MmuINT0128560 @ mm9
Intron Retention
Gene
ENSMUSG00000032487 | Ptgs2
Description
prostaglandin-endoperoxide synthase 2 [Source:MGI Symbol;Acc:MGI:97798]
Coordinates
chr1:151949726-151950888:+
Coord C1 exon
chr1:151949726-151949907
Coord A exon
chr1:151949908-151950804
Coord C2 exon
chr1:151950805-151950888
Length
897 bp
Sequences
Splice sites
5' ss Seq
GGAGTAAGT
5' ss Score
8.57
3' ss Seq
CTCCATACTTAATTTTCTAGGTG
3' ss Score
8.76
Exon sequences
Seq C1 exon
GAAATAAGGAGCTTCCTGATTCAAAAGAAGTGCTGGAAAAGGTTCTTCTACGGAGAGAGTTCATCCCTGACCCCCAAGGCTCAAATATGATGTTTGCATTCTTTGCCCAGCACTTCACCCATCAGTTTTTCAAGACAGATCATAAGCGAGGACCTGGGTTCACCCGAGGACTGGGCCATGGA
Seq A exon
GTAAGTGGGCTTAACTCAGATTTATAGCAAATCCTTAGGGAATGCTGACATCTTACCATGCCAAACAAATCACACCCATTTTTTTTTAATCCAAATGTCATGACTACTAAAACCATAATAGGTGTTCCATTTTCATTTTCTGATTTAGTAAAAATGAACTGACACACAGAGACATATTTTAATGTAATTTTCCTTACATTTTTAGTTTAAAAGTTTGGTCCATGAAAAGGGTCTATCTTCTGTAAATAAATAAATAAATTATTAGTCATCGGTGGCATTGGGAAGTGAACCTTAGAAGTTTGTGCTTGCCAGGCACTGGTCTCTGCTATTGAGGCAGAAGAGGTCCAGCCTTTACACACACACACACACACACACACACACACACACACACACACACACACACATACAAAATCCCCTTCTATGCTTCTTTAAACAATGTAAAATTACTATTATGGTTATAATGAAGCAAGTGGCATATTTAATATAGGATACTAATACTATTCAACATAAAGAAATATACAGACTTGTAGCTCTGGTAGACAAATTATTTTAGAATTTTGTGGCTATGAAAAAGTCACTTATTGAGCTAGATTGGTGATTAAGAACAGTTGTTGCTTTTGCTTAAGTTCTTAACACCTACATGACAGTTCACAACCACCTATAACTCCAGTCAGTTCTAGGAGATTCCATGTTTTGTAACATTTTAGGGCACCAGACAAGCACATGACATACATACATACATACATACATAGAGGCAAATTCTCATACATATAAAAATAAAATAAATCTTAAGAAAATCACGTGGTGAATTTTAAAGACAACTAAATCATCAATATTGAATAAGAAATTATAGTAAAAAATCAGTAAATTGAACTTTCTCCATACTTAATTTTCTAG
Seq C2 exon
GTGGACTTAAATCACATTTATGGTGAAACTCTGGACAGACAACATAAACTGCGCCTTTTCAAGGATGGAAAATTGAAATATCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000032487-Ptgs2:NM_011198:5
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.066 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0309810=An_peroxidase=PD(65.5=90.2),PF0309810=An_peroxidase=PU(2.5=14.8)
A:
NA
C2:
PF0309810=An_peroxidase=FE(7.4=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:
GAGCTTCCTGATTCAAAAGAAGTGC
R:
CCTTGAAAAGGCGCAGTTTATGT
Band lengths:
238-1135
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: