Special

MmuINT0103511 @ mm9

Intron Retention

Gene
ENSMUSG00000057003 | Myh4
Description
myosin, heavy polypeptide 4, skeletal muscle [Source:MGI Symbol;Acc:MGI:1339713]
Coordinates
chr11:67067960-67068375:+
Coord C1 exon
chr11:67067960-67068078
Coord A exon
chr11:67068079-67068178
Coord C2 exon
chr11:67068179-67068375
Length
100 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGA
5' ss Score
8.68
3' ss Seq
TACAATTTTGGGTTATTTAGGCC
3' ss Score
5.75
Exon sequences
Seq C1 exon
GCGAGTTTTCCCGACAGCTGGATGAAAAAGACGCTATGGTTTCTCAGCTTTCCCGAGGCAAACAAGCATTTACACAACAGATTGAGGAACTAAAGAGGCAGCTAGAGGAAGAGTCCAAG
Seq A exon
GTGAGAACCCTCTGTTGAGACTTTCATGCATGGAACTGGGCAGCCTGAACCACCAGTGATCAGAATGCAAACTCACAGTGTACAATTTTGGGTTATTTAG
Seq C2 exon
GCCAAGAACGCACTGGCCCACGCCCTGCAGTCAGCTCGCCATGACTGTGACCTGCTGCGGGAACAGTATGAAGAGGAGCAGGAAGCCAAGGCTGAGCTGCAGAGGGCCATGTCCAAGGCCAACAGCGAGGTAGCCCAGTGGAGGACGAAATATGAGACGGATGCCATCCAGCGCACAGAGGAGCTGGAAGAGGCCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000057003-Myh4:NM_010855:28
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact





	

	
ORF disruption upon sequence inclusion





No structure available

		

			
Features


			

				
Disorder rate (Iupred):
  C1=0.825 A=NA C2=0.636
 
                        

				
Domain overlap (PFAM):

					





						

							
C1:
PF0157614=Myosin_tail_1=FE(4.5=100),PF059116=DUF869=FE(43.8=100),PF0003816=Filament=FE(12.6=100)

							
A:
NA

							
C2:
PF0157614=Myosin_tail_1=FE(7.6=100),PF059116=DUF869=PD(23.6=31.8),PF0003816=Filament=FE(21.0=100)

						

					

				








    
Main Inclusion Isoform:
NA





     
                   









    
Main Skipping Isoform:
ENSMUSP00000018632





     
      









    
Other Inclusion Isoforms:
NA
          









    
Other Skipping Isoforms:
ENSMUSP00000127514
  



Associated events






Other assemblies


mm10




Conservation


Human
(hg38)
chr17:10450650-10450776 
HsaINT1024116
(MYH4)
Human
(hg19)
chr17:10353967-10354093 
HsaINT0107780
(MYH4)
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
chr19:30087525-30087650 
BtaINT0097294
(MYH4)
Chicken
(galGal4)
chr18:386331-386640 
LOW PSI
GgaINT0129368
([1])
Chicken
(galGal3)
chr18:389024-389333 
LOW PSI
GgaINT0129368
(MYH1)
Zebrafish
(danRer10)
chr24:40984405-40984515 
LOW PSI
DreINT0173888
(vmhc)
Fruitfly
(dm6)
No conservation detected




Primers PCR

	

		

			
Suggestions for RT-PCR validation

			

				
F: 
ACAGCTGGATGAAAAAGACGCT

				
R: 
ATTTCGTCCTCCACTGGGCTA

				
Band lengths: 
257-357

			

		

	





	
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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