MmuINT0128556 @ mm10
Intron Retention
Gene
ENSMUSG00000032487 | Ptgs2
Description
prostaglandin-endoperoxide synthase 2 [Source:MGI Symbol;Acc:MGI:97798]
Coordinates
chr1:150100031-150101090:+
Coord C1 exon
chr1:150100031-150100275
Coord A exon
chr1:150100276-150100973
Coord C2 exon
chr1:150100974-150101090
Length
698 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGT
5' ss Score
10.67
3' ss Seq
ATCTTATTTTTTTAATGTAGCAA
3' ss Score
6.38
Exon sequences
Seq C1 exon
AGAGTCACCACTACGTCACGTGGAGTCCGCTTTACAGACTTAAAAGCAAGGTTCTCCCCATTAGCAGCCAGTTGTCAAACTGCGAGCTAAGAGCTTCAGGAGTCAGTCAGGACTCTGCTCACGAAGGAACTCAGCACTGCATCCTGCCAGCTCCACCGCCACCACTACTGCCACCTCCGCTGCCACCTCTGCGATGCTCTTCCGAGCTGTGCTGCTCTGCGCTGCCCTGGGGCTCAGCCAGGCAG
Seq A exon
GTGAGTTGCGCCCCGAGGCGCCCTGGGACTCCTCAGGCTCAGACCCCCTTTCTAGCAGTGTGGGCCTGGCTGTGTATTGGCAAAGAGCCTGGACTGCTTAAGTCCTGAGGAACTGCAACCCACTTTCAGGTTTCTTATTTGCTAAAAACCAATAGTCTTAATGGCTTACAGGTTGTCATTATGGTAAGACAATCTGATCAATACTTGTGAAAAGCATAGATGTGGGCAACTGAACAAGAGTGGCTGCTTTGAATACCTGTTAGAGTTTTTCTATCCACAGAAAAATCCAGAATACATTTTTAAAAATATATTTAAAATGCTAAAACTTGACTGTTTTAATTTTATTTTCTTTACACTAAATTTTGACTATTGCACTAGGTCGATCCATTTTAATATTTAAAGGGATGCTTAATAATTCTAGTCTGTGTGTCCGAGTTATTTTAAAAATGTTGGTAATGTGAACTATGAAGTTAGGTCCTCTGTGTTTCTTGCTTAAGAATACAAAGTTGCTTGCTATTTCCATAAACAGTTGATAAGACAGACTTAATTAAAATAATGACCTTTTTAAATCTGGGTCTACCTATGTATTTGTCAAACTTATCATTGTAAAGTTGACCCATAGTGACAGAATTAAATCCTTAAGTTAAGATGAGAACAACCAAGAGTAACTGACAGGATATCTTATTTTTTTAATGTAG
Seq C2 exon
CAAATCCTTGCTGTTCCAATCCATGTCAAAACCGTGGGGAATGTATGAGCACAGGATTTGACCAGTATAAGTGTGACTGTACCCGGACTGGATTCTATGGTGAAAACTGTACTACAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000032487:ENSMUST00000035065:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0000822=EGF=WD(100=82.5)
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:
AGAGTCACCACTACGTCACGT
R:
ACCATAGAATCCAGTCCGGGT
Band lengths:
346-1044
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