Special

MmuINT0152669 @ mm9

Intron Retention

Gene
NA
Description
NA
Coordinates
chr16:90247890-90248948:-
Coord C1 exon
chr16:90248758-90248948
Coord A exon
chr16:90247991-90248757
Coord C2 exon
chr16:90247890-90247990
Length
767 bp
Sequences
Splice sites
5' ss Seq
GTGGTAAAT
5' ss Score
5.18
3' ss Seq
AATCACTAATTTACTTTCAGTTT
3' ss Score
5.99
Exon sequences
Seq C1 exon
GTCACCAAAAAGGAGAAGATCTAGGTCTGGCTCTAGGTCTCGGAGATCCCGCCACCGTCGCTCTCGGTCTCGGTCCAGGGACAGGCGCCGACACTCACCTCGCTCTCGATCTCAAGAAAGACGGGATCGAGAAAAAGAGAGGGAACGGCGGCAGAAAGGCCTCCCTCAGATCAAGTCAGAAACTGCAAGTG
Seq A exon
GTAAATAGTGAACCTGTCTTCATACTCTTTATTGTTTTTTGTTTTTGTTTTTTTCCCCCGTTTTGGGTTTAAGATGTTTTATGACTGTTAGCAAAGCCATAAATGATATGTTATCATCGTGGTCGAGTTTTATTCTGAGTAGGGCTTCTGTACGTATCTCTGACTTATGTACTACACGGGCTTTCTAGTACTTCTGTACACATGAGGTGTATCTTTCCACTACCACAACTGCTTCCCTCTTTGATGAAGATTCAGTAATTTGTAGGCTGTGTTAGCTTGGTTGTCATCATTTTTAGAACATACATAGTAGGCATATTCTTGTAAATCATTAACTATTACAGTTTACATCATAATAGTGACCAGTAGGTATTTAAAATGAGGCTCATGCTTAGGAGACACCATACAAAGAAACTACGCACTGAAGCTACAAGTGGGTGGCTGCTGCTTAAGGCTGGGTGGGTTGGTAAGAGCCTGAGGTTCCAGCCTTGTTTTGTTCTGGCTGACAGATAGATGGTCACTGCTGTTAGGGCCTGAGGCTTCATGGGTATTGTTAGGTCTACTCACAGAGGGACTAAGTGCTTTTCCAAGTCTTGTGTCTTAGTTTAATTTCTAAATAACTACTTGTTAAACTTTTAAGTTTATATGTACTTTATGAGTGGGATTTTCTATTTAGACTTTTGGCATCGTGATGTGATGTAGTCATGACACTTATTAATGTGCAGTGCTGCTGGATGAAGTGTGTGTTTTAATCACTAATTTACTTTCAG
Seq C2 exon
TTTGTAGTACCACACTGTGGGTGGGACAACTGGACAAAAGGACTACTCAGCAGGATGTTGCCAGTCTCTTAGAAGAGTTTGGTCCAATTGAATCGATTAAT
VastDB Features
Vast-tools module Information
Secondary ID
-Srsf15:NM_178923:12
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)
chr21:31692450-31693293 
ALTERNATIVE
HsaINT0148702
(SCAF4)
Human
(hg19)
chr21:33064763-33065606 
ALTERNATIVE
HsaINT0148702
(SFRS15)
Rat
(rn6)
chr11:30391234-30391934 
RnoINT0131060
(Scaf4)
Cow
(bosTau6)
chr1:3088629-3091333 
LOW PSI
BtaINT0128910
(SCAF4)
Chicken
(galGal4)
chr1:104006757-104008640 
ALTERNATIVE
GgaINT0115187
(SCAF4)
Chicken
(galGal3)
chr1:108138848-108140731 
LOW PSI
GgaINT0115187
(SFRS15)
Zebrafish
(danRer10)
chr10:25744738-25746487 
LOW PSI
DreINT0131054
(scaf4a)
Fruitfly
(dm6)
No conservation detected




Primers PCR

	

		

			
Suggestions for RT-PCR validation

			

				
F: 
GTCACCAAAAAGGAGAAGATCTAGGT

				
R: 
TCGATTCAATTGGACCAAACTCT

				
Band lengths: 
287-1054

			

		

	





	
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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