Special

MmuINT0084428 @ mm9

Intron Retention

Gene
ENSMUSG00000030102 | Itpr1
Description
inositol 1,4,5-trisphosphate receptor 1 [Source:MGI Symbol;Acc:MGI:96623]
Coordinates
chr6:108333615-108336865:+
Coord C1 exon
chr6:108333615-108333809
Coord A exon
chr6:108333810-108336613
Coord C2 exon
chr6:108336614-108336865
Length
2804 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGT
5' ss Score
10.67
3' ss Seq
GTTGATTTTTTTTCCCCCAGATA
3' ss Score
9.2
Exon sequences
Seq C1 exon
GCTGGTTCTTTCTCGTTTTGAGTTTGAAGGCGTTTCCACTGGAGAGAATGCTCTGGAAGCCGGGGAGGATGAGGAAGAGGTGTGGCTGTTCTGGAGGGACAGCAACAAAGAGATCCGTAGTAAGAGTGTCCGGGAATTGGCGCAAGATGCTAAAGAGGGACAGAAGGAAGACAGGGACATCCTCAGCTACTACAG
Seq A exon
GTGAGTGGGAGGCTTGACAGCCGCGGCAAGTGGGAGCATATGGTTTTCTTGTTGGTCACTCTAAGGCATTAGTGATTCTCAATCTGTGTGGGGGTGGGGGGTGGTGGTGGTGGTGGTGTCAAAGAACCCTTTCCTGGGGTCACCTAAGACAATCAAAACACACACTGTAATTCATAACAGTAGCAAAATTATAGTTATGAAGTAGCAACAAAAATAATTTTATGGTTGGGGATCACCACGCCATGAAGAACTGTATTAAAGAGATGGAGCATTAGGGAGGTTGAGAACCACTGTTCTAAGTAATAGAGTGGTGCCCTGCAGTAAGATTGTCCAATGGAAAGTCAGATGTGTGCTTTGTGAAGATCAAGTAGAAGATGTCATGGACTCATAGTCTAATGTTATCTCTGTGTGTCCATGTCATAGGAAGGACAAGAGCATGCACCGGCCTTTGTTACACTTGACCCATAAACAGCACAGCCTGTATATAACACAGTCAGCAGCAGGCAGCTATGGCCCATGCTGCATCTGGTCCAATCCTCATCTCTTAACTAGCCTTTCTGCTTTGGCTGAATTTGGCTTTGTGGCCCCGAGTCCTTATCCTTAAAATAGGTGTAATAGTGCCAGTCTTCCCGAACATTTGCAGAAACAGAAAATGTCTCCATATATGTGCACACACCTGTATTCTCATAATTTATTTATCGGTGTTCATGTATGCAAACCTATGGTAAAAAGCAGGGGTTTGCGCTAACCCAAATCATGTAGCCCTAGGCTACAAACTCTGAGATTGCAACCCAGAACTGTGGGAGGCCCAAGCATGCTGTTCAGAAGGATCCCGACTTTGGAGCATTCTAGATTTTCAGATTAGCAAAACTCAACTGATGACGTTTACAAAGTCTAGTTCCCAAAATGTTGGTCTGGTGCATTTCCAAAACAGGCATGCTCAGTGTGTGCTTTCGATTCTGCCCTAAAACCACAGATGCACTCTGCCTGTCACCCTCCAGCTGCTATCTGTCATTCCTGGGATGTCCATCTGTTTGCCTGTGTACGCCACTGTATATCACCACTGCCCACCTCTCTTGACCTCCTTAGTTCCTAGTCTTGGCCCCAGCTCCAAGCAGGGGAAAGGAAAGAAAAGGAAGAGAAGTTGACTGATAGATACTTGTGAAAGAAAAGGGAAGAAACCTTAGTACTTCTGATATTTCCTAACAAGATAAACAAAATTTTGCAGTTAAAATGTCTTTCCTTACTCCTATATTCTACTTCCTTGTATTTATATACATGGTAGTCTTTTTTTCTTACTGTATGTTATGGTTCTAGACTTTATTTTATTTTCTGCATTGCCTGCATGCATGTTCGTGTATCACCGCACGGATGCTCACTGCCGGGTAGGTCAGAAGAGGGCCTTGCATGTCTTGGAGCTGAAGGTGTGGATGGTTGTGAGAAGCTGGGCACTGATTCCAGGTCTTCTGTAGGAACACGGAGTGCTTTTTACTGCAGCTCCATCTCTGCAGCACCTCCTTATTGTGTTGTGTTTACACTATATCACACGTGCATGTGTGTGTATGCTTTCTCTTGCACAGATCTTATGTAAATGGTACCAGACACCATTCTAAAGGTCTCCTCAGTATTGTTTCTGAAATACATATGAAAATATAACTTCAGTGTCAATAGAGGTAGACTGTTTCTATAATTTTGACTGCTGCATGCCTTCCATGTGCTAATATGTCACTTTTTTTTCCATTTTTTATTAGGTATTTAGCTCATTTACATTTCCAATGCTATACCAAAAGTCCCCCATACCCACCCACCCCCACTCCCCTACCCACCCACTCCCCCTTTTTGGCCCTGGCATTCCCCTGTACTGGGGCATATAAAGTTTGCAAGTCCAATGGGCCTCTCTTTGCAGTGATGGCCGACTAGGCCATCTTTTGATACATATGCAGCTAGAGACAAGAGCTCCGGGGTACTGGTTAGTTCATATTGTTGTTCCACCTATAGGGTTGCAGTTCCCTTTAGTTCCTTGGGTGCTTTCTCTAGCTCCTCCATTGGGAGCCCTGTGATCCATCCAATAGCTGACTGTGAGCATCCACTTCTGTGTTTGCTAGGCGCCGGCATAGTCTCACAAGAGACAGCTATATCTGGGTCCTTTCAGCAAAATCTTGCTAGTGTATGAATATGTCACTTTCTGTTGGCATTCTATCATATGTCCCAGTTGAGTCCTTCATGAGAGGGCACATCCTCACTTAATTTTGTGTACACATGAGTGACCACTCCCTGTGAAGAGATGGATTGATGGAAACTCGGATTTTTAACTTTAGTAAGCAGTACTACATTGCATGATTCCATCAACATTTTTACCATTAGCAGCTTTGACTATATAAGAGGCTACAGACATTGTAGAATTTTAATTATATGTTATATGAGCCAGTGTTTGCCGTTTCCTGCATGGCCTTTGTTGAACTATATGAAATACAGGGGTGCAGAGAGAAAGTGGGGAGCAGAAAGATAATCATTTCAGGCTTTGTCATTTTTCTATTTTATAAGGTAAAGATGGTGAATATAATCATGTGACATGATTGCTTTAATATCGCTAGACAGATGTGTGCCTATGGGGTGCTGACCCTTACTCTGGCATACTATAAACTTTTCTTCCATCTCCTTAGCTCAGAATCCAAAATTATGTGTATTACAATCATTTAGGAATGTTGGTATAGAAGTGTGATGGCCATATATCACTTCTATAAAACATGAGTGAGTATGTGATGTCTTGAGTGTGAGCCTTCTGTTGATTTTTTTTCCCCCAG
Seq C2 exon
ATATCAGCTGAACCTCTTTGCAAGGATGTGTCTGGACCGCCAGTACCTGGCCATCAATGAAATCTCCGGGCAGCTGGATGTTGATCTCATTCTCCGCTGCATGTCTGACGAGAACCTCCCCTACGACCTCAGGGCATCCTTTTGCCGCCTCATGCTTCACATGCATGTGGACCGAGATCCCCAAGAGCAGGTGACACCTGTGAAATATGCCCGACTGTGGTCAGAAATTCCCTCTGAGATCGCCATTGATGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000030102-Itpr1:NM_010585:20
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact





	

	
ORF disruption upon sequence inclusion





No structure available

		

			
Features


			

				
Disorder rate (Iupred):
  C1=0.045 A=NA C2=0.000
 
                        

				
Domain overlap (PFAM):

					





						

							
C1:
PF0136516=RYDR_ITPR=PD(3.9=12.1)

							
A:
NA

							
C2:
NO

						

					

				








    
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)
chr3:4670927-4673135 
LOW PSI
HsaINT0083191
(ITPR1)
Human
(hg19)
chr3:4712611-4714819 
LOW PSI
HsaINT0083191
(ITPR1)
Rat
(rn6)
chr4:140417344-140419811 
LOW PSI
RnoINT0076633
(Itpr1)
Cow
(bosTau6)
chr22:21791171-21793470 
LOW PSI
BtaINT0078452
(ITPR1)
Chicken
(galGal4)
chr12:18440210-18442072 
ALTERNATIVE
GgaINT0021957
(ITPR1)
Chicken
(galGal3)
chr12:19083846-19085708 
LOW PSI
GgaINT0021957
(Q9DEX2_CHICK)
Zebrafish
(danRer10)
chr11:35675544-35676465 
LOW PSI
DreINT0083632
(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"