Special

MmuINT0023963 @ mm9

Intron Retention

Gene
NA
Description
NA
Coordinates
chr2:32081751-32082556:+
Coord C1 exon
chr2:32081751-32081906
Coord A exon
chr2:32081907-32082464
Coord C2 exon
chr2:32082465-32082556
Length
558 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAAG
5' ss Score
8.27
3' ss Seq
TTGCTTCTTGGCCACTCTAGTCC
3' ss Score
5.13
Exon sequences
Seq C1 exon
CTCACTATGCCACTGCCTCGGTATGGCTCCGGGCAGCAGCCACTGATCCTGCCACAGTCCATCCAGCTGCCTCCAGGACAGAGTCTCTCTGTTGGAGCCCCCCGGAGGGTTCCTCCACCTGGCTCCCAACCTCCCGTCCTGAACACCAGCAGAGAG
Seq A exon
GTAAAGGTGCTCCCAGAGAGGGGCATTGTGCAGCCAAAGCCTCTACCACAGAACGGCTGTAGAAAGGGCACGCCTCCAGTCTCTCACACTGCAAAGGCCTCAGTCTAAGATACTTAAGTGTAAACTAGTCAGGAAGACAGGCGTTGGCGTGTGCCAGACTGCCAGGCATCATATACAGCCTGTCTTAGCCAATGAGGAGGAGCCACGTGGCCACCACAGGTGCAGGACCTAGACTCCTGAGTAAGGACAGGAGTCTGTGTTGCGTGTCTCACCAGGCCACGTGAGCTTGATGTAACTGGGGACTGGGCGATTGTGCACACTCAGTTTCCTGTCCCTTCAAGGAAGAGCCTGCCTGCCCCTGCGCATGCTTTAATCCTAGCACTCAGACATGGGGACCGGAGGTCAAGGACAGCCTTAGCTGTGGAGTGAGGCGTAGTCTCAGAACAAGAATAAACACTAAGACTGAGCTTCTCCCTGAGTCCGGGTTGGGTTTGGGCGGCTGTGGGCTGGGCTGTCTCTGGGCCGCTGAATGACTCTTTTGCTTCTTGGCCACTCTAG
Seq C2 exon
TCCGCTCCGATGGAGTTGAAAGGCTTCCACTTTGCCGACAGTAAACAGAATGTTCCTACTGGAGGGTCCGCACCATCCCCGCAGGCATACAG
VastDB Features
Vast-tools module Information
Secondary ID
-Bat2l:NM_001159634:29
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:
ENSMUSP00000064892f6238A





     
      









    
Other Inclusion Isoforms:
NA
          









    
Other Skipping Isoforms:
ENSMUSP00000035734, ENSMUSP00000064892, ENSMUSP00000114656, ENSMUSP00000116429
  



Associated events






Other assemblies


mm10




Conservation


Human
(hg38)
chr9:131491581-131492168 
LOW PSI
HsaINT0016688
(PRRC2B)
Human
(hg19)
chr9:134366968-134367555 
LOW PSI
HsaINT0016688
Rat
(rn6)
chr3:11244513-11245114 
LOW PSI
RnoINT0118615
(Prrc2b)
Cow
(bosTau6)
chr11:101639831-101640282 
LOW PSI
BtaINT0118616
(PRRC2B)
Chicken
(galGal4)
chr17:6214334-6214964 
ALTERNATIVE
GgaINT1022718
(PRRC2B)
Chicken
(galGal3)
chr17:6841277-6841907 
GgaINT0123937
(PRRC2B)
Zebrafish
(danRer10)
chr5:71240196-71240771 
LOW PSI
DreINT0017312
(PRRC2B)
Fruitfly
(dm6)
No conservation detected




Primers PCR

	

		

			
Suggestions for RT-PCR validation

			

				
F: 
CACTATGCCACTGCCTCGGTA

				
R: 
CTGTATGCCTGCGGGGATG

				
Band lengths: 
246-804

			

		

	





	
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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