Special

MmuINT0103513 @ mm9

Intron Retention

Gene
ENSMUSG00000057003 | Myh4
Description
myosin, heavy polypeptide 4, skeletal muscle [Source:MGI Symbol;Acc:MGI:1339713]
Coordinates
chr11:67054422-67055052:+
Coord C1 exon
chr11:67054422-67054565
Coord A exon
chr11:67054566-67054895
Coord C2 exon
chr11:67054896-67055052
Length
330 bp
Sequences
Splice sites
5' ss Seq
TACGTGAGT
5' ss Score
7.77
3' ss Seq
ATCCTTCTCTTTGTGTACAGACT
3' ss Score
7.6
Exon sequences
Seq C1 exon
ACGGTCACCGTCAAGGATGATCAAGTCTTCTCCATGAACCCTCCCAAGTACGACAAGATTGAGGACATGGCCATGATGACCCACCTGCACGAGCCCGCTGTGCTGTACAACCTCAAAGAGCGTTATGCAGCCTGGATGATCTAC
Seq A exon
GTGAGTGTCCCCTACCGGGTTTCATCCAGTCCGTGTACTTTCTGCTGTTGAAATGTCCCATTATGTCAGTGTTATAAATTATGGTGCCTTTGAAAATGCACGTGCTGATAGTTAGCTCTCTGCCTAACTGCATTAGTTGGTTATCTGGAACATTAGTGCCACAGTGGACAATGGGGGAGGGGTAGAGGGCAAGCTGCCAATGGATGCAACCATGGAGCCTAATGAGGATCCACACTTCCTTAGATCCTCTCCCCTGGCCCACACAGTATTATTTCCAAGTTGGAGTAATGAGGTGATTGCTGACTTGAGCATCCTTCTCTTTGTGTACAG
Seq C2 exon
ACTTACTCAGGCCTCTTTTGTGTCACCGTCAACCCCTACAAGTGGCTGCCGGTGTACAACCCTGAGGTGGTGGCAGCCTACCGAGGCAAAAAGCGCCAGGAGGCCCCACCCCACATCTTCTCCATCTCTGATAACGCCTACCAGTTCATGCTGACGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000057003-Myh4:NM_010855:3
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact





	

	
ORF disruption upon sequence inclusion





No structure available

		

			
Features


			

				
Disorder rate (Iupred):
  C1=0.042 A=NA C2=0.000
 
                        

				
Domain overlap (PFAM):

					





						

							
C1:
PF0236813=Big_2=PD(15.4=25.0),PF0273614=Myosin_N=PD(16.7=14.6),PF0006316=Myosin_head=PU(4.1=58.3)

							
A:
NA

							
C2:
PF0006316=Myosin_head=FE(7.6=100)

						

					

				








    
Main Inclusion Isoform:
NA





     
                   









    
Main Skipping Isoform:
ENSMUSP00000018632





     
      









    
Other Inclusion Isoforms:
NA
          









    
Other Skipping Isoforms:
ENSMUSP00000127514, ENSMUSP00000129599
  



Associated events






Other assemblies


mm10




Conservation


Human
(hg38)
chr17:10465599-10466272 
HsaINT1024126
(MYH4)
Human
(hg19)
chr17:10368916-10369589 
HsaINT0107792
(MYH4)
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
chr19:30102880-30102986 
Chicken
(galGal4)
chr19:12015-13020 
ALTERNATIVE
GgaINT0132858
(MYH7)
Chicken
(galGal3)
chr19:7322-8276 
GgaINT0129343
(MYH1)
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected




Primers PCR

	

		

			
Suggestions for RT-PCR validation

			

				
F: 
CGGTCACCGTCAAGGATGATC

				
R: 
CAGCATGAACTGGTAGGCGTT

				
Band lengths: 
296-626

			

		

	





	
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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