RnoINT0108736 @ rn6
Intron Retention
Gene
ENSRNOG00000019560 | Pde2a
Description
phosphodiesterase 2A [Source:RGD Symbol;Acc:620965]
Coordinates
chr1:166624440-166626147:+
Coord C1 exon
chr1:166624440-166624546
Coord A exon
chr1:166624547-166624783
Coord C2 exon
chr1:166624784-166626147
Length
237 bp
Sequences
Splice sites
5' ss Seq
CAAGTGAGC
5' ss Score
6.39
3' ss Seq
CCCTCCCCTCCTACTCCCAGGCT
3' ss Score
8.83
Exon sequences
Seq C1 exon
GAGAAGGCCATGGGCAACCGACCAATGGAGATGATGGATCGGGAGAAGGCCTACATCCCTGAACTTCAGATCAGCTTTATGGAGCACATCGCCATGCCCATCTACAA
Seq A exon
GTGAGCTTGGGGGGCACAACTGAGACCCTGTATAGAGAGGGCGGGGCAGCGTGTAACTTCCTCAGTGATAGTAAGAGGGCTGTCCCTGCATCCCCAGACAACAGAGAAAAGGGGTCTTCACACTGTGCTGAGTCCCAGGCTTCATCCTGTTACGGAAGTGCTTTCTGGGGGTGGGCCATCATCTTTCTGCTGTCTGTGCTGTTTTCTGGCCTCTGACCCCTCCCCTCCTACTCCCAG
Seq C2 exon
GCTGTTACAAGACCTGTTCCCCAAGGCAGCAGAGCTGTATGAACGCGTGGCCTCCAATCGTGAGCACTGGACCAAGGTGTCCCACAAGTTCACCATCCGAGGCCTCCCCAGTAACAACTCGCTGGATTTCCTGGATGAGGAATATGAGGTCCCTGATTTGGACGTCACCAGGGCTCCTGTCAATGGCTGCTGCAGCCTCGAGGGCTGAGTGATCCCCTCTAGGGACCCTCCCTGCCCGGCCCTCCTTTCACAACTCTCTACCAGTCTGTCTGATGCATTGGGAACCAGAGCCATGGGTCCTGGGTTCTAGACCAGGATGTCCCCTGTGACCTGGCACATGCCACCCTTCCTGGGCTTCGTCTTTCTCATCTGCAGAAGGAATTCGAGATTCGCAGTCTCACACAGACTTGGCCGTTTGTTCTTCAAGAGCACAGTAGTGACCAGTGGCAGTGGGCTTCCTTCTGCACCTCTGACTGTACCGTGCCCAGTTCTGCCCAAGCCACTCCATCTTTGAGCCACAGAACCTTCTGTGAACCCATTAGAGCCCCATTACGTCAGTATCCTTGTTTTCCTGGAGGAATCCCAGGTCTCTGGAGACTTCGAGATCCTCATGGAAGAAGGAGAGGCCACCGAGAGAGCAGAGGGTATAAATCAGTCACCAGCTAGAAGTCGCCATAGGGTGAAGGGACCCTGAGGGTGCCTCTGTGCTTCTGGCAGGACTGGGACCCTGGAGGAAGCTGACAGCCAGGTTGCTCAGTGCTCTGCAGGAGGCAGTGCTCCAGCAGAGAAGGCAGGAATAAGGGACAGAAGGATCCTCAAGCTGGGAGACAGTCCCTACACACCCCTGCCCTTCAGGTGTTGTGACCTGAAGTGAGTTCCTTTCCCTAGCTAGCCAAGACAGGATCATTAGACAGCCTATTCTCTCTTTAGATCAAAGTCTCCGTCATTCTGTGGAGTCCGTGAGTGGTTGTGGCATGCTCTGCCACCCTGAGGCACAGAGAGCCTAACCTCCTTTCCTCTGAGTGTATCCCCCTGGTCTGAGCCCCTCTCCCATTCCTGCCATCAGAGAGGGGCCTGGCCTCTCTCCACAGGGCTTCTCTCCTCTTCAAGGCCATATCCACACCTGCCCCCCGGAGGGCTCAGGAGACTCTCCCAGGGCTGGGCCTCTTGGGTGAGTGGCCACTAGCTTCTCCTTCTGTTTTGTTCTGTATGTATTGTGGGTGGGGGAGGGGGCCACCTGCCTTACCTACTCTGAGTTGCCTTTAGAGAGATGCATTTTTCTAGGACTCTGTGCACCTGTTGTTGTATGTGGTCCCGTGGGCTGAGTGCTTTGTACATGAGAATAAATCTATTTCTTTCTACCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000019560:ENSRNOT00000026586:30
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.056 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0023314=PDEase_I=FE(14.7=100)
A:
NA
C2:
PF0023314=PDEase_I=PD(8.4=28.6)
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:
ATCGGGAGAAGGCCTACATCC
R:
CTAGAGGGGATCACTCAGCCC
Band lengths:
292-529
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]