RnoINT0108742 @ rn6
Intron Retention
Gene
ENSRNOG00000019560 | Pde2a
Description
phosphodiesterase 2A [Source:RGD Symbol;Acc:620965]
Coordinates
chr1:166615474-166615787:+
Coord C1 exon
chr1:166615474-166615526
Coord A exon
chr1:166615527-166615712
Coord C2 exon
chr1:166615713-166615787
Length
186 bp
Sequences
Splice sites
5' ss Seq
TATGTGAGT
5' ss Score
5.56
3' ss Seq
CTCTGTCTGTCCCCTTGCAGCTT
3' ss Score
12.59
Exon sequences
Seq C1 exon
GAGAACTCTATGACTTGGATGCCACTTCTCTGCAGCTCAAAGTCCTTCGATAT
Seq A exon
GTGAGTCCCTGAACATTTTCTCTTCCACCCTACCTCTCTCCAAAGACCAACAGACCCTTGACCCCGTCACCTCAGTTCAGATTGGGACATCCCATCCTCTCTTCTACAATCCTGGAAAAAAAAACCCAGAGAGGGTAGAGGGGGTCTAGCCCTGCCCTCAGCCTGGCTCTGTCTGTCCCCTTGCAG
Seq C2 exon
CTTCAGCAGGAGACACAGGCCACTCACTGCTGCCTCCTGCTGGTGTCAGAGGACAACCTGCAGCTTTCCTGCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000019560:ENSRNOT00000026586:9
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:
PF0159021=GAF=FE(11.7=100)
A:
NA
C2:
PF0159021=GAF=FE(16.6=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACTCTATGACTTGGATGCCACT
R:
CTTGCAGGAAAGCTGCAGGTT
Band lengths:
124-310
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]