Special

MmuINT0103999 @ mm9

Intron Retention

Gene
ENSMUSG00000039057 | Myo16
Description
myosin XVI [Source:MGI Symbol;Acc:MGI:2685951]
Coordinates
chr8:10373467-10376272:+
Coord C1 exon
chr8:10373467-10373542
Coord A exon
chr8:10373543-10376121
Coord C2 exon
chr8:10376122-10376272
Length
2579 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGGT
5' ss Score
10.28
3' ss Seq
ACGCTTACTGCATCTTGTAGACA
3' ss Score
5.23
Exon sequences
Seq C1 exon
ACAACCCTGGTGAAGCTCCTTCTGGCACATCAGGCAAACCCCCACCTTGTGAACTGCAATGGGGAGAAACCATCAG
Seq A exon
GTAGGTTAGAGCAGGCTGGGAGCCTCTTTTTGTTTTGACATGGACACTACTCATCCATCACTGGTGCAGCCAGAAGTATGAGTGGACAGACAGACAGACAGACAGACAGAGAGAGAGAGAGAGAGAGAGAAAGAGAGAGAGAGAGAGAGAGAAAGAGAGAAAGAGAGAAAGAGAGAAAGAGAGAGAGAGCCAGTGTTCTCCTCCCTGTGCTGTGGGTTACTGATCGCAGTGGGTAAAGCCAGGCTGCCACCGCCTTCCTTTCACATAGCTTGTATGCACTGAGCCCTAGACACACATCACCCCACATCACTGCAGAACCTCTTGGACTCTTATCTCCTCTGTTACTTTGTTGTGAGCTACTCACCTATTCTGATACTTTTTTCTCATAGTGTTTTCCATGTGAATACTTAGACTTAAACACAAACTAATAGTCTGGTGCTAACTTAGATCTCCAGCCTCTTTATTTCTCAAGGGAAAATTCTTCTGAAGACTTCTGTAATCTTCTTTGCCACCAATGCCCTCCTGCATCTAATACTCTTAGTTCTGTAGCTTTTAAAATTTAACGCCCATTACTTCTCGTTGCTATTTTTGCCATGTTAATAGGAGAACTCAAAAAACAAAGAGATGTCTCACATAAAAAAGTATAACAGTCAAAAATTGATCTTTAGAACAAAAGAAAACCTATTTTTTCTTATAGCTGAGCCCTTTCTAACTTAAAAACCCTTCATGTTTTAACTCCCAGTCTAATCACTACTAAGAGTAAGTGAAAACCAGAGCGAGAGACTTATGCTCATATTTTTTATTAAAGTCAAATCGCTTACTATTGGTTGCTTTATTCTGCCTGCTAAAATAAATCAAAGCTCTAACAAACACAAGGGGACAGTTATCAGTTCCCTCAGACTTCAGAGCTAAGCTAATATTAGTGAGAGCCTAATAATCTTATCATGAACTGAGATTGTTTTACTTAATTTAGGACTTTAAACCTAATCATGAGGATTGAAAAGGCAGCTGATGTATAATATGTACCTAAATCCCAGCACTTGAGGGCAAAAGCTGGAAGGTTGCTGTGACTTCAGTGCCAACCTCAGCCATATTTTGAATGCCAGATGAGTCAGGGCTACACAGTGAGACCCTGTCTAAAGTACATCAAATCAAACAAAATAACAAAAACAATATTTTTTGAATGTAGCTTTTCATCTTAAGAGCACATTTGCCGGCTTTGTGTCTCATCGGACGGTTCTGTCAGGAGATTTTGTGACTAAATGCCCATTCTCAGCTTCTTTATAGACTAAGAAGATGTGACTGACCCTTGACCCTACGCATGCCTATGCAGCCATCCTTGTATTATCTCATTTTAAGGCTAGTGTCATGTGTTATGCAACCAATTCCCAATGGCGCCTGACTCTCACGGGGGCCCAGTGGATGGTGCCTGACTCTCATGGGGGCCCAGTGGATGGTGCCTGACTCTCACGGGGGCCCAGTGGATGATCCATCTTCTGCTCTGGCTCTCGCCTGCTCTGTGTTATCCTTGCAGAATCTGACATATTACCAGTTCGTCATTCATAGAACATTGGCACTGAGAGCCAGCACTTGACTTAGCAGGGAACTTCAATAAGTGTGTGTTCATTAAATGAAAGTGTCCTTTATTTAGTGCACTTGACCTGTCCAGAAGAAGAATGAGCCAGGTAAATAAAGTGCTATAGAAAGGATGCAAACGAGGCACCCTTGTGGCAGAGAAAGTCACCAGGAATGTCATGTTTGATGATTTCCACTTCCCCGGGGCTTGAATGTGGGAGGGCACAGTCTACGGTAGCCTGCAGTTTAGTTTATAAGTGTACCAGAAAGGCAACCTCCCAGGTGAGGCAGCTGAGGTCTCGTCTCCCTTCCCACTACTCGTTGATCCTAGGCCAGTCGTGTCATAACAGAATACTGGCAGGAGCATCATCTCGTGTCAGCTAAATGACGTTGACAAGCCCGTAAAGCCACAAATGTACGGAAACCTCTGGCTTCCAGACTTAGTGAGGATGGGGGTGTGGCTCCCTCCACAGGGCTCTCCGCTGGTGTCATTGCAAATCTTCTTGAGATTCACCAGGTCTTACTGACAGTTATTGCTTATTATACATTTAAATGATGCACATCTGTACCGCAGCCCAGATGTGCCCAGAGGTCACTGGCTAAAGACCCATAGTGATCAACATTTTCAACAGAACAGAAAAGGTCATAGAAAGCGGCCAGAAGTGCTACTCAGTCACAGGGAGGAGCTACAATTCGTGTCCGGAGTCAGTGGAACATGCACACATACTCTTCCAAGTTTAGCTTCCCTGTGACTTTTTCTTTCCCCGTTATTGCCCACCAAATATTTATACCAATTTCATGTGTAGTTAAGTGCATCCCTGCTGTATGACAGGGTGGGCTTGGAAAATGTCAGACTCGGATTTTCTCTACTAAACTTTTGCTGATTCTTGATAGGCTTGGTATATCTACCGATCCATTCTTAGTTCAAGCATGTCTGAGTTATGAGAGGAAGTGTTGATCCATTCCCCCTCTACTGTGTCTAACACGCTTACTGCATCTTGTAG
Seq C2 exon
ACATCGCTGCCTCCGAGTCGATCGAGGAGATGTTGCTGAAAGCCGAAATCGCCTGGGAAGAGAAAATGAAAGAGTCTCCGTCAGCCCCCAGCTTAGCACAGGAAGAGCTGTACGAGATCCTTCATGACCTCCCAGATCTCTCCAGTAAGCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000039057-Myo16:NM_001081397:8
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact





