RnoINT0119749 @ rn6
Intron Retention
Gene
ENSRNOG00000002525 | Ptgs2
Description
prostaglandin-endoperoxide synthase 2 [Source:RGD Symbol;Acc:620349]
Coordinates
chr13:67352255-67353159:+
Coord C1 exon
chr13:67352255-67352398
Coord A exon
chr13:67352399-67353015
Coord C2 exon
chr13:67353016-67353159
Length
617 bp
Sequences
Splice sites
5' ss Seq
CGTGTGAGT
5' ss Score
7.42
3' ss Seq
TTTTTTCTTTAAAATTTCAGCCA
3' ss Score
6.48
Exon sequences
Seq C1 exon
CTGAGTTTCTGACAAGAATCAAATTACTGCTGAAGCCCACCCCAAACACAGTACACTACATCCTGACCCACTTCAAGGGAGTCTGGAACATTGTGAACAACATTCCCTTCCTTCGGAATTCAATCATGAGATACGTGTTGACGT
Seq A exon
GTGAGTACAAACCTCCCTTGTTCTCCAGCATCGAACAAAACTATGCACTAGAAGCCCGACCCAAAGAAATCTCTCCGACCTTTTCAAAACGCCTTGAAGTATACTTTCCTACCCTGCCCCCACCCCTGATATGTCTAAACCACTGTCATGTAAACCTGTAGTCTGTATCTTGGTTATGACTCCTGCCCCTCATTCCTGTGGAGGAAGTGTGGTTCACTTGTTCATTGACTATCCGTGGCTTGCAGGAATTGTTCTGAACACAAAGCACCCTTTAAACAAATGGTTCATTAGGGTTTTCTTTGGGGGTCAGAAGAGAAAATAGCTGTCTATCGTTCTGAGGGCCATGCCCAACTGTATCTGTCATCAGCTATGGAACAGGAAGTGGGTAGTACCTGAAAAGTCAAGACTACTGGAGCATAATGTCCTGTGTAAATCTTAAACTTTATTGAAGATGCATTTTCCCAGTGCCTTTTAAAGTTTAGTCATTGTAAAGCAGGGTATCTTTGTCTGAATGAAACCCAATCTCTGTACTTGATCCATTGTACAATGGATAATTGATATCCCCTTGTTGGTTTTTTTCACATGAGGTTCAATAATTTTTTTCTTTAAAATTTCAG
Seq C2 exon
CCAGATCACATTTGATTGACAGCCCACCAACTTACAATGTGCACTACGGTTACAAAAGTTGGGAAGCTTTCTCCAACCTCTCCTACTACACCAGGGCCCTTCCTCCTGTGGCTGATGACTGCCCAACTCCCATGGGTGTGAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000002525:ENSRNOT00000003567:3
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=0.143
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0309810=An_peroxidase=PU(5.9=53.1)
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:
TCTGACAAGAATCAAATTACTGCTGA
R:
TTTCACACCCATGGGAGTTGG
Band lengths:
280-897
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]