RnoINT0108732 @ rn6
Intron Retention
Gene
ENSRNOG00000019560 | Pde2a
Description
phosphodiesterase 2A [Source:RGD Symbol;Acc:620965]
Coordinates
chr1:166623406-166623879:+
Coord C1 exon
chr1:166623406-166623505
Coord A exon
chr1:166623506-166623766
Coord C2 exon
chr1:166623767-166623879
Length
261 bp
Sequences
Splice sites
5' ss Seq
AAGGTGCCA
5' ss Score
3.41
3' ss Seq
ACTCCGTTGTCCCCCAACAGTGG
3' ss Score
7.91
Exon sequences
Seq C1 exon
GACTATCAGCGAATGCTGGACCTGATGAGGGACATCATCTTGGCCACGGACCTGGCACACCACCTCCGCATCTTCAAGGACCTGCAGAAGATGGCTGAAG
Seq A exon
GTGCCACAGCTCACTGCTGGGGAGGGATGGGTGGTTTAGCATGGAGATCTGAACATCTGGACATCTGGAGTGCTTCTGTCCTGTCCTTAGCCCCTTCCTGGCTATGGTGTCCCTCCAGGCAGACCTAGTACTGGCCATCTTCCATTGCATGGTTCCCCATGGGATGCTGTAGACCTACTTCAGGACGGGCTGCGGGGCCCTTGTTCTCAGAAGGGACAAGGAACCTGGGTCCTCCTGCTTGACTCCGTTGTCCCCCAACAG
Seq C2 exon
TGGGTTATGACCGAAACAACAAGCAACACCACAGGCTTCTTCTATGCCTCCTTATGACCTCCTGTGACCTCTCTGACCAGACAAAGGGCTGGAAGACCACCAGAAAGATTGCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000019560:ENSRNOT00000026586:27
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=FE(13.9=100)
A:
NA
C2:
PF0023314=PDEase_I=FE(15.5=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:
CGAATGCTGGACCTGATGAGG
R:
CGCAATCTTTCTGGTGGTCTT
Band lengths:
204-465
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]