RnoINT0108726 @ rn6
Intron Retention
Gene
ENSRNOG00000019560 | Pde2a
Description
phosphodiesterase 2A [Source:RGD Symbol;Acc:620965]
Coordinates
chr1:166620501-166621236:+
Coord C1 exon
chr1:166620501-166620623
Coord A exon
chr1:166620624-166621165
Coord C2 exon
chr1:166621166-166621236
Length
542 bp
Sequences
Splice sites
5' ss Seq
ATGGTGAGC
5' ss Score
8.27
3' ss Seq
CCCCCCCCCCCGCCTCACAGGCC
3' ss Score
10.99
Exon sequences
Seq C1 exon
GTCTCTGACGATGAATACACCAAACTTCTCCATGATGGCATCCAACCTGTGGCCGCCATTGACTCCAACTTTGCCAACTTCACCTATACTCCTCGGTCTCTGCCTGAGGACGATACTTCTATG
Seq A exon
GTGAGCTGGCCCCTCTCAGTCTAGCTGGGGCATGGGGGTGGAGGGCGGGAAGCACAGATGTCAGTCAGGTGTGCATAAGAACTTCCGGGTGAGGCAGGGACTCCAAGAAGGCTATGGAGTCTCCTTCAGAGATAGACTAGGCATGCCTTTTGTCATTATGGGGCCACGGGGTGACTTAGGGGACAACAGTGGGCTGGGTGGTGCCCCAAAGCTGCCCTTGGTATGTGGTCTCAAGGCTTGCAACACTGCCCATTCCTCTAAGATTATATGTGAGCTCGCTTCCAAGAAATCTTAGCTTTTAGGCCCCTTAAATTTTCAATGGTTCGCGTGCCCATTCATCCATTTACTTTTCCTTTAGTTTAGAATATTAAGACTCTAAATTTTTGGGTATGAGGCTTCAGGAGAGGTGGAGACAGGAAGCACATCTTGACAGTGACAATCCTCTGACTGACACTCTCTCCCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCCCTCCCCTCCCCTTCCCTCCCCCCCCCCCCCGCCTCACAG
Seq C2 exon
GCCATCCTGAGCATGCTGCAAGACATGAACTTCATCAATAACTACAAAATTGACTGCCCAACTCTGGCCCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000019560:ENSRNOT00000026586:21
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:
NO
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:
GTCTCTGACGATGAATACACCA
R:
GCCAGAGTTGGGCAGTCAATT
Band lengths:
191-733
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]