MmuINT0084536 @ mm10
Intron Retention
Gene
ENSMUSG00000042644 | Itpr3
Description
inositol 1,4,5-triphosphate receptor 3 [Source:MGI Symbol;Acc:MGI:96624]
Coordinates
chr17:27089830-27091410:+
Coord C1 exon
chr17:27089830-27089972
Coord A exon
chr17:27089973-27091310
Coord C2 exon
chr17:27091311-27091410
Length
1338 bp
Sequences
Splice sites
5' ss Seq
CCGGTGGGT
5' ss Score
7.85
3' ss Seq
GGCTGTGTCCTCTCACCTAGGAA
3' ss Score
8.89
Exon sequences
Seq C1 exon
GGGGCCCAGGGCCGCACTGGCCGCAGGAACGCAGGCGAGAAGATCAAGTACCGTCTGGTGGCTGTGCCACATGGGAATGACATCGCGTCTCTCTTCGAGCTGGACCCCACCACGCTGCAGAAAACCGACTCCTTCGTGCCCCG
Seq A exon
GTGGGTGTGTGCCGCCTGCCTGAGGCCATTTGTCTCTGGGGCCCCTGGGAGCCTCAGTTTTGAGATCCATTCCCAGCTGGCCTGTGTGCAGGACCAGCTCCGTGGGCTGCCCCCAGGTCTGCCCTGTGCTTATTATACAGATGTTTCTCAGCCTCTTGGCCCGGCCCAGCTAGGTGCTCAGGCACAAGGCGTGAACGTTTGTTCTCAGCCAGGCGGCCTGGAGAACCCAGACACTGGCTGGGGAGGTCAGAGTCCTATGCCTGTAAGGTCCCGCCAACCCAAGAATGTAGGATATCACACCTAGAGCTGCAGCTTGCTTGGTAGAGTGCTTGGGCTTCAGGCACAAAGGTCTGGGTTCCATATCTATCAGTATGTAAGCCAGGGAGGTGGCTCATGCCTGCAATTCCAGCACGCAGGAGGTGGAGGTTATCCTCCACTGCGTAGTGAATGTGAAGCCAGCCAGGCCTTCAGGAGACTTTGTCTTTACGTAGAAAGAAATAAAGGAAAGGAAATATAACAGGGTTGCGAAGATGATTCTGCAAATGAACCATTTTCTGTCCAAGGATGAACATCTGTCTGGATGTTTCAGAACGCACTCGAAAGCCAGGTGGGAGGGGGGGGCCTGCCGCCCAGCATGGGGCAGAGACTGGGAACTTTTGTGGCCAGCATGGCTAACTAGACGCTGCAGTGTGTTAAGTTCCTAGTTCAACAGAGACCCTGCCTCTCTATACAAGGTGGAGGGCAATGGAGGAAGTGACCCAATGCCAGCCCCCAGCCATGAGCACATACATGCACTCAAATCTCTGTATACCTGTGAACACGTGGGAACATGCAGGTACACACACATGCACGCGCATGCTCTCTCTCTCTCTCTCTCTCCCTCTCTCTCTCTCTCTCTCTCACACACACACACACACACACACACACACACACACACACACACGTGCATAACTCAAAACAGAATTTTGTGTCATCCTAGCCTTAGTGTCTTCTAGCCATAAGACCTCACTGCCTTGGTCTGTCATCTGTAAATCAAGTGTCTGTCACTAGGATTCCTGGGAATTCATGAACTCTTAGCCCCTGGTCTCTTACCTGACACTCTTGGGGCTTGCTTTGTCCGGGTGCATTCTCGCCCCATGTACACCAGCGAGCATTAGTTTAAGGGTGCACCAAGGTCTGTGTGCCTCAGAGCATAGCAGTAGAGGCGGGGCCCCCATTCTTGGTACCCATACTGTGGAGGTGTGGGGTGCAGAGGAAGAGGATGCTATGGGGAGTGGTGAGCAGAAAGCAGCCGCGGTGTGTGGCACCGTCGCTCACCGGCTGTGTCCTCTCACCTAG
Seq C2 exon
GAACTCCTACGTGCGGCTGCGGCACCTCTGCACCAACACCTGGATCCAGAGTACCAACGCGCCCATCGACGTGGAGGAGGAACGGCCTATCCGGCTCATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000042644:ENSMUST00000049308:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.146 A=NA C2=0.059
Domain overlap (PFAM):
C1:
PF0281514=MIR=FE(23.5=100)
A:
NA
C2:
PF0281514=MIR=FE(16.5=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAACGCAGGCGAGAAGATCAA
R:
GATAGGCCGTTCCTCCTCCAC
Band lengths:
208-1546
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