Special

MmuINT0132952 @ mm9

Intron Retention

Gene
ENSMUSG00000040043 | Rbms2
Description
RNA binding motif, single stranded interacting protein 2 [Source:MGI Symbol;Acc:MGI:1861776]
Coordinates
chr10:127574530-127574763:-
Coord C1 exon
chr10:127574717-127574763
Coord A exon
chr10:127574624-127574716
Coord C2 exon
chr10:127574530-127574623
Length
93 bp
Sequences
Splice sites
5' ss Seq
TGGGTAAGG
5' ss Score
9.08
3' ss Seq
AACAAAGGCCTCTCCTGCAGGTT
3' ss Score
6.21
Exon sequences
Seq C1 exon
GGCGGTATGGCCTTGACCTATGACCCCACTGCTGCCCTTCAGAATGG
Seq A exon
GTAAGGGTGTTTCATTCTAATTTTCAAACAGCAGTTAGTGGAGGTGGCTCTGGCTCCCCGAGGCTTCTCACTGAACAAAGGCCTCTCCTGCAG
Seq C2 exon
GTTCTACGCAGCTCCTTACAGTATCGCCCACAGCAGGATGCTTGCTCAATCTGCGCTAGCCCCGTATCTTCCATCTCCTGTGTCTTCCTATCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000040043-Rbms2:NM_001039080:9
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact





	

	
ORF disruption upon sequence inclusion





No structure available

		

			
Features


			

				
Disorder rate (Iupred):
  C1=0.075 A=NA C2=0.000
 
                        

				
Domain overlap (PFAM):

					





						

							
C1:
NO

							
A:
NA

							
C2:
NO

						

					

				








    
Main Inclusion Isoform:
NA





     
                   









    
Main Skipping Isoform:
ENSMUSP00000089664f4062A





     
      









    
Other Inclusion Isoforms:
NA
          









    
Other Skipping Isoforms:
ENSMUSP00000075585, ENSMUSP00000089664, ENSMUSP00000096742
  



Associated events






Other assemblies


mm10




Conservation


Human
(hg38)
chr12:56581880-56582058 
ALTERNATIVE
HsaINT1029010
(RBMS2)
Human
(hg19)
chr12:56975664-56975842 
HsaINT0138676
(RBMS2)
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
chr5:57174312-57174467 
ALTERNATIVE
BtaINT0123473
(RBMS2)
Chicken
(galGal4)
chr2:40109294-40116629 
ALTERNATIVE
GgaINT0092984
([1])
Chicken
(galGal3)
chr2:39530197-39537532 
LOW PSI
GgaINT0092984
(RBMS3)
Zebrafish
(danRer10)
chr23:25830686-25830806 
LOW PSI
DreINT0125512
(rbms2b)
Fruitfly
(dm6)
No conservation detected




Primers PCR

	

		

			
Suggestions for RT-PCR validation

			

				
F: 
GCGGTATGGCCTTGACCTATG

				
R: 
AGGAAGACACAGGAGATGGAAGA

				
Band lengths: 
135-228

			

		

	





	
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






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