCATCGTGTTGTAAGGTTGACACCCCGTGGAGTACATATGGCATCTTACTCTTTGCACACACCCCTAAAGAATGGACATGGTTTCTAACTGACTGGGTCACGATTCCAGAATAAAATAAGCCCAGGGCCACAGTGACCGCAGCCCAGAAACTCATCTACTCATGGTTCAGCATGTCCTGTCAAAGGACATGAGCACTCCCTGCCCCAGCACAGATGCCAGGGCTTCACACGGCTTGAACTGGGGCTCACAGCTTACTGCATCTTCAGTGCATGAGGGTGGGAATTGGACACCAACTGTAGGAACTTTTTCTGGAGGCCTCATGGGCATGTACATGTCCAGAGATAGGAGAATAAACTCAAAGCACATGGAGCCTTTGTCAAAAGGAGGCGTCTGCTTCCCTAGGATTTTAAGCACCTTTATTCCTCCATAGTGTATCCAGGCAACAATGGCTCAATGGAGTCCCCAGTATCTCATGCTGAGCTCAAGGATATCCTTGCTTAGAGCCACCTGTTCTTTGTAGAGTTTCAACTTTGCTCTTGCTGTCAAATACTTTAAATTATGGAGGTCTTGCAGAGAGCATCCCCAAGGATACAAGGGGGATCAGAGGAGCCCCCAGTCAGCAGGAAACAAAGTCTGATTTCCTGTGGAGACTTCTCACAGCACCTAGAATAAACTAGGTTATTAGTGCTTGGAAAGATCCACAGTTCTCCAGAATGAGACCCTGGAGGTTTTAAAGCAAACCTGTGTTTCAGGAGCCCTATAACTGAGAGTTGGTATCAACCTTTTGTCTTGGATTTAGAACTGCTTCCTCCTATAGTGATCCCTGAGCTGGAACAATGCCGCTGTAGTCTCTTGATGAGAGGGTATGACTTGTTTCTGAAATGTAGGGATAAACCCTTTGAGTCAACAAATATAAACTGTTCCAAACGGCAAAAAGTGTCTAGAGCCTTAATGTAGACTTAGACACTCTTTCTAGCCCCAGGACACCACCCATTGGGTTCAGAAGCCAAAGTGTAGCCATGAGGAGAGGGGCACTGACTGTCATCCCTCTATACCACAGTCCAGGCCCTTCACCCTCTCAAGAGAAGAAGCCCTTCTGAAATGGCCCTCTGAAGCTGGCCCCAGTGTCTTATTCTGGGAGTGGCTACAACTTTAAGCATTTATTCTTGATTGCTACATCTCAAGAAAACCCCAAAGTGTTTACACAGGGAGGCCCCTATCTGCTGTGTATTACCTGTCTAATGTGTTCCTTTGGGGAAAAGAATGGGTCAGTGGGTGGGCACACCATCATGGCTTCTCCCTCCAGCCTCCTTATGGCCAGCAAGTTGCTTTTGTTACCCAATGTTGGTTTTCTAAACTGTACTAAAATGTGTTAGCACCTGTATTCACATTCAGGTCAAACAGGGCTGTGCTGACCCAACAAGATCATGTGTTAGGTCACTGAAAATCCACATAACCTTTTGTGATAGCAAAAGCTAGCTTCAAGTAAACTGACCTGTCCCCCTTTCTGTCCACTTTCCTCTCTTGCCCAAGGCTGCATGCTATATATCTAGCCTTTCCAGTAAAATCAGCCACTTGGATAGCCAGGATGGGTGGGACATGCAGAGGCTGAAAGCTGGAGTAGTGAAGATTCAGGGCTGTCCTGCCCACTAGAACAAAAATGTACCTCAGATTAACAATTTTTCAACTATTCATTTGAACATCTACTTTGTGTTCTGCATCATGTGACCATGATGAGGAAAATACACTCAAATTAGACACCATCTCTCTACCATGGGGGAATCTCAGAGCAGGAAGCTACACACCAGCAGATGGCGCTGTGTCACCCTTCAACTAAAGCTTGTACTCTGAGAAACTCTCCCTCTCCACTTTGAAAACCTAAAATCATGCCTTTTTTTTATTCCTGTGGGAAATTATAGATAAAACAGCACTAGGCCTGCTGTTTTATCTATAATTTTACAACCTTCTACCTGATGACACCAGGCCTGTGCGCTACCCTACACCTGTTTTGGCCTTTTTCTTTTCCCAACCCAACACAAGACCAGAATCCTATTTTAATATTTTAAAACCAATAATCCCATGCCAAATGAATAGATAGGACTCACCCTGAATTTGTTTGTGACTCGTTCATGTTGAGTGTGTGTTTGATCTCACCTTGATCTTGCCTCTTCCAATCACTGGGAGATTTTCTTACTAAAGACAAGTGTATTTTCTGTTTCAAACCCATAG
Seq C2 exon
GAGAGGAAACGAGGCTTCATTTGTTCCTTCCAGAAGGGCTGGGGGCCGTAGAGTTATTGAAAACACAGATGGTTCTGAAGAAGAAATGGACGCTCGGGACTCAGACTTCAATGGAACCAAAGCCAGTGAATAAATTCAGGATTGGACACCATGTCAGGGAAAACAGAACACTAAACGACAGCAGAGCCCAGCAGACTGCTTAGCACTTGTGTCCATTCGTTCTCAAGTCACAGAAATCACTCCACCCCTCACCAGGAGTCAACCACAGCCCTGCACAAAGGGTGTGAATTCAAGTTCTTAGATGGGCTATCAGAGAAAAATCCAAATAAGACGTACAGGTCAGGAGCCACAGTCACCAGCAACTTTGTTTACATGAAATGAGGAAGTTACATGAATGGGTGCCACAGCCCCCAACCCACTCCCAACCTTTCCCTGACCTGCCTGACCTTCCAGTTTGGGAGGAAATCCCGTTTGAAAATTCCCTTCCCTTTCCTGCCTGCCACACCTCAGACACACAGTTCACTTCGCCCAAGTGACTTTTTTAGTCATCTGAATTAAAAAAAGAAACACTGCTCCCAGAGCGAGCGGAGCAGAGCAATCACACTTATTTGCACCCATGGTCACTTTCACTAATAAAAGGTTGTAAGTCACGAGAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000018830-Myh11:NM_013607:41
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact





