RnoINT0119754 @ rn6
Intron Retention
Gene
ENSRNOG00000002525 | Ptgs2
Description
prostaglandin-endoperoxide synthase 2 [Source:RGD Symbol;Acc:620349]
Coordinates
chr13:67355432-67356254:+
Coord C1 exon
chr13:67355432-67355718
Coord A exon
chr13:67355719-67356106
Coord C2 exon
chr13:67356107-67356254
Length
388 bp
Sequences
Splice sites
5' ss Seq
CGGGTAAGC
5' ss Score
9.14
3' ss Seq
TTATTATTCACCTTTCTCAGGTT
3' ss Score
8.7
Exon sequences
Seq C1 exon
GAGAGACGATCAAGATAGTGATCGAAGACTACGTGCAACACCTGAGCGGTTACCACTTCAAACTCAAGTTCGACCCAGAGCTGCTTTTCAACCAGCAGTTCCAGTATCAGAACCGCATTGCCTCTGAATTCAACACACTCTATCACTGGCATCCGCTGCTGCCGGACACCTTCAACATTGAAGACCAGGAGTACACTTTCAAACAGTTTCTCTACAACAACTCCATCCTCCTTGAACACGGACTTGCTCACTTTGTTGAGTCATTCACCAGACAGATTGCTGGCCGG
Seq A exon
GTAAGCATTGTTCCTGAAAAGCAAGAACCGGCTGGTCAGTAGCTTTAGGACTTTTGTCATAGAGACAATTTTTTTTTCCTTTACTAAAAGAATAGTCAGGTGTTCTACTGGTTCTTGAAACATGATGCATGGAAGGTTTTGAAAGGTTATAGAGTTCAACTAAAATTATCCAGCAAATAGCGACACCTGTCTATCTTAAAACTAATATTTTTTAAAGCTTTCAGTCACCTTATAGATTACAGAAGTAAATATTCAGACTTGTCTATTAGCTTATTTTTTTTTAATAATCGTAAAAGGCCCATTCATTACAGATTAGAAGTGATGACGTCAAGTTGTAGGATCACAAGAATATGCATAAGAATCTCATTTTATTATTCACCTTTCTCAG
Seq C2 exon
GTTGCTGGGGGAAGGAATGTTCCAATCGCTGTACAAGCAGTGGCAAAGGCCTCCATTGACCAGAGCAGAGAGATGAAATACCAGTCTCTCAATGAGTACCGCAAACGCTTCTCCCTGAAACCTTACACATCGTTTGAAGAACTTACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000002525:ENSRNOT00000003567:8
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(21.5=100)
A:
NA
C2:
PF0309810=An_peroxidase=FE(11.1=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACTCAAGTTCGACCCAGAGCT
R:
GTTTCAGGGAGAAGCGTTTGC
Band lengths:
347-735
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]