Special

MmuINT0103471 @ mm9

Intron Retention

Gene
ENSMUSG00000020908 | Myh3
Description
myosin, heavy polypeptide 3, skeletal muscle, embryonic [Source:MGI Symbol;Acc:MGI:1339709]
Coordinates
chr11:66908457-66909629:+
Coord C1 exon
chr11:66908457-66908583
Coord A exon
chr11:66908584-66909510
Coord C2 exon
chr11:66909511-66909629
Length
927 bp
Sequences
Splice sites
5' ss Seq
CGGGTGAGC
5' ss Score
8.19
3' ss Seq
CTATTTCCTTCCTGACACAGGTG
3' ss Score
9.05
Exon sequences
Seq C1 exon
GCCAATCTGGAGAAGATCTGCCGAACTCTAGAGGATCAGTTAAGTGAGGCCAGGGGCAAGAATGAGGAGATGCAGAGGAGCCTAAGTGAGCTGACCACACAGAAGTCCCGGCTGCAGACAGAGGCGG
Seq A exon
GTGAGCCAAGCTTGGTTCAGTTCAATCTAGCCTGGATGCTATGTCCAGATGCCAAGCTGGAATGCCAGAAGGTTTTCCCTCCTAAGGGCAGCACCCTTTGCGGGGAGAGAATGTTTTGTTTTGTTTTGCTTTGCTTTGTTTTAAAGACAGGGCCCCACCTTACAACCCTGGTTGGCCTAGAACTCCTTGTGTAAAACAGGCTGGCCTGAAACTCCCTGTGTAGACCAGGATGGCCTGGAACTTAACAGAGATCTGCCTGCCTCTGCGTCCACAACACTGTTTTTAAAGGCCTGCATCACCCACAGCTGGTGAGGGAGGCTTTCTAACAACACACTTTCAGAAAGAAAGTAAATGGAAATAACACACAGACCAGGCTGCCCCAAACCGCCTGGAGGAGAACACTGAGTCTCCTCAGTGAAAACGGGAAGCCAGTGGAGGGTCAGGCTTCCATCTGACAGGACCTGGATGGGACCAGGAGGGGCCCAGCCTTTCTACTGCTTGCCTGCCTTCCCCCTCTGACTTCTGCACACACTCCAGCTGATCATATTCACCCAAGAGTCTAATTTCAAATTTCCAGAGAGGCCAAGTCCTAAGTGTTTTCCTTAATGACACAGCTGCAGTCAGCAGCCACTGGGGAGGAGCTTTGGGAGCAGAGAGGTACCCTGGTGATGTTCACACTCATAATGGTTCTCTCAGCTTTCACCGGCAGAGGTCACTCCTGGCTGCGTAGGGTTTACAGTAGTATTTTACTAGGCTGCTATTTGCTTTTCAGGGATACACCCCTACTCTCAAGAGGAGGGGGGTCTCTCACCTTTATTATTTGCAACCCCATTTGGCCCAATGTCTTACACTTGGTCAGCGAGTGAATGGATGAATGAACGAATGAACGAATGAATGAATGAATGAGCTATTTCCTTCCTGACACAG
Seq C2 exon
GTGAGCTGAGTCGTCAACTAGAAGAAAAGGAAAGCATTGTATCTCAGCTCTCCAGGAGCAAGCAGGCCTTTACCCAACAGATAGAGGAGCTCAAGAGGCAACTGGAGGAAGAGAACAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000020908-Myh3:NM_001099635:28
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact





	

	
ORF disruption upon sequence inclusion





No structure available

		

			
Features


			

				
Disorder rate (Iupred):
  C1=0.698 A=NA C2=0.475
 
                        

				
Domain overlap (PFAM):

					





						

							
C1:
PF0003816=Filament=FE(15.4=100),PF0157614=Myosin_tail_1=FE(4.9=100),PF104734=CENP-F_leu_zip=FE(29.6=100),PF059116=DUF869=PU(39.0=90.7)

							
A:
NA

							
C2:
PF0003816=Filament=PD(0.4=2.5),PF0157614=Myosin_tail_1=FE(4.5=100),PF104734=CENP-F_leu_zip=FE(27.5=100),PF059116=DUF869=FE(39.0=100)

						

					

				








    
Main Inclusion Isoform:
NA





     
                   









    
Main Skipping Isoform:
ENSMUSP00000007301





     
      









    
Other Inclusion Isoforms:
NA
          









    
Other Skipping Isoforms:
ENSMUSP00000104329, ENSMUSP00000131883
  



Associated events






Other assemblies


mm10




Conservation


Human
(hg38)
chr17:10635854-10637808 
ALTERNATIVE
HsaINT0107739
(MYH3)
Human
(hg19)
chr17:10539171-10541125 
ALTERNATIVE
HsaINT0107739
(MYH3)
Rat
(rn6)
chr10:53638528-53639389 
LOW PSI
RnoINT0096484
(Myh3)
Cow
(bosTau6)
chr19:30236123-30236527 
BtaINT0097451
(MYHC-EMBRYONIC)
Chicken
(galGal4)
chr20:2947002-2947442 
LOW PSI
GgaINT1018574
(MYH7B)
Chicken
(galGal3)
chr18:597790-597894 
LOW PSI
GgaINT0127430
([1])
Zebrafish
(danRer10)
chr6:40751267-40751556 
LOW PSI
DreINT0100053
(myhb)
Fruitfly
(dm6)
No conservation detected




Primers PCR

	

		

			
Suggestions for RT-PCR validation

			

				
F: 
GCCAATCTGGAGAAGATCTGCC

				
R: 
CTTGTTCTCTTCCTCCAGTTGCC

				
Band lengths: 
246-1173

			

		

	





	
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






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