	

	
3' UTR





No structure available

		

			
Features


			

				
Disorder rate (Iupred):
  C1=1.000 A=NA C2=1.000
 
                        

				
Domain overlap (PFAM):

					





						

							
C1:
PF0157614=Myosin_tail_1=PD(0.1=9.1)

							
A:
NA

							
C2:
PF0157614=Myosin_tail_1=PD(0.1=2.2)

						

					

				








    
Main Inclusion Isoform:
NA





     
                   









    
Main Skipping Isoform:
NA





     
      









    
Other Inclusion Isoforms:
NA
          









    
Other Skipping Isoforms:
ENSMUSP00000087756
  



Associated events






Other assemblies


mm10




Conservation


Human
(hg38)
chr16:15704124-15714908 
LOW PSI
HsaINT0107532
(MYH11)
Human
(hg19)
chr16:15797981-15802659 
ALTERNATIVE
HsaINT0107533
(MYH11)
Rat
(rn6)
chr10:853062-858563 
LOW PSI
RnoINT0096376
(Myh11)
Cow
(bosTau6)
chr25:14218414-14221619 
Chicken
(galGal4)
chr14:7558307-7562255 
ALTERNATIVE
GgaINT1018551
(MYH11)
Chicken
(galGal3)
chr14:7623924-7627872 
GgaINT0015086
(MYH11_CHICK)
Zebrafish
(danRer10)
chr6:8265521-8271715 
LOW PSI
DreINT0099791
(myh11a)
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"