Special

MmuINT0084530 @ mm9

Intron Retention

Gene
ENSMUSG00000030287 | Itpr2
Description
inositol 1,4,5-triphosphate receptor 2 [Source:MGI Symbol;Acc:MGI:99418]
Coordinates
chr6:146366454-146367038:-
Coord C1 exon
chr6:146366940-146367038
Coord A exon
chr6:146366538-146366939
Coord C2 exon
chr6:146366454-146366537
Length
402 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAAT
5' ss Score
5.37
3' ss Seq
ACTCTTTTTTCCATCCCTAGGTG
3' ss Score
12.57
Exon sequences
Seq C1 exon
ATCGTCGTAGGAGATAAAGTCGTTCTGATGCCTGTAAATGCTGGGCAGCCCCTGCATGCCAGCAACGTGGAGCTCTTGGACAACCCAGGCTGCAAAGAG
Seq A exon
GTGAATCCAATCAGGAAAGGAAGGAGGGGCAGTTATGGAGCTTCTCTAGAGGGAGGGAGGGAGGAAGAGAGGGGAGAGACAGAAAGGAGAAGGAGGGAAGGAAGAGCACACAGAGGGGGAGGGATAGAAGAAGAGGAAAAGGGAGAGGGATAGGAGGAGGGAGGGAGATCGTGATCTTTCTAGATTCTCTCGAGTACCACCTTAGTGGCCTTAGAATCCCTATGGCATCTGTAGGTACTAGCTGTTATTCGAACAATCCTTTGAAGATGCTTTTATGGAGGCCGACACTTTGTTGTCTACAGTTGCTTCTTTTCTTCTTTTCCTGTTTGAAATGGTGATTTCTGGTACAGAATATAGAGTCTACTGTCTTACGTCTTTTAACACTCTTTTTTCCATCCCTAG
Seq C2 exon
GTGAATGCTGTTAATTGTAACACTAGCTGGAAAATCACTTTATTCATGAAATTCAGTTCCTATCGAGAGGATGTATTAAAGGGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000030287-Itpr2:NM_019923:6
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact





	

	
ORF disruption upon sequence inclusion





No structure available

		

			
Features


			

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

				
Domain overlap (PFAM):

					





						

							
C1:
PF087096=Ins145_P3_rec=FE(14.2=100)

							
A:
NA

							
C2:
PF087096=Ins145_P3_rec=PD(11.0=71.4),PF0281514=MIR=PU(2.0=14.3)

						

					

				








    
Main Inclusion Isoform:
NA





     
                   









    
Main Skipping Isoform:
ENSMUSP00000049584





     
      









    
Other Inclusion Isoforms:
NA
          









    
Other Skipping Isoforms:
ENSMUSP00000049584f2705A, ENSMUSP00000119110
  



Associated events






Conservation


Human
(hg38)
chr12:26715836-26716143 
LOW PSI
HsaINT0083289
(ITPR2)
Human
(hg19)
chr12:26868769-26869076 
LOW PSI
HsaINT0083289
(ITPR2)
Rat
(rn6)
chr4:180713719-180714104 
LOW PSI
RnoINT0076712
(Itpr2)
Cow
(bosTau6)
chr5:83532390-83532657 
LOW PSI
BtaINT0078552
(ITPR2)
Chicken
(galGal4)
chr1:68026548-68027035 
LOW PSI
GgaINT0122225
(ITPR2)
Chicken
(galGal3)
chr1:70037922-70038409 
LOW PSI
GgaINT0122225
(ITPR2)
Zebrafish
(danRer10)
chr18:15991412-15994263 
LOW PSI
DreINT0083718
(itpr2)
Fruitfly
(dm6)
No conservation detected




Primers PCR

	

		

			
Suggestions for RT-PCR validation

			

				
F: 
TCGTCGTAGGAGATAAAGTCGT

				
R: 
CCCCTTTAATACATCCTCTCGAT

				
Band lengths: 
182-584

			

		

	





	
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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