MmuINT0128558 @ mm9
Intron Retention
Gene
ENSMUSG00000032487 | Ptgs2
Description
prostaglandin-endoperoxide synthase 2 [Source:MGI Symbol;Acc:MGI:97798]
Coordinates
chr1:151948343-151949264:+
Coord C1 exon
chr1:151948343-151948486
Coord A exon
chr1:151948487-151949120
Coord C2 exon
chr1:151949121-151949264
Length
634 bp
Sequences
Splice sites
5' ss Seq
CATGTAAGT
5' ss Score
8.31
3' ss Seq
TTTTTTCTTTAAAATTTCAGCCA
3' ss Score
6.48
Exon sequences
Seq C1 exon
CTGAATTTCTGACAAGAATCAAATTACTGCTGAAGCCCACCCCAAACACAGTGCACTACATCCTGACCCACTTCAAGGGAGTCTGGAACATTGTGAACAACATCCCCTTCCTGCGAAGTTTAATCATGAAATATGTGCTGACAT
Seq A exon
GTAAGTACAACCCTCCCTTGTTTTCCAGCATCCTCCAACACAACTAGGCACTAGAAACCCAACCCCAAGAACTATCCTGACCTTTTCAAAGGGCTTGAAGTATACCTTTTCTAATCTGTTTTTCCCCTGAAATGTCTAAAATACAGTCATGAAAACCTGTAGTCTCTATTCTAGTTTTGACCCCTGTCCTTCATTCGTGTGGAGGAAGTGTGGTTCACTTGTTCATTGAATAAATACCCATGGCTCACAGAATTGTTCGGAACACATAGAATTGTTCTGAACCTTTGAAACAAATGGTTGACTAGGGTTTGGGTCAGAAGAGAAAAATAGCTGTCTGTAGTTATTGGTGAGGGCCATGCCCAAATGTCTCTGTCATCAGCTATGGAACAGGGAGTGGGTAGAAACTGAAAAGTCAAGACTACTGGAGCAGAATGTCCTGTGTAAAATTTAAGCTTTATTGAAGATGCATTTTCAGTGCTCTTTAAAGTTCAGCCATTGTACAGCAGGGTATCTTTGTCTGAAGGAAATCTAGTCTCTGTACTTGCTACATTGTACAATGATAATTGATATGCCCTTGTTGTTGTTGTTGTTTTTCATATGAGGACCAATGATTTTTTTTTCTTTAAAATTTCAG
Seq C2 exon
CCAGATCATATTTGATTGACAGTCCACCTACTTACAATGTGCACTATGGTTACAAAAGCTGGGAAGCCTTCTCCAACCTCTCCTACTACACCAGGGCCCTTCCTCCCGTAGCAGATGACTGCCCAACTCCCATGGGTGTGAAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000032487-Ptgs2:NM_011198:3
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.122
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0309810=An_peroxidase=PU(33.3=57.1)
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:
GACAAGAATCAAATTACTGCTGAAGC
R:
CCTTCACACCCATGGGAGTTG
Band lengths:
278-912
Functional annotations
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
Other AS DBs: