Special

MmuINT0103397 @ mm9

Intron Retention

Gene
NA
Description
NA
Coordinates
chr16:49163129-49166014:+
Coord C1 exon
chr16:49163129-49163253
Coord A exon
chr16:49163254-49165898
Coord C2 exon
chr16:49165899-49166014
Length
2645 bp
Sequences
Splice sites
5' ss Seq
GAGGTAGAT
5' ss Score
6.04
3' ss Seq
TTGGGTGCTTTCTGTTACAGGGA
3' ss Score
9.64
Exon sequences
Seq C1 exon
AACAGATTTGTAGTCTCACAAACCAGGTGAGAGAAGGGATCAAGAATTTGGCTGAAGTGGAAAAGGCCAAGAAGTTGATTGAACAAGAGAAGACTGAAGTCCAAGTGAGGCTGGAAGAAACAGAG
Seq A exon
GTAGATTCCCAGGGAGCATGAAGCTCTCATAGGGCAAAGCAGATCTGCCACGGTTAGAAATGTGGCACAGTGTGGCACTTACTCGGGTGTTTGCTATACGCAACATGCTTTAATCACACCATCAAACCCTTGTTTCCATTTTACAAAGGAAACAAACAGGCTTAGAGAGCAAGATAGGCACCTATAAATGCAAGTCCTCCAGTCACAGTGCAAACAACCACGATGTGTTTATTGACTTTGTCCCCCGCCTACACCCTCACAGACCATGTACATGAACATTTAGGGGCTTGTTAGACGTTCAGAATATCTTTCCTGTCCTCAACTTTATTGAATCAAAATCTACATTTAAACCAGGTCCCTTGGTGTTTTCTGGGATATATTCATGGAGATACATTTGCTGGAAGACTGTGGGCCCATAAGATACTCAGTAAATATTTATCCAAAGTTGCAAGTTTAAATTCACTTGTATGTAAGTGTGCCTTCTTAAAACAGTTAAATGCACCCTCCCCCACCCCATATCTGTTGGTAAGATGACACTCCACATGAAATGCTCAGACACTCCATCCTTGTAAGGCCATTTATGTATAGAATACTCAACAGAGGTGTTTTCTGCATTCTGGAAACATCTCGTGCTCTGTCCCTAGATGTGGACCAGGTGATTGACAGGGCCACTGAGAAGATTTGATGCTAAAGAAGATGGTGTGTTCCGCAAAGGAAGTCCCCCTTCCAGAGTCACTAGGTGGTCGATCCGTCGTGAGCTCTGGAGAGACTCTTTGCTCTCAGCTGCATTTCATCTTGAAGCAGCCCCTGAATGTCTATCTGGACATATTGAAATACATGTACCCTTCGCATGGAGGAAATGAGTTTTGAAAGATGTGGTGGACTGTTTTAGATGGGGCCTCTTGGGCAGTATGGTAGTAGAAAATTATGCTATGAGAACTTCTCCATCCAAGCAATTACTGCTCGAGCTGCCTCACCTCTCCATCTCAGTAAGAAACTGGCAAGGCAGATGTACCACACCTCGGTGTGCGCCATTGACGTAAGCGCACTTATTGCTCCTTCATGCATAAACATTTCCCGAGGATCTCTTCATTTTATTGACAAGCCCTTTAGTCGGCAGTGATACCCCCTTGGGAAGGTTGGTTTGTACAAAGTTGAGAACTTTGCTTAATTTACTTGTCTTTGCGTCTCTGGCTACTCTAGCTGGGGACTTTCTAAAACCACCACGTTAAATAAGAGAAATAACTTATTATATGTATTTAAACATTATAGCATTAAAATATGATTTGGGGGCAGTTTTATTTTTGTGTAATATATTGGGATAGTTGTACTTTAAAAGAACTAGAAACCATAGCAAAGCTGTATTGAGACCATAACACTTGTACCGCTCACTACCACTAGATGGCAGCACACCTCACTCTCCTCTTGTCCAGCTGTAACTTCAGCCTCACAGATGCATCACTTTCCACACATATTTGTAATTTGAGATTATTTCTTTTGGGGGCTGTGGCTTTATGAAAAACTCAATAATCCCTCCAAAGCCATAAGACTGAATTGATTTGAGGTCGGTTGTAATGATTTCACTTTCTCAGTACATTCTAGAGGGTGAGTTTCCCCTGAAAGAAACTCCTCATTCCCTCTGCAGAGATTGCTGCAGAGCATTTACGTTTGATTTATGTCTGTCAGGACATAAATATCCTTAATATCCCCAACAGCTCATTTTTGTTGTCATCGTTGCTGTTTAGCGGTGTCTACACAGTTCACTCTGCAGTAGATACAAAGCACTCCTCAGAGAAGGTGCAAGGCTATCCCTCAGTCTGGACTGTCCAGATTTGGCTGGCTGGCAGCTGGCAGTGCGGTGCATGCTGCTGCATATTCTTTGAGTATTTTGTCATTTGCTCATTTGCACTCCTTTGACACATATTTTCCTCAGAAAAGACTTTGAAGATTTTTTTAAACCAAATTTCTACTTTTAAAATTGAATGACTCTTTAAGAGCATTCTTGGAAATTAAGTCCCCTGGCCTTTATTATCTGAATACTCAGTCCCTGAAGACCTTCCTACACAGTAACACTCCCGTTTGTAGTAATAATAATAATTGCAATTAAGTGGCTCGCTTTGAGAACACTTTCCAGGTGTCCAAAATCAACAGTGACTCCGAGCAGGTGACAGCCCCGAGCAGGTGACAGCCCTGAGCAGGTGACAGCCCCTCTGCTATTCTAACACCGAAGCTTTCATTCACTCACCCCAAAAGATGGAGTGAACTAGAAATACCTGCGAGTATTGTCAGCAATTAAATAGCAAGTACAGTGACAGAGCTCATTGAGATTTTCTATTTAAAAATGCTTCGCCATTTTAGTTTTGGAGCTATGTATTTCTTCCCTAGTAGTACTGAGAATGGAACACAAGCCCTCACCTATACCAGGCAAAACCTTTATGATTGAGCTGTCTCTCTGCTCCAGCCATAGGCTAGATACAAAATGATGAATGCCTTGGCTTGTCCTACTGTAACCTCAGGGGCCTGACTTGAACCTAGATTTCATCCACTGACTCTAAAGAGAACTGCGTTCAGGGTATATAGGTTTTAATGGAAGAAGACACAATTTTTGTTCAAAAGGAGACTTCCTTGGGTGCTTTCTGTTACAG
Seq C2 exon
GGAGCTCTGGAACGGAATGAAAGCAAGATCCTTCGTTTCCAGCTCGAACTCTCAGAGGCGAAGGCAGAGCTGGAAAGGAAGCTGTCGGAGAAAGAGGAAGAAGCAGAGAGGCTGAG
VastDB Features
Vast-tools module Information
Secondary ID
-Myh15:NM_001166210:32
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact





	

	
ORF disruption upon sequence inclusion





No structure available

		

			
Features


			

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

				
Domain overlap (PFAM):

					





						

							
C1:
NA

							
A:
NA

							
C2:
NA

						

					

				








    
Main Inclusion Isoform:
NA





     
                   









    
Main Skipping Isoform:
ENSMUSP00000127539





     
      









    
Other Inclusion Isoforms:
NA
          









    
Other Skipping Isoforms:
NA
  



Associated events






Other assemblies


mm10




Conservation


Human
(hg38)
chr3:108405454-108408279 
ALTERNATIVE
HsaINT0107651
(MYH15)
Human
(hg19)
chr3:108124301-108127126 
ALTERNATIVE
HsaINT0107651
(MYH15)
Rat
(rn6)
chr11:54235495-54236763 
Cow
(bosTau6)
chr1:53554834-53557849 
LOW PSI
BtaINT0097246
(MYH15)
Chicken
(galGal4)
chr1:86889099-86891352 
ALTERNATIVE
GgaINT0119202
(myosin)
Chicken
(galGal3)
chr1:90785586-90787839 
ALTERNATIVE
GgaINT0119202
(Q91377_CHICK)
Zebrafish
(danRer10)
chr11:24951886-24952597 
LOW PSI
DreINT0099896
(myh7ba)
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
  • 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"