Special

MmuINT0084423 @ mm9

Intron Retention

Gene
ENSMUSG00000030102 | Itpr1
Description
inositol 1,4,5-trisphosphate receptor 1 [Source:MGI Symbol;Acc:MGI:96623]
Coordinates
chr6:108328156-108331068:+
Coord C1 exon
chr6:108328156-108328297
Coord A exon
chr6:108328298-108330909
Coord C2 exon
chr6:108330910-108331068
Length
2612 bp
Sequences
Splice sites
5' ss Seq
CAGGTCGGT
5' ss Score
7.53
3' ss Seq
GCTCTTTCTTTCACAAACAGATC
3' ss Score
9.18
Exon sequences
Seq C1 exon
GTCTGTCACGAAGCTTTTGGAAGACTTGGTTTACTTTGTCACGGGTGGAACTAACTCTGGCCAAGACGTGCTTGAAGTTGTCTTCTCTAAGCCCAATCGAGAGCGGCAGAAGCTGATGAGGGAACAGAATATTCTCAAGCAG
Seq A exon
GTCGGTGAGCCATGATGCGCTTTGGGGTGGGCTCTGTGAGAAGCCTGTGGGATCCGTGCTCATACAAAGAGACAGGGATGATTTTCATCCCTAAGACTTGGAGGATGGACTTTTAAGTACTGAGTTCTTAGAGTAGTTCTAAGTGTGTAGCAAATACAAGTGACAGGAGAGTGTCCTTCTGTATCCCCTGCCCCAGAGTCAACATCCTGCAGCAGAATGGAGCATTTATTGCAGGAGTGACCATAGGTCAATAGATCACTGTTACTCAAGGTCTATACTTTTTGGACCTCTCTTGGAAGTGTACATGATTTGTTTTTGACAGATAACAATGGCATGCGTGCACTATCACAATATCATGGCCTGAAAAGTTCTCTGCCCCCCAGCTCTTCTGCTTCACCTGTCATTCATCGTTCTTCACCACGCCTTCCACCCACTCCTCCTTTCTGTGTCCATGTTCTGCCTTGTTCAGACTACCGTATAGATGGCACGATGTAGCTGGCAGCCTTTTCAGATATGTACAGTTCTCCGTGCCTTCTCGTGACTCAATGCCCCAGTCCCATTGACAGGCATTGCACTTGCTGAACATGAGCCGAGTGAGCGCTCACTCACCTGTTAGGTACCCTAGGAAGTGTTCAGGTGACGCCTTTACATTCTTCAAAACTAATATAATGTGCCACATTTCCTTACGGTTACTTCAGATGTTTAGGGAATTTGCAGTACTTGACAAACACAGAAGGCCTGTATTAGCTCTCACGGACAGCTTTAGTGATCACTTCTAAATATTTTCATGAAGAAGGAGTGTGAGTTTACAGGAAATATCTAGATGACATTTGGCTTGTAGGAGTCAGCTGTCCTGTCACTGTGACGACACAGCTGGAAAAAAAAATCTCACAGAGAAAAGGTCTGTTGTAGTTGCAGGAGTTTCAGTCCATGTTCACTAGCCCTGTCACTCTTGGGCTCTGGTATGTGATGTTGGGCAATATGTGGTCTGCTAACCCCTGCCTGGGGGGAACAGAGAGGAGCTTGTTCCTGTGAACATGCCTCTCCTATGAAACCTATTAAGCTATGAATCTGTTGGTGGCTAAGGACTCACATCTCAACAACTGCCACTTTGGGAACCAGGCTTTTCCCGAGAGCTTTTCAAGGCCTTTAGGATTCTGAGTATGGATAGTGTTAACTTCAATAAGTGGACGAATTAGAGGGAGGAGCATGACAAATCCAAGTGGAGGACGCACTCTGAGCATGTGCCGTGCACCTCTCTAAAGCTGTGAGATTTGCTTAGTTATTCCTTGGACCTTGCTGGTGACCAAAATGAAAAGAGAGACAAGCTCCAAAGCCCCATGGTTCTCCATGAGAACTTGGCATGTAGAAATCCTTCTTCCTGTTGGACTGGGTTATACAAAATTCACATTTCAACAAGGTTTGAAGTCCAAGAATGAATCATACCCAGATGTTTCATGTGTTGAAAGCCAGATTACAATTCTTGCTTAGCGTCCTTGTTCATTTCCATGCTAGCCATCCCTTGAGGGGTTAAAAGAGTGTTGGTCACTTATATACGGAGCTGTACTTCTGATGTGCAACTGCTATCTGTTTTCATCCTTAGAAAACTTAAATACTTTAGATACTGTGCTCTGTGTTCTCCCACGGAGAGAGCATGGTTACTTTGGACGTGATCGGCACGGTTACCCAGTGTTCCTGAGATCCAGTTCACCTGGCTGCTAGCAAAGAATTACATTCATTTTGCTCTTACCAGGATTATATTCATTTTGGTCTTACCAGGATTGTAGTCCAGGAGGCATCAAATCCAGCAGCCGTCTGAGAGCACTGTCAATGAAAGCTGTTTTTATAGCTTAATCCACAAACAGGCTGGCTAACTGCATCCTGTTTGTGAAGACTTCTGGTTGATGTGGCCAAGGTCACACTGCCTTACAGGAAAGGGGTCGGATAGTCTTATGATGCTAGGCAGATAATTCCAAACTGTTACAAAACCTACTGAGTCTCCTCCCAGGAGTTGCAGGTCAGCTCAGTGTTTGAGGTTAGCCTATACGTGTGAGTGCATGCAAAGACAGCTAAGTTCAAAAGTTGAACTGTGGACATGTGTGACACCTGGCCTAACAAGTCCTCCCAACTTCAGTTTTAGTGCCTGGATCAATGCTAATCTATTTTGATTTTGTCCCTGGCAGAAGTCATAAAGGTGTGTGGTTTCAACATAAATCCTTCCCTGAATGCAGCTAGACAATGCTCTGTCCTGTGAATGGGGACCAATAAATGAGTGGGTGCCCAGCCCAGCTGACTGACAGATTCAGGTGTCAGTTTCTTGATGTGTTTGGATAGAGAAACCTTTTCATATAATCCCATTATCCCTATTGTTGTGGTCCTTCCTGGAAAGAGTTAAAGTTTAAAACACGGAGTGGCCGGGCGGTGGTGGTGCACGCCTTTGATTCCAGCACTTGGGAGGCAGAGGCAGGCGAATTTCTGAGTTCGAGGCCAGCCTGGTCTATAGAGTGAGCTCCAGGACAGCCAGGGCTACACAGAAAAACGTTGTCTCGAGAAACAAACAAACAGAAAAAAACCACGGAGTGATGGCAGCCTGCTCTTTCTTTCACAAACAG
Seq C2 exon
ATCTTCAAGCTGTTGCAGGCCCCCTTCACGGACTGCGGGGATGGCCCGATGCTTCGGCTGGAGGAGCTGGGGGATCAGCGCCATGCTCCTTTCAGACATATTTGCCGACTCTGCTACAGGGTCCTGCGACACTCACAGCAAGACTACAGGAAGAACCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000030102-Itpr1:NM_010585:16
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact





