Special

MmuINT0152668 @ mm9

Intron Retention

Gene
NA
Description
NA
Coordinates
chr16:90248758-90249957:-
Coord C1 exon
chr16:90249872-90249957
Coord A exon
chr16:90248949-90249871
Coord C2 exon
chr16:90248758-90248948
Length
923 bp
Sequences
Splice sites
5' ss Seq
CAGGTAACT
5' ss Score
8.63
3' ss Seq
CCTTATTGGAAATGTATTAGGTC
3' ss Score
2.52
Exon sequences
Seq C1 exon
GAAATGGAAGTAGAGCAGCCTTGTGTTACAGAGGTTAAGCGGCATGTGCCCGAGAGCAGAAAGTCGAGATCCAGGTCAGCATCCAG
Seq A exon
GTAACTTATAGGATGAGCTGTGGCTCTGTGATCTGAGGAGACTGGGAAACCTCATTACGCTGCTTCTTGTTGTTGTTGTTAAATAGGGTCTAGTATACTATATAACCCTGACTGGCAAGGGACTCCGTGTGTAGACTTGGCTGGCCTTGAATTCAGAGCAATCCACCTATCCCTGCCTTCTGGGTGCTTGGATTAAAACAGTGTCAACAATGCCCAGCTTTAGGTTTTTCATATTCAAAATGTTAACATTAACAGTTGGTACATAAGGAGACGGTATCAAAAATAACACTGATTTTCATTTTGTTTTTTAGTCAAATCTGGGGTTGGAGCTAAGTCAGAGTGCTTGCCTCATGTACCTAACCTAAGGCTCTGAGCTCAGCCCTGAGCACTGCTTGAACTGGGGCATCAGAGGTTTCAGGGCTGCTTGATATACATGAGACCTTGCCCTGAAAAGACCAGAATCAACAAACAAACAAACAAATAAGCAAGCCAGCCAGCCAAGTAAAATTGTTTTCAAATCTAAGTCACCTTACCCACATTTTGTTTGAGTGACTTAGTACGGGGATGGGTGGAGTTCCAGGAGTTGTAAGTTCTACACTGACAACAGAAGTGGACATAGCATATTGAAGTCACCGTTCACTGTGTTCTTCAAAGAGGAAAGGGTTAGGAGCAGCAGTGTTCCCAGCCGTGAGCATGGACTTCTTAGACCATGAAGATGGAATTGTGGGGAGTGTTAGAGATGCTACACAGAGAAGACAGTTACCAAGCCATCAGCCTTATTTATTTTGTTTAAATTTTACCCTGCATTCCCCGTTACGGAGTTCTTACAGATCCAAATGTTCACATACATTCTTAAACTTAATATGTGCATCTTTCCCTTCCTTCTCTGTGTGCTATCCATCTCCTTATTGGAAATGTATTAG
Seq C2 exon
GTCACCAAAAAGGAGAAGATCTAGGTCTGGCTCTAGGTCTCGGAGATCCCGCCACCGTCGCTCTCGGTCTCGGTCCAGGGACAGGCGCCGACACTCACCTCGCTCTCGATCTCAAGAAAGACGGGATCGAGAAAAAGAGAGGGAACGGCGGCAGAAAGGCCTCCCTCAGATCAAGTCAGAAACTGCAAGTG
VastDB Features
Vast-tools module Information
Secondary ID
-Srsf15:NM_178923:11
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:
ENSMUSP00000044472





     
      









    
Other Inclusion Isoforms:
NA
          









    
Other Skipping Isoforms:
ENSMUSP00000131974, ENSMUSP00000132250
  



Associated events






Other assemblies


mm10




Conservation


Human
(hg38)
chr21:31693485-31694203 
ALTERNATIVE
HsaINT0148701
(SCAF4)
Human
(hg19)
chr21:33065798-33066516 
ALTERNATIVE
HsaINT0148701
(SFRS15)
Rat
(rn6)
chr11:30392126-30393125 
RnoINT0131059
(Scaf4)
Cow
(bosTau6)
chr1:3087749-3088437 
LOW PSI
BtaINT0128909
(SCAF4)
Chicken
(galGal4)
chr1:104008832-104009687 
ALTERNATIVE
GgaINT0115186
(SCAF4)
Chicken
(galGal3)
chr1:108140923-108141778 
LOW PSI
GgaINT0115186
(SFRS15)
Zebrafish
(danRer10)
chr10:25746673-25747400 
LOW PSI
DreINT0131053
(scaf4a)
Fruitfly
(dm6)
No conservation detected




Primers PCR

	

		

			
Suggestions for RT-PCR validation

			

				
F: 
ATGGAAGTAGAGCAGCCTTGTG

				
R: 
TGCAGTTTCTGACTTGATCTGAGG

				
Band lengths: 
270-1193

			

		

	





	
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






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