Special

MmuINT0084524 @ mm9

Intron Retention

Gene
ENSMUSG00000030287 | Itpr2
Description
inositol 1,4,5-triphosphate receptor 2 [Source:MGI Symbol;Acc:MGI:99418]
Coordinates
chr6:146115101-146119941:-
Coord C1 exon
chr6:146119746-146119941
Coord A exon
chr6:146115194-146119745
Coord C2 exon
chr6:146115101-146115193
Length
4552 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGCC
5' ss Score
7.13
3' ss Seq
CATGCTCTATGTTCTTCCAGGTA
3' ss Score
11.54
Exon sequences
Seq C1 exon
CTTTTTGATTTGGTATATAGAGAAGAGACCCTGCTGAATGTCATCAAAAGCGTCACACGGAACGGCCGCTCCATCATCCTGACCGCGGTCTTGGCTCTTATCTTGGTCTACCTGTTCTCCATCATCGGCTTCCTTTTCTTAAAGGACGACTTCACCATGGAGGTGGACAGACTGAAAAACAGAACTCCAGTCACAG
Seq A exon
GTAGCCTCCCTACGCTCAGAGCTCTTCCCTGCCCTTGTAACTTGTCCACCCCTTGTTGGTGGGATTTCGGACAATCTGAGATAAAGTTTTCACTTTTGAATTGTGGTCTTGTTTACCGCTGCTGTGGTTTGAGGGCCGGGCGTCCTCCTCACCTCCTGGGTTTGAACATCTGGTCCGCATGTGCTGGCCCTGACTTAGCCAGTGGAGCCTCACAGAGGAAGTGATTGACTGGGGTGGGCCCTGCGGTTGGGTAGTCTGGCCTCACTTCCGGTCTGCTGTCCACTTCCTGGCAGCTAACATGGTGTGACCGGCTGCCTCTGCGCTGCCTTGGCTGCTGCCTTGTGGCTCTGTATCCCTTTGTACTGTTAGCCAAAATAAACTTCGTTTCTTCCTCCAGTTGCTCGTTGTTAGGTGCTTGATCCCAGCAATGATTAAAGTAACTAATACAGCATGTAAGAGCCGAGGATTTGAAATACTTTAGCCTGCACACGATCAGAGTGGTTGGGAAATACACGGGAGAAATCATCTGTGCTCCATCCTACAGGGTTTCGTAATGCTGCGTGTACAGCAGGAGGCAGCGGCAGCTTTGCTGCAGGAGACCCGAGGATTCTCTTGTTCCTCTTCTTTCCGTTTCCCCAAAGGACCTCAGAGCGGCCGCTCGGCCATTATCCCGCAGGCATTGCATTATATCCAAATAACTTAAAATGATAAATGCTTTGATAAATGGTGATCATCAGGCAGTACTAAGTGTGTTTGAGCAGATGAACACCAGAGCTGTGCTTAAAGGACCCCAGTCTTCAGTGCATGGCTGCTGGAGTCTCTGCATGACGTTTGCCACCCGATCGCTTAGACAGCACCCAGTGTTCTCACTGAGAGGCCTTGGCACCAGGAGCTGGCCTCCCCTGTTGTCACTGTCCTTTGCTTCTCACCTGGCATATATACCCTTGTTGCTGGACTAATCCCTTTCTTAACCTTTCCCCTGGTTTGCTTGATAGAAACCATGATTCTACATTGTGCTGTTTTCTTGCTTTCACAAACTACTGTTTATAGAGATGGGAAATCACAAAACGACATCACTTTCTCTCCCAAACCATTGAGATTTAATTAGTGGAAACATTTGCAGTGTCCTGTCTTTCCTTTAGCATGTAATCCTTAATTACAAAATTGACAGTGTATGGTGATGTCTTTAATAAGATTATGGAATGACTAAGCAGGGGCTGGTCATTTATTAGTGAGTCTAAATGGGCTGCACAAGCCACAGAAACATCAGCTTTACACATTTTAAATTACAACACTGGGAGATACTCTTGAACTCCACGCCGAGTATTAGACTTAGTTCTTGGGAATGTGAATGCTGTTGTTGCCTCATAGGCTTTCTCTAGAGTTTCACACGCATGCTGCCAGCTTTCCATCTCTTGTAACAAAAAGCCCAAGAAAATAACTTTAATACAAGGAAATGACTTATTTTGGCAGCTCATGTTTTCAGTTAATGGTCATTTAGCCTCAACACCTGAGACCTATGGTGAGACAGAGAGTATTGTGGTTGAGCGAAGATTCTCGCCCTGTTGTGACTTTGAGGAAGAGGGAGAGAGAAGGTTCCTGACACCCCTTCAAGGGTACAGCCAGAGTGACCTCTCACTACACACTAGGCCTCACCTCTCAAAAGATCTGATAGCTCACTTGGATGGTGACCAAGGCCTCGTTTTTTATGGCCTTTGAGGGACACTGAAGTTGCAAATCATTATTACATTACACTTCCTGTGTGTGGAGAAAAGGCACCTTTGTAAGGCCCAGATCTCGGTTCTTTCTAAACTCCTTAGGAACCGTCTAACCTCAGCACTGTATGAGCCTCAAATTTTAATTCCTTGCTAGATTAGAGGCCTGGCCACCGTTTGTTCAGTGGAGAAACTGAAGCATTAAAACTTACAGAACAAAAATGTACAGTAGGGGCTGGTTTTCAAATTCGATGGTGAATATTTTAAGTTCTTGGATGATGAAGTTAGTGCTATATTATGAATGTACATTTTTTAGAAATAGGAAAAAGGCAGTATAAAACACTAAAGCTAAAATTTCAAGCTCTTTCTCTACTGAAAATACATATGCACCATTTTATAGAAATCAGTCAAAGAAAACTTTTGTAAGTACTATGAAAGTGCAGCACATAGGGACAGCCAGCAGACGTAAATCCCTCATGCTCCATGGTTGGAATAGTTTGTTTCATAGCTTAAGAGCCTAGAAAAAAAATCTTGGTTTCCATATTTTAAATTTCATTTCTAACACATCGTAATAGCATCTGTCTTAAGTCTGCTTTCTGTTGCTATAACAGATTACCGGAGACCTTGTGGCTTATAAAGAATAGATGGTGGCGCACACCTTTAATCCCAGGCAGGCGGATTTCTGAGTTCGAGGCCAGCCTGGTCTACAAAGTTCCAGGACAGCCAGGGCTATACAGAGAAACCCTGTCTCAAAAACAAAACAACAACAACAACAACAACAACAACAACAAAACCAAAAAATCCCAACCCCCCCCCCAAAAAAAAAGAATAGATGTTTATTTAGTTCATGGTTCCAGAGGCTGGGGGAAATCTAACAGCATAGGACTTTAATCTGCTTGGCATCTGAAGAGACTGTTCTGGTGATGGTGACAGCATGGGGTGGGCATACACACACACAAACACACACACACACACACACACACACACACAAACGCGCGCGCTCGCGCTACAGTGAGAAGAGGCGAGCTAGACTTTATGATGAACCCACGATAAGCTAGTAAGGCACAAGTGCGTGAATCCAAGCATGAGGAGAGAGCCCCCATGTCTTGTCACCCCTTAAAGGCTGCCCCTGGTTCTACCCCCAGATACTTCACAACCAGGCTTCAGACTGTGTTTTGGTGGAAGTATCTGGACTACACTGGATCTCGGTTGGCACATGGTTTCTTTGTTCTTTGCCTTTTGGACACTGTCGCTCACAAAGCTGCTCAGCTTTGTGAAATTATTGAGGCTAGCACACTCCAGCAGTGGGAGTCATTTGGGTTGCAGATCAGAAACCCCACAGACAGGGAGGTGGTGAGTCAGAGCTGGGCTGTGTGTAAGTACCTTGGAGAGCTGGGGAGAGTGGAGGACACGTGCCTCGCAGGTATCCACAGGTATCCTTGGAGATTTAGGAGTGTGTGGATCCCTCCTCTGGACCTACCATCTGCTGCTAAGTAGTCAGGAAGCTGCCACTCCAGCATGGCCAGAACAGTGTCATGGGAAAGCACATGGAAGGAAAGGTCCCTTGACAAGTACACAGCACTCGTCACACCTGTCCCTCCCCCATTCTCATCTACCCAGAGTCAAGAGAACTTGCCTTCCTGGCTTTACAACCTATGATTTCCCTCCTGCCAATCCCAAACTGACATTCCAACCACAGCTCTGAGGACCCACACCACCTGTGGGTTGCTTGGTGGAGAACACTGGACTAGAAGCTTGTGAGACTCAGCCTGGTATGTCCATTGGTGCCCTTTGGTCCTATGAATCCCACCCCAGTGACCCCCTGGGTCCCCTGCTTCATATTCATGTTCATAAATCCTGTGGCTGCATTATGAGTCCTTCTGCAAAAAGCTCTTTTCTTTCTCCTGTAGGTCTTGCATCCCCCTCTTCGATTGTATTATTTTGTGTTAACTTTTCTCCATCTGTCAGCTCTTGTTACAACTCTGCTTTTTCATATCCTGTCAGTTCTCCAAAGCCTTGGACTCTGGGCTGTCAGAGCCTTGTGGGATGCATCAAGCACTAAAGGAATGCCACCAGGGGTCACTCAGAACTCCATCTCTGTCCCTCTCTGACCACCAGCCATGCGCTCTTGCCCATATCACTGCCAAAGATAACACTCCTTCTCTATGATGTCGCAGCACAATGTATGGCCGCTGCTGCCTCCCTAGCCTTCCCATTCCTCACATCTCCTTGTGACCCCAGATCATATTTGTAACTTTTCCTGCAATCCTCTCAGTGTATGAGTCGAACTTTCAAGTCAAACTTTGTTTAGTACAAATCGAAAGGTCATTATCTTCTCGCCAGAGAAGCCACTGAAAGAGGGGTTCCTGGGGACTCAGGAAGAACAGGGACCTGGAGTCTTTTATCCTTGGGCTGTTTGAAGCCTTTTTTCTCTGGGGCCATACTTCATAGAGAGAACTGCCCACCCAAGGTCCTTTCCTCAGCTACAGGGCTGGTAGCGTGAGCTACAGAATGCTCACTGCCCTGGGGAGGGAACAGTCCTGGCATTCCAGTCAGAGCCCTGAACCCAGAACCCTGAACACACCTGGCCGTAGAAATGTTAGTACTTGTGGAGGTTTAGGTCAATGGTATTATTACTACTTTATCACAGCCACTAAAAGAATGGAGGTTTTGCACATTGGCGATGGATCTATTCCTTATTTATAAAATTGCTTTAGCAGGCAAAACTCAGATCTCCAGGCTAACGTTACCAAAATGAAGTTCAGTTACCCTGGACTCATATGCCACTGTGGCTACGTTCACTTGGTCATGTATGGACATGCTCTATGTTCTTCCAG
Seq C2 exon
GTAATCACGGGGTTCCCACTATGACCTTATCTTCCATGATGGAAACCTGCCAGAAGGAAAACTGCTCACCCACGATCCCCTCTTCCAACACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000030287-Itpr2:NM_019923:51
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact





