MmuINT0128557 @ mm10
Intron Retention
Gene
ENSMUSG00000032487 | Ptgs2
Description
prostaglandin-endoperoxide synthase 2 [Source:MGI Symbol;Acc:MGI:97798]
Coordinates
chr1:150100974-150101356:+
Coord C1 exon
chr1:150100974-150101090
Coord A exon
chr1:150101091-150101212
Coord C2 exon
chr1:150101213-150101356
Length
122 bp
Sequences
Splice sites
5' ss Seq
CACGTAAGT
5' ss Score
10.16
3' ss Seq
CCTGCTTTGTCTCTCTCCAGCTG
3' ss Score
11.67
Exon sequences
Seq C1 exon
CAAATCCTTGCTGTTCCAATCCATGTCAAAACCGTGGGGAATGTATGAGCACAGGATTTGACCAGTATAAGTGTGACTGTACCCGGACTGGATTCTATGGTGAAAACTGTACTACAC
Seq A exon
GTAAGTTTTTCCTGGGGTATCTTCCTTTGGAATGTGGCCACATGTGTAACCATCATTCTGTAGATTTGTGTCCTATGGGGGAGGGGCCTGCTCATTCTTCCTCCTGCTTTGTCTCTCTCCAG
Seq C2 exon
CTGAATTTCTGACAAGAATCAAATTACTGCTGAAGCCCACCCCAAACACAGTGCACTACATCCTGACCCACTTCAAGGGAGTCTGGAACATTGTGAACAACATCCCCTTCCTGCGAAGTTTAATCATGAAATATGTGCTGACAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000032487:ENSMUST00000035065:2
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:
PF0000822=EGF=WD(100=82.5)
A:
NA
C2:
NO
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:
TCCTTGCTGTTCCAATCCATGT
R:
TTTCATGATTAAACTTCGCAGGAA
Band lengths:
244-366
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