	

	
ORF disruption upon sequence inclusion





No structure available

		

			
Features


			

				
Disorder rate (Iupred):
  C1=0.269 A=NA C2=0.176
 
                        

				
Domain overlap (PFAM):

					





						

							
C1:
PF127962=Ank_2=PD(19.5=65.4)

							
A:
NA

							
C2:
NO

						

					

				








    
Main Inclusion Isoform:
NA





     
                   









    
Main Skipping Isoform:
ENSMUSP00000049345





     
      









    
Other Inclusion Isoforms:
NA
          









    
Other Skipping Isoforms:
ENSMUSP00000106583
  



Associated events






Other assemblies


mm10




Conservation


Human
(hg38)
chr13:108820413-108823124 
ALTERNATIVE
HsaINT0108352
(MYO16)
Human
(hg19)
chr13:109472761-109475472 
ALTERNATIVE
HsaINT0108352
(MYO16)
Rat
(rn6)
chr16:84850688-84853037 
LOW PSI
RnoINT0096869
(Myo16)
Cow
(bosTau6)
chr12:88020122-88022779 
LOW PSI
BtaINT0097768
(MYO16)
Chicken
(galGal4)
chr1:137547147-137548521 
LOW PSI
GgaINT0106584
(MYO16)
Chicken
(galGal3)
chr1:142455950-142457324 
LOW PSI
GgaINT0106584
(MYO16)
Zebrafish
(danRer10)
No conservation detected
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"