RnoINT0119679 @ rn6
Intron Retention
Gene
ENSRNOG00000015550 | Ptgds
Description
prostaglandin D2 synthase [Source:RGD Symbol;Acc:3433]
Coordinates
chr3:2687164-2687533:-
Coord C1 exon
chr3:2687417-2687533
Coord A exon
chr3:2687266-2687416
Coord C2 exon
chr3:2687164-2687265
Length
151 bp
Sequences
Splice sites
5' ss Seq
ACAGTAGGT
5' ss Score
5.67
3' ss Seq
GCCCCTTCTTTATCTACCAGGCA
3' ss Score
9.32
Exon sequences
Seq C1 exon
ACTGGGGCAGCTTCCACTCCCTCTCAGTGGTAGAAACCGACTACGATGAGTACGCGTTCCTGTTCAGCAAGGGCACCAAGGGCCCAGGCCAGGACTTCCGCATGGCCACCCTCTACA
Seq A exon
GTAGGTATCCCAGCCCACAGGCCCACGCACAGGGCAGATGCCTGAGGTTGGAAACAGACCAAGGCCTAACCCAGAGGACAGTAACGAAGGTGTGTGGGGGCAGGGCGAGGGCTTTTCACCTCCTGACACCGGCCCCTTCTTTATCTACCAG
Seq C2 exon
GCAGAGCCCAGCTTCTGAAGGAGGAACTGAAGGAGAAATTCATCACCTTTAGCAAGGACCAGGGCCTCACAGAGGAGGACATTGTTTTCCTGCCCCAACCGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000015550:ENSRNOT00000020926:4
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=FE(26.9=100)
A:
NA
C2:
PF0006118=Lipocalin=FE(23.4=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:
ACTGGGGCAGCTTCCACTC
R:
CGGTTGGGGCAGGAAAACAAT
Band lengths:
218-369
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]