Special

MmuINT0152680 @ mm9

Intron Retention

Gene
NA
Description
NA
Coordinates
chr16:90258227-90259091:-
Coord C1 exon
chr16:90258956-90259091
Coord A exon
chr16:90258367-90258955
Coord C2 exon
chr16:90258227-90258366
Length
589 bp
Sequences
Splice sites
5' ss Seq
AAGGTACAG
5' ss Score
8.04
3' ss Seq
GATGCCCTTTGCTTTTTCAGGCT
3' ss Score
10.13
Exon sequences
Seq C1 exon
AGTAAAATAGTTCGTGTGCTAAATCTTTGGCAAAAAAATGGAGTGTTCAAAATTGAAATTATTCAGCCTCTTTTGGACATGGCAGCAGGAACCAGTAATGCTGCTCCAGTAGCAGAAAATGTCACCAACAATGAAG
Seq A exon
GTACAGTGCATATCTGCCAGTGACAGAAGGTCCTGCAAGTGTACTGGCGTCTGTCTGCTTTTCTGTATGTGTGTCTGTGTTGTCCTGTCCCAGTGTGTTTGCCTTTGTTTTATCTTATTTTCTCTTATTGTTCTTTAGCTGCCTGTTTGTTTTCAAAGGGTGTGGATTCAGATGAGAGGGAGGGAGGGTCTCAGAGGAGCTGGGGAGGAAAGCCATGATCAGAACATAGTGCAACTGGTCAGCATTTAACAAAAGTTAGCAAAAGCAAGCAAGCAAGCAAACAGAAAGAATAGAATTTCTGTATGTGAAAGGCTTTGTTTCTAAGCTGGTAGAAATTCCTGTGGAAGATGACTTGATTTGCTTTTGGAAGGTACAGTTTTTCTTTCTGTATTTTTACTTCAAATGAGAATGCCCTTTGTCGCTTCATCTCTCTCTCTCTTTCTCTATCTAGAATATGTCTTAGTAACCACTATCTATTCATTTTCCTATGTAAAACTAGACAGGATTTTGTTTTAGCAGCAAAACTTGAAAGGCATCTTAAAGGGGAAGTATGTTGACTTGTGAGGCCTGATGCCCTTTGCTTTTTCAG
Seq C2 exon
GCTCACCTCCACCCCCAGTAAAAATCTCTTCTGAACTTGCACAAGCTCCCACAAATTCCATGCCTACTGTAGCCCAGCTGCCCAGCTCCGATGCCTTTGCTGCTGTGGCTCAGCTGTTCCAGACAACTCAAGGCCAGCAG
VastDB Features
Vast-tools module Information
Secondary ID
-Srsf15:NM_178923:5
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:
ENSMUSP00000044472f1382A, ENSMUSP00000131974, ENSMUSP00000132250
  



Associated events






Other assemblies


mm10




Conservation


Human
(hg38)
chr21:31701919-31702243 
ALTERNATIVE
HsaINT0148711
(SCAF4)
Human
(hg19)
chr21:33074232-33074556 
ALTERNATIVE
HsaINT0148711
(SFRS15)
Rat
(rn6)
chr11:30401773-30402265 
LOW PSI
RnoINT0131073
(Scaf4)
Cow
(bosTau6)
chr1:3076849-3077172 
LOW PSI
BtaINT0128921
(SCAF4)
Chicken
(galGal4)
chr1:104014580-104017703 
ALTERNATIVE
GgaINT0115179
(SCAF4)
Chicken
(galGal3)
chr1:108146671-108149794 
LOW PSI
GgaINT0115179
(SFRS15)
Zebrafish
(danRer10)
chr10:25749592-25750633 
LOW PSI
DreINT0131065
(scaf4a)
Fruitfly
(dm6)
No conservation detected




Primers PCR

	

		

			
Suggestions for RT-PCR validation

			

				
F: 
ATAGTTCGTGTGCTAAATCTTTGGC

				
R: 
CTGCTGGCCTTGAGTTGTCTG

				
Band lengths: 
270-859

			

		

	





	
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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