RnoINT0108740 @ rn6
Intron Retention
Gene
ENSRNOG00000019560 | Pde2a
Description
phosphodiesterase 2A [Source:RGD Symbol;Acc:620965]
Coordinates
chr1:166614524-166615226:+
Coord C1 exon
chr1:166614524-166614583
Coord A exon
chr1:166614584-166615084
Coord C2 exon
chr1:166615085-166615226
Length
501 bp
Sequences
Splice sites
5' ss Seq
CATGTGAGT
5' ss Score
7.83
3' ss Seq
CACCACTCTGCCTACTCTAGGCT
3' ss Score
7.16
Exon sequences
Seq C1 exon
GTGCACTGTGGCCAGCTGAGTGACAGTGAGGAGCAGAGCCTGCAGGTGGTGGAGAAGCAT
Seq A exon
GTGAGTTGGGTAGGACCATTGCCAGAGCTTGTAGGAAAGACGACCTGGCCAGAGAGCTGGACAGGCCTGGCTTCTGGTTCCAGCTTGACCGCCACGAGCAAGTCAGTTTCACATCTGAAGATGCGGTAACGATAGCACTGACTGACTTAGCTGGGTTAGTGATGAGTCAACCTCAGAGTAACTGAGGCTCTTTTCTGCCTAAGATCTCAAGAGTCTGTGATCTTAATGAGGAGGGTGTTAGAAAAATCTGGCCCTCTTTTGGAAGAGTCCGTGAGCAGGGGCTGGAGAAAACTATACTTGGCTGTGGAAGGAGCAAGACTCTGAAGGCAGTGGGAACTCCTTGGAAGTGGAGGAACCAGTGGTGAATTAGTTGGGACTAGAGCAGGTGTGGACAGTGGGCGCTATGTGGCCCAAAGAGGGATCCGTTTGAGCTAAGGAGGGGAGTCAGGTAGTGGCACTGGTATGGTGGCAAAGGTATGCCCACCACTCTGCCTACTCTAG
Seq C2 exon
GCTCTGGTGGCCCTGCAGAGGGTGCAGGCCCTGCAGCAGCGCAGGCCTGAAGCTGTTCAGAACACCTCAGCGGATCCCTCTGAAGATCAAAAGGATGAGAAGGGATACACCGCCCATGACCGAAAGATCCTGCAACTGTGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000019560:ENSRNOT00000026586:7
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=0.438
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0159021=GAF=PU(4.8=14.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CACTGTGGCCAGCTGAGTG
R:
ACACAGTTGCAGGATCTTTCGG
Band lengths:
198-699
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]