MmuINT0128556 @ mm9
Intron Retention
Gene
ENSMUSG00000032487 | Ptgs2
Description
prostaglandin-endoperoxide synthase 2 [Source:MGI Symbol;Acc:MGI:97798]
Coordinates
chr1:151947254-151948220:+
Coord C1 exon
chr1:151947254-151947405
Coord A exon
chr1:151947406-151948103
Coord C2 exon
chr1:151948104-151948220
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
CTTCAGGAGTCAGTCAGGACTCTGCTCACGAAGGAACTCAGCACTGCATCCTGCCAGCTCCACCGCCACCACTACTGCCACCTCCGCTGCCACCTCTGCGATGCTCTTCCGAGCTGTGCTGCTCTGCGCTGCCCTGGGGCTCAGCCAGGCAG
Seq A exon
GTGAGTTGCGCCCCGAGGCGCCCTGGGACTCCTCAGGCTCAGACCCCCTTTCTAGCAGTGTGGGCCTGGCTGTGTATTGGCAAAGAGCCTGGACTGCTTAAGTCCTGAGGAACTGCAACCCACTTTCAGGTTTCTTATTTGCTAAAAACCAATAGTCTTAATGGCTTACAGGTTGTCATTATGGTAAGACAATCTGATCAATACTTGTGAAAAGCATAGATGTGGGCAACTGAACAAGAGTGGCTGCTTTGAATACCTGTTAGAGTTTTTCTATCCACAGAAAAATCCAGAATACATTTTTAAAAATATATTTAAAATGCTAAAACTTGACTGTTTTAATTTTATTTTCTTTACACTAAATTTTGACTATTGCACTAGGTCGATCCATTTTAATATTTAAAGGGATGCTTAATAATTCTAGTCTGTGTGTCCGAGTTATTTTAAAAATGTTGGTAATGTGAACTATGAAGTTAGGTCCTCTGTGTTTCTTGCTTAAGAATACAAAGTTGCTTGCTATTTCCATAAACAGTTGATAAGACAGACTTAATTAAAATAATGACCTTTTTAAATCTGGGTCTACCTATGTATTTGTCAAACTTATCATTGTAAAGTTGACCCATAGTGACAGAATTAAATCCTTAAGTTAAGATGAGAACAACCAAGAGTAACTGACAGGATATCTTATTTTTTTAATGTAG
Seq C2 exon
CAAATCCTTGCTGTTCCAATCCATGTCAAAACCGTGGGGAATGTATGAGCACAGGATTTGACCAGTATAAGTGTGACTGTACCCGGACTGGATTCTATGGTGAAAACTGTACTACAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000032487-Ptgs2:NM_011198:1
Average complexity
IR-S
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
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGTCAGTCAGGACTCTGCTCA
R:
GTGTAGTACAGTTTTCACCATAGAAT
Band lengths:
262-960
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: