RnoINT0108723 @ rn6
Intron Retention
Gene
ENSRNOG00000019560 | Pde2a
Description
phosphodiesterase 2A [Source:RGD Symbol;Acc:620965]
Coordinates
chr1:166619213-166620166:+
Coord C1 exon
chr1:166619213-166619325
Coord A exon
chr1:166619326-166620088
Coord C2 exon
chr1:166620089-166620166
Length
763 bp
Sequences
Splice sites
5' ss Seq
CACGTAAGG
5' ss Score
7.47
3' ss Seq
TTTCTGTTTTCTCTCCTCAGTCT
3' ss Score
10.85
Exon sequences
Seq C1 exon
AGGTCATCGGTGTGGCTGAGCTAGTGAACAAGATCAATGGGCCATGGTTCAGCAAATTTGATGAGGACCTGGCCACAGCCTTCTCCATCTACTGTGGCATTAGCATCGCTCAC
Seq A exon
GTAAGGGAGCGCTACTGGGGTTAGGAAGGGTGGCCTACTTCCCACATCTGGTCTCTTTGCTCTTGCCTGTCTATGCTCAGGGCTCAGCAAATGGGGTGCTGTGTAGCCTGCCCTACATGCTAGCTGCCTCTAGTCACTCAGCATGAAAAGCTGGGGATACTATTTCTAGTCCTGTCTAGCCAACTTCCGGAGGATCATGAGAAAGAAAGGAAAAGAAACAAAACAAAACAAAACCCCACCTAGTTCTGCTGGGCCTATAATCTCAGAATTTGAGAGAGAGTGGCAGGAGGCTACATGGCAAGTTGGAGGCCAGCCTGAGTTATATGAGACACTGTCTCGACAAACAAAAATCCCAACACACACATATAAAGCCCTATTGGTAAGATTCTGCCCCCACCCCAGCAACTCCAAACCAGTCTACTAGTCAGTATCTTTTCGGCAAACGTCGGGTCTTTCTGTTCATGCTTTTGGCAGCTCTAGCCTGCAAATCCAACCTAGGTACCTGAATTAATCCCTTCTTTCTGGTCTTCTCCTCCAAGGGCTACCAGGTTCAGGGGACAAAGTGTCGCAGATGTTTAGAAAGTGAGGAAGGCTAGTAAGAGAGCTAGGATTAGAGTCAGGGTGAGGCCTGAACACTGGGCCATTGATAATGTCTTATACTGGGCCCCCAATGGGACAGGAAGGAGAACTTCTGCAATCTGGGCATTCTGAGGATGTCACAGCCTTCAGCTCCAGCACCATCTTTTCTGTTTTCTCTCCTCAG
Seq C2 exon
TCTCTCCTATACAAAAAGGTGAATGAAGCCCAGTACCGCAGCCACCTGGCCAACGAGATGATGATGTACCATATGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000019560:ENSRNOT00000026586:19
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=PD(25.0=92.1)
A:
NA
C2:
NO
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:
GTCATCGGTGTGGCTGAGCTA
R:
TGGTACATCATCATCTCGTTGGC
Band lengths:
182-945
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]