	

	
ORF disruption upon sequence inclusion





No structure available

		

			
Features


			

				
Disorder rate (Iupred):
  C1=0.000 A=NA C2=0.281
 
                        

				
Domain overlap (PFAM):

					





						

							
C1:
PF0052026=Ion_trans=FE(28.6=100)

							
A:
NA

							
C2:
PF0052026=Ion_trans=FE(13.7=100)

						

					

				








    
Main Inclusion Isoform:
NA





     
                   









    
Main Skipping Isoform:
ENSMUSP00000049584





     
      









    
Other Inclusion Isoforms:
NA
          









    
Other Skipping Isoforms:
ENSMUSP00000078526, ENSMUSP00000107303
  



Associated events






Other assemblies


mm10




Conservation


Human
(hg38)
chr12:26411413-26415302 
LOW PSI
HsaINT0083283
(ITPR2)
Human
(hg19)
chr12:26564346-26568235 
LOW PSI
HsaINT0083283
(ITPR2)
Rat
(rn6)
chr4:180481952-180485199 
LOW PSI
RnoINT0006983
(AABR07062512.1)
Cow
(bosTau6)
chr5:83889603-83895650 
LOW PSI
BtaINT0078548
(ITPR2)
Chicken
(galGal4)
chr1:67842318-67844477 
ALTERNATIVE
GgaINT0122270
(ITPR2)
Chicken
(galGal3)
chr1:69852323-69854483 
LOW PSI
GgaINT0122270
(ITPR2)
Zebrafish
(danRer10)
chr6:39984178-39985640 
LOW PSI
DreINT0083610
(itpr1a)
Fruitfly
(dm6)
No conservation detected




Primers PCR

	

		

			
Suggestions for RT-PCR validation

			

				
F: 
No suggested primer sequences

				
R: 
No suggested primer sequences

				
Band lengths: 

			

		

	





	
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






Retrieved from "https://vastdb.crg.eu/wiki/Special:VastDB"