MmuINT0128553 @ mm10
Intron Retention
Gene
ENSMUSG00000047250 | Ptgs1
Description
prostaglandin-endoperoxide synthase 1 [Source:MGI Symbol;Acc:MGI:97797]
Coordinates
chr2:36240871-36243009:+
Coord C1 exon
chr2:36240871-36240954
Coord A exon
chr2:36240955-36242762
Coord C2 exon
chr2:36242763-36243009
Length
1808 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGTG
5' ss Score
6.13
3' ss Seq
CAGGCGGCCTCATCCCACAGGTG
3' ss Score
9.04
Exon sequences
Seq C1 exon
GTAGACCTTGGCCACATTTATGGAGATAATCTGGAACGACAGTATCACCTGCGGCTCTTCAAGGATGGGAAACTTAAGTACCAG
Seq A exon
GTAGTGCTGGCATGGGGAGGGGACAGTGTGAAGGGTCTCCCTTGTTCTCTCTTATAAAGATGGCTGGGTAGGCAAATTGAAGAACTACCAGAGTGAAGGAAACCAGGAGGACAGAGAGTAAAGGCTGGGAGGAGTTAACAGGGCAAAAGCAAATAAAGAACGGGGTAGATTTCTGTGGCCTCCTGGGGATATTTTCATTTCCTTAGCTGTTTCACTCCCTGGAATGGGCACCATGATGGAACTTGTACACATGACTGAGTCAGTATCCATCTTAGCCATGGGCCCAACCATCAAGAAACCATAATCTATCAGGGGTCAAATACAGGATTACCAGGGTACAGGCAAACCACAGTCCAACAAATCATGAACCTGACTGTCTGGATATGGGTGAACCACAGTTTATACATACATGACTGTCAGGGTACAGGCTGTAGCAAGATTTCTTGTGTAAACCAGAGCTGTCCAACAGTAGTGTGAGCCTCATATGTAATTCAAATTTCCTAGTGGCTTCAGTAACAAAAGTAAAAAACAGATGAGATGGATTTTAATAGCATACTCTACTTGGGCTGGTAAGATGGCTCAGCTGGTAAAGGCACTTGCCACCAAGCCTGACAGCCAGTGTTTGATCCCTGGGAGAGATCTGATTCCTGCAAGTTATCCTCTGACCTCCACAGCTTTGCTTTGATACCAGGATGCTCTTGCCTCTGCACACAGACATAAATAAATGTAATACAAATTAAAAAGGTTCTCATTGGAGATGGCTCTCTCTAGATTTCATAAACTTTGTAATTGAATAAGTAGATTCACAAACCCAGTAGCTGAAACATCAGCTTTAAAAATGTAAAACTATAGGGCTGGAGAATTGAGTCAGCGGTTGAGAGCACCTGCTGATCTCGCAGAGAACCTGGCCTTGGTTCCCGGCATCCACATAGAGGCTCTCAACCTCTGGAACTCCAGCTCTAAATGATCTGATGCCCTCTTCTGGCCTCTGTGGCCATACTCACACTGGAGGCATACATACATACATACATACATACATACATACATACATACATACACACACATACATACATACATACATACATAGTATACATACAAAAAAATCTAAAAAAGGAGAATCTAAAACAAAATCAAGTAAAATCTAAACTAAATGAAATGAAGTTCTACAGTCTAGTCATATTTGGAGATTTGGAGCCACAGGTGGCTAGTGGCTTTCACACTGTATTCTGGAAACCTGAAAGATCTTAAGGAAAATTCATTGGGGCATCTTCAGAACGGAGAACGGCACTTGCATATGGCTTGGCAGTGTGTGTATTTGTGATACTCTTGTGATAACTGCCACCAACCAGTCGGTACCATTAGAGAGTCTGGAGGCTGAGACTGCTCCCCTATGAAGTTAAGGTTGCAAGGGAATTGAGGAAGCCAAGAACGGGCCATGGTCATCTTCTTGCTCCCTAGGGCATTTAGCTGTGAGAAGATTTGGAGGCAAGAAGATCCAGGGATTCCTAAGAGACGTCTGAGTGAGAGGAAGGGAGCTACTGTGGGTGATTCCAGACACCTCTTTAGGGGCATGTTGTATGGAGGTCTCCCTCTCCTCCTCCCCACTCCGTCTCTCAGGGGTATACTGATTGCTGTGTACCCAAGTGGTAAGGGCAAGAGTTGGCTTAGGGCAGGCACTTAGGGAGCAGCAGGCAGATGGGCCAGGGCTGAGGTAGTAAAGTCGGAACACAGGAGCCGGCTGTGGAGAGCTCCAAGACGGATCTTGGAGGAGGGCCAGAGTCAGGTTGCCAGGCGGCCTCATCCCACAG
Seq C2 exon
GTGCTGGACGGAGAGGTGTACCCACCTTCCGTGGAACAGGCGTCCGTGTTGATGCGCTACCCACCAGGTGTCCCGCCTGAAAGGCAGATGGCTGTGGGCCAGGAGGTGTTTGGGTTGCTTCCGGGGCTGATGCTCTTCTCCACGATCTGGCTTCGTGAACATAACCGCGTGTGCGACCTGCTGAAGGAGGAGCATCCCACGTGGGATGATGAGCAGCTCTTCCAGACCACTCGCCTCATCCTTATAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000047250:ENSMUST00000062069:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0309810=An_peroxidase=FE(7.3=100)
A:
NA
C2:
PF0309810=An_peroxidase=FE(22.3=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:
AGACCTTGGCCACATTTATGGA
R:
TAAGGATGAGGCGAGTGGTCT
Band lengths:
326-2134
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