RnoINT0108728 @ rn6
Intron Retention
Gene
ENSRNOG00000019560 | Pde2a
Description
phosphodiesterase 2A [Source:RGD Symbol;Acc:620965]
Coordinates
chr1:166621497-166622015:+
Coord C1 exon
chr1:166621497-166621619
Coord A exon
chr1:166621620-166621927
Coord C2 exon
chr1:166621928-166622015
Length
308 bp
Sequences
Splice sites
5' ss Seq
CGAGTACGT
5' ss Score
7.42
3' ss Seq
CTTTTCTGCTCCCCTCCTAGGGA
3' ss Score
10.97
Exon sequences
Seq C1 exon
GTTCTGCCTGATGGTGAAGAAAGGCTACCGGGATCCGCCCTACCACAACTGGATGCACGCCTTCTCTGTCTCTCACTTTTGCTACTTGCTCTACAAGAATCTGGAGCTCTCCAACTACCTCGA
Seq A exon
GTACGTGGCTGCTTCTCCCACATCTCCAGTAATGAGGCCCTGCTTGTGTGGCCGGTCCTTTACCTGGCTTCCCATTCTGTCCTTTTTACTGTGTGTGTGGGGGGGGGCCCCACCTTCCACAAGTCATCTGCTCAGTCACAGAGAATGATGACCTGATTCTCCCAGGGCTGCCGCATGCCAAAGAAGAAGCTGCTTTCCGGAACCTTCTGACTGGGTGGCCCCTGGGCATCTCATCCAGCTGTCTGTCCTCTGACGGCACCCAGGGAGGAGGCCCTGGATGACATTTCTCTTTTCTGCTCCCCTCCTAG
Seq C2 exon
GGACATCGAGATCTTTGCGTTGTTTATTTCCTGCATGTGTCACGACCTGGACCACAGAGGCACAAACAACTCCTTCCAGGTGGCCTCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000019560:ENSRNOT00000026586:23
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:
PF0023314=PDEase_I=PU(11.3=64.3)
A:
NA
C2:
PF0023314=PDEase_I=FE(12.2=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGCCTGATGGTGAAGAAAGGC
R:
GAGGCCACCTGGAAGGAGTT
Band lengths:
206-514
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]