RnoINT0116463 @ rn6
Intron Retention
Gene
ENSRNOG00000052113 | Ppp1r9b
Description
protein phosphatase 1, regulatory subunit 9B [Source:RGD Symbol;Acc:632281]
Coordinates
chr10:82810015-82811177:+
Coord C1 exon
chr10:82810015-82810119
Coord A exon
chr10:82810120-82811041
Coord C2 exon
chr10:82811042-82811177
Length
922 bp
Sequences
Splice sites
5' ss Seq
GCGGTGAGA
5' ss Score
7.4
3' ss Seq
TGACTCTGGTGCCCCTGCAGGTT
3' ss Score
10.02
Exon sequences
Seq C1 exon
GATCCAAGTGAACGATCTCCTGGTAGAGGTGGACGGGACGAGCCTGGTGGGAGTGACCCAGAGCTTTGCAGCCTCTGTGCTTAGGAACACCAAAGGCAGAGTGCG
Seq A exon
GTGAGAGTCAGACAGCTAGTCCTCTAGGCACCAGGTCCCCACCCGGGGACCTGTGCCTGCGCCCCTGCCAGGCCTGCCTTCCCATCCCCGGATCCCTGGCTGTGCCGTTCACCACTAGGACTCAGGTTTCCGGGCTCGTGTCCTCCATGTTCTCCTCTTGGTTTATTCTCCTTCCCTGCTTCTGTCTCTAGCTCACCTCCTGAAAACCAAACCAGCTTCTCCCACCTAGAGCTTCATCTCAGGCCCACCCCATGTCCTGTTGGCAAGGCTGCTCCACTGAGTGGAGTTGAAGTCTGTGTACACCTCTGGCAGCTCACCTTGGGGACCGCTCCCTGCCCCACTTGTAGAGGGGCACTGCCCCCAGGAAAGGGTGTTGGAGGGAAACAGGATGTGGGTGGCTGGGGGAGGAGGAGCTGATGCCTGGAAGTCCCACTGTTTCCTCCCCATGCTAATCTGCAGTTGCCