Special

MmuINT0041980 @ mm9

Intron Retention

Gene
ENSMUSG00000026616 | Cr2
Description
complement receptor 2 [Source:MGI Symbol;Acc:MGI:88489]
Coordinates
chr1:196984772-196986017:-
Coord C1 exon
chr1:196985610-196986017
Coord A exon
chr1:196984949-196985609
Coord C2 exon
chr1:196984772-196984948
Length
661 bp
Sequences
Splice sites
5' ss Seq
AAGGTAGGT
5' ss Score
10.29
3' ss Seq
TGTATTTGTCTTTCATTTAGGAT
3' ss Score
10.15
Exon sequences
Seq C1 exon
AAATTCTCTGCCCACCACCTCCACCTGTTCGTAATGGAAGTCATACAGGCAGCTTTTCAGAAAATGTACCATATGGAAGCACAGTTACCTACACCTGTGACCCAAGCCCAGAGAAAGGCGTGAGCTTCACTCTTATTGGAGAGAAGACTATCAATTGTACTACTGGTAGTCAGAAGACTGGGATCTGGAGTGGCCCTGCTCCATATTGTGTACTTTCAACTTCTGCAGTTCTGTGTTTACAACCGAAGATCAAAAGAGGGCAAATATTATCTATTTTGAAAGATAGTTATTCATATAATGACACTGTGGCATTTTCTTGTGAACCTGGCTTCACCTTGAAGGGCAACAGGAGCATTCGATGCAATGCTCATGGCACATGGGAGCCACCGGTACCAGTGTGTGAAAAAG
Seq A exon
GTAGGTGCCTAATATGCAAAGTTGAATCATTTCAAAAAGTGAGAGGAAGGGTCTATGGACTTTACATGGGGCCCTTTTAGTACCTATACTTTTAGTCATGATTGTGGTACAAATTATAAAGAAGGCTTTCTTTAGCACCCTCTTAAGCTCTGTGGAAAATTCACCAGAATTTACTAATTTATCCATTCTTTGGGAAATATGAGAGCACAATCTCTTGTTTGTCCTAACAATCACTTTTAAAAAGAAAGCCAACAAGCTTTCACCTGGGGTATATATTAAAATATTCCATAAGGTCTTCTAAGATAGTTCCTTCAGAGGAGAAAATCTGGTGTAATGGCTCATGCCAAAATTGCTATAATTTGGGAGCTGATGATACAAGAAGATGGTGAATTTGAGATCAGCTTGGGGTACAGAGTAAAATCCTGTCTTTAGAAAAAGTAAAAGAAAGAGTTGGAGAAATAGGAGGTAAGTTATGGCAAACAGGAACCAAACAGCCTGAGTATAGAAAAGAAAAGAGGATTGAGAAATTACATGAGAACCACAAAATACCCTCCGTTCCAGACAACTGCCATGCAAATGGTATTATCATATTAATTTTGACTTCTTTGGCTCAGTGTTTTTTTATGCTAAAAATGTTTTATTGTATTTGTCTTTCATTTAG
Seq C2 exon
GATGTCAGGCTCCTCCTAAAATTATCAATGGGCAAAAAGAAGATAGTTACTTGCTCAACTTTGACCCTGGTACATCCATAAGATATAGCTGTGACCCTGGCTATTTACTGGTGGGAGAGGACACTATACATTGCACCCCTGAGGGGAAGTGGACACCCATTACTCCCCAGTGCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026616-Cr2:NM_007758:6
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact





	

	
ORF disruption upon sequence inclusion





No structure available

		

			
Features


			

				
Disorder rate (Iupred):
  C1=0.052 A=NA C2=0.000
 
                        

				
Domain overlap (PFAM):

					





						

							
C1:
PF0008415=Sushi=WD(100=48.9),PF0008415=Sushi=WD(100=40.9)

							
A:
NA

							
C2:
PF0008415=Sushi=WD(100=95.0)

						

					

				








    
Main Inclusion Isoform:
NA





     
                   









    
Main Skipping Isoform:
ENSMUSP00000080938





     
      









    
Other Inclusion Isoforms:
NA
          









    
Other Skipping Isoforms:
ENSMUSP00000044261
  



Associated events






Conservation


Human
(hg38)
chr1:207470103-207470739 
LOW PSI
HsaINT0041176
(CR2)
Human
(hg19)
chr1:207643448-207644084 
LOW PSI
HsaINT0041176
(CR2)
Rat
(rn6)
chr13:113909606-113911783 
LOW PSI
RnoINT0041765
(Cr2)
Cow
(bosTau6)
chr16:5278766-5280201 
ALTERNATIVE
BtaINT0043634
(CR2)
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected




Primers PCR

	

		

			
Suggestions for RT-PCR validation

			

				
F: 
GAGTGGCCCTGCTCCATATTG

				
R: 
AGTGTCCTCTCCCACCAGTAA

				
Band lengths: 
346-1007

			

		

	





	
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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