MmuINT0084487 @ mm10
Intron Retention
Gene
ENSMUSG00000030287 | Itpr2
Description
inositol 1,4,5-triphosphate receptor 2 [Source:MGI Symbol;Acc:MGI:99418]
Coordinates
chr6:146374364-146375977:-
Coord C1 exon
chr6:146375792-146375977
Coord A exon
chr6:146374616-146375791
Coord C2 exon
chr6:146374364-146374615
Length
1176 bp
Sequences
Splice sites
5' ss Seq
CAGGTATTG
5' ss Score
8.35
3' ss Seq
AACATGTCTCCTGCATTTAGGTA
3' ss Score
9.1
Exon sequences
Seq C1 exon
GCTGGTGTCCATGCAAGTGGAGAACCCCATGGAGAGCTCCATCCTTCCTGATGACATTGACGATGAGGAGGTCTGGCTTTACTGGATTGACAGCAACAAGGAGCCTCACGGCAAGGCCATCAGGCACCTTGCCCAGGAAGCCAGGGAAGGCACCAAAGCTGACCTGGAAGTTCTGACCTATTACAG
Seq A exon
GTATTGGGGACACTCATACTCCCATCGTGTAACCACAGGGAGCCGGTTCTCTCAAACCTCTGAGAACTACAGACACAGTAAGAGGGCGTCTAAAAATCACGTCAGAAGGTGGGAGCTGAAATGGTTACCACCCAGAAATTTCAAGATGAAAATTAACACCCGTGCTTTCCAGTTACATTTTCCGGCGAGCTTGGGGCTTTTGTGCAGGAAGGCTTTTCTTCCTGCTCCTGATGGGACGTAGGGGCAGACGAGAAGCAATAAGACCTTGGCTGTGGTCTAAGGCAGGAGGTGGCAGTGGGTTAAGATGGGATCTTGTGAGCCTGTGCTCTTCTGTACTCGAGAGGGGCAGGTGTCTGTAGCTCTTAAAGGTCACCTATGTTTAGTAGCAAAAGCACTGGAGGGGTTCCTCAGGGGTCAATATGTTGGGATCAGTAGCTTAACTTGGGGGGGCTGACAGGATGGTTCAGTGGGTAGGCACACTTGTCAGGCGAGCCTGACAACCTGAATTTGATCCCTGGAGCTCATCATAGAAGGAGATAACTAACTCCCAACATTGTCCTCTGACCTCCACACAAGTGGCACATGGATATTCTCCCTCCCCTTCAAAGATGACAACAACAACAACAACAACAACAACAACAACAACAACAACAACAACTGTTAATGACCTAGCTGGCTCTTTGAACTTAAGGGATAAAACCCAAGGCAGAGGTTGTTGAGAACCAGGGAAGCATGCAGAACTAGAGTCTGTCTCTCTGCTTCTGTATCTCTCTAAACCAAGCCAGCAGGGCCCCTTAGTCCTAGAGGCTGAAGAACCCATTGGTATTACCATATGGAATGATCCTGTTTTCTTTTCAAACCAAATAGGGACAAAGTTAGTGTGGATTCTGGAGACCTGTCCCTGTCCCCACAGAGGCTGGGGAAGGTGGGGAGAGGTGATTTCATGGGACTCACTCTCCATTACAGGCTTGGTGGATTAGGACAGAAAGCCTGGCCTCAAGAGGGTGTAGTGATGGGGACAGAGTAAGACCTGTATTGTCATTTATTTACAAAGAGTTTGACTCGATATTGTAAATACTTATAAACAGTTGTCATACTCAGAGGCTGGTTGTGCTTTGTCTGTTGGGGCCATAATGGTGGCGAGAGGGAATATGGTAACATGTCTCCTGCATTTAG
Seq C2 exon
GTACCAGCTAAACCTCTTTGCAAGGATGTGCTTGGACCGCCAGTATCTGGCCATCAACCAGATTTCAACACAGTTGTCCGTAGACCTGATCCTGCGGTGTGTGTCTGACGAGAGTCTGCCCTTTGACCTCAGAGCATCTTTCTGCCGACTCATGCTCCACATGCACGTTGACCGCGACCCCCAGGAGTCTGTAGTGCCTGTTCGCTATGCCCGCCTCTGGACCGAAATCCCCACAAAGATCACGATTCATGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000030287:ENSMUST00000079573:17
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.079 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0136516=RYDR_ITPR=PD(3.9=12.7)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGTGGAGAACCCCATGGAGAG
R:
GTCAACGTGCATGTGGAGCAT
Band lengths:
343-1519
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Ribosome-engaged transcriptomes of neuronal types
- Neural differentiation time course
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types