RnoINT0119752 @ rn6
Intron Retention
Gene
ENSRNOG00000002525 | Ptgs2
Description
prostaglandin-endoperoxide synthase 2 [Source:RGD Symbol;Acc:620349]
Coordinates
chr13:67354807-67355262:+
Coord C1 exon
chr13:67354807-67354890
Coord A exon
chr13:67354891-67355015
Coord C2 exon
chr13:67355016-67355262
Length
125 bp
Sequences
Splice sites
5' ss Seq
CAGGTATTT
5' ss Score
7.51
3' ss Seq
TTACTATTCTTGTGATTTAGGTC
3' ss Score
10.41
Exon sequences
Seq C1 exon
GTGGACTTAAATCATGTTTACGGTGAAACTCTAGACAGACAACATAAACTTCGACTTTTCCAGGATGGAAAATTGAAATATCAG
Seq A exon
GTATTTTCCTTACAGTTTAAAAATTATCACCTGCTGTTTAGACTTACATTTTAAAACTATTGTGGCTTTTTTCTTCTTCTACTTCTTCTTTTTTAAACTCTGCTATTACTATTCTTGTGATTTAG
Seq C2 exon
GTCATCGGTGGAGAGGTGTATCCTCCCACAGTCAAAGACACTCAGGTAGACATGATCTACCCTCCCCACGTCCCTGAGCACCTGCGGTTCGCTGTGGGGCAGGAAGTCTTTGGTCTGGTGCCGGGTCTGATGATGTATGCTACCATCTGGCTTCGGGAGCACAACAGAGTGTGTGATATACTCAAACAGGAGCATCCTGAGTGGGATGACGAGCGACTGTTCCAAACCAGCAGGCTCATACTGATAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000002525:ENSRNOT00000003567:6
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(6.1=100)
A:
NA
C2:
PF0309810=An_peroxidase=FE(18.6=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:
ACTTCGACTTTTCCAGGATGGA
R:
GCTCGTCATCCCACTCAGGA
Band lengths:
251-376
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]