RnoINT0119677 @ rn6
Intron Retention
Gene
ENSRNOG00000015550 | Ptgds
Description
prostaglandin D2 synthase [Source:RGD Symbol;Acc:3433]
Coordinates
chr3:2688186-2688507:-
Coord C1 exon
chr3:2688368-2688507
Coord A exon
chr3:2688263-2688367
Coord C2 exon
chr3:2688186-2688262
Length
105 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGA
5' ss Score
8.68
3' ss Seq
CAGGGGTAATCTACCCACAGGAA
3' ss Score
5.6
Exon sequences
Seq C1 exon
TTCCTGGGGCGCTGGTACAGCGCGGGCCTCGCCTCCAATTCAAGCTGGTTCCGGGAGAAGAAAGAGCTACTGTTTATGTGCCAGACAGTGGTAGCTCCCTCCACAGAAGGCGGCCTCAACCTCACCTCTACCTTCCTAAG
Seq A exon
GTGAGACAAGGGGGTGTGGCAAGTTTCGGGACAGAAGGCCCCACAACCCTGTCTGGGGGACATCCTGGGGCTTGTTCCCTTACATCAGGGGTAATCTACCCACAG
Seq C2 exon
GAAAAACCAGTGTGAGACCAAGGTGATGGTACTGCAGCCGGCAGGGGTTCCCGGACAGTACACCTACAACAGCCCCC
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000015550:ENSRNOT00000020926:2
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:
PF0006118=Lipocalin=PU(31.0=95.7)
A:
NA
C2:
PF0006118=Lipocalin=FE(17.9=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTCCTGGGGCGCTGGTAC
R:
GGGGGCTGTTGTAGGTGTACT
Band lengths:
217-322
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]