RnoINT0108727 @ rn6
Intron Retention
Gene
ENSRNOG00000019560 | Pde2a
Description
phosphodiesterase 2A [Source:RGD Symbol;Acc:620965]
Coordinates
chr1:166621166-166621619:+
Coord C1 exon
chr1:166621166-166621236
Coord A exon
chr1:166621237-166621496
Coord C2 exon
chr1:166621497-166621619
Length
260 bp
Sequences
Splice sites
5' ss Seq
CCGGTAAGT
5' ss Score
10.91
3' ss Seq
TGTCCTGGCTCTGCCCACAGGTT
3' ss Score
12.12
Exon sequences
Seq C1 exon
GCCATCCTGAGCATGCTGCAAGACATGAACTTCATCAATAACTACAAAATTGACTGCCCAACTCTGGCCCG
Seq A exon
GTAAGTGCTCCAGCGCTGCCCTTGGAGCAGAGCCCCAGTTCACCTTCCTGTTGCCCTCCAGCCTCAAGTCCTTTGCCCCAAGCATTCTTAGGAGGGGGAGGACTGGATTCGTAGGGATGGGGAGGGCTCTGGGAGTAAGGATCCATTCTCAGACACTGGATGGTGAGTAAAGAGAGGCGAGAGAATGTGATAGGCAGTCCAGAGGGGTTCCCGAAGGAGGAGAGGCTGAGGCCCCTCTGCTGTCCTGGCTCTGCCCACAG
Seq C2 exon
GTTCTGCCTGATGGTGAAGAAAGGCTACCGGGATCCGCCCTACCACAACTGGATGCACGCCTTCTCTGTCTCTCACTTTTGCTACTTGCTCTACAAGAATCTGGAGCTCTCCAACTACCTCGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000019560:ENSRNOT00000026586:22
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:
NO
A:
NA
C2:
PF0023314=PDEase_I=PU(11.3=64.3)
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:
GCCATCCTGAGCATGCTGC
R:
TCGAGGTAGTTGGAGAGCTC
Band lengths:
194-454
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]