RnoINT0108731 @ rn6
Intron Retention
Gene
ENSRNOG00000019560 | Pde2a
Description
phosphodiesterase 2A [Source:RGD Symbol;Acc:620965]
Coordinates
chr1:166623198-166623505:+
Coord C1 exon
chr1:166623198-166623272
Coord A exon
chr1:166623273-166623405
Coord C2 exon
chr1:166623406-166623505
Length
133 bp
Sequences
Splice sites
5' ss Seq
AAGGTGATG
5' ss Score
5.22
3' ss Seq
CCTCCCCTGACACTCTCCAGGAC
3' ss Score
8.12
Exon sequences
Seq C1 exon
AGGCACCACTTTGCTCAGGCCATTGCTATCCTCAACACCCATGGCTGTAATATCTTTGACCACTTCTCTCGGAAG
Seq A exon
GTGATGGGGCTGTGTGGGGGATGTGTTTGGTGGGAACTGGGAACCGGCTGCACAGAGGGAGCTGCGATCCCCCTTGGGGCAGATCGGTCGTGTGCCACAGGGACCGTGACAGTCCTCCCCTGACACTCTCCAG
Seq C2 exon
GACTATCAGCGAATGCTGGACCTGATGAGGGACATCATCTTGGCCACGGACCTGGCACACCACCTCCGCATCTTCAAGGACCTGCAGAAGATGGCTGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000019560:ENSRNOT00000026586:26
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(10.1=100)
A:
NA
C2:
PF0023314=PDEase_I=FE(13.9=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:
ACCACTTTGCTCAGGCCATTG
R:
CTTCAGCCATCTTCTGCAGGT
Band lengths:
171-304
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]