	

	
ORF disruption upon sequence inclusion





No structure available

		

			
Features


			

				
Disorder rate (Iupred):
  C1=0.021 A=NA C2=0.000
 
                        

				
Domain overlap (PFAM):

					





						

							
C1:
PF0136516=RYDR_ITPR=PU(22.3=95.8)

							
A:
NA

							
C2:
PF0136516=RYDR_ITPR=FE(25.2=100)

						

					

				








    
Main Inclusion Isoform:
NA





     
                   









    
Main Skipping Isoform:
ENSMUSP00000032192





     
      









    
Other Inclusion Isoforms:
NA
          









    
Other Skipping Isoforms:
ENSMUSP00000032192f2673A, ENSMUSP00000032192f2674A, ENSMUSP00000108830, ENSMUSP00000108833, ENSMUSP00000108834, ENSMUSP00000127802, ENSMUSP00000130211
  



Associated events






Other assemblies


mm10




Conservation


Human
(hg38)
chr3:4663207-4665137 
LOW PSI
HsaINT0083187
(ITPR1)
Human
(hg19)
chr3:4704891-4706821 
LOW PSI
HsaINT0083187
(ITPR1)
Rat
(rn6)
chr4:140411538-140413506 
LOW PSI
RnoINT0076628
(Itpr1)
Cow
(bosTau6)
chr22:21799224-21800962 
LOW PSI
BtaINT0078448
(ITPR1)
Chicken
(galGal4)
chr12:18437450-18437797 
ALTERNATIVE
GgaINT0021953
(ITPR1)
Chicken
(galGal3)
chr12:19081086-19081433 
LOW PSI
GgaINT0021953
(Q9DEX2_CHICK)
Zebrafish
(danRer10)
chr11:35681418-35682571 
LOW PSI
DreINT0083627
(itpr1b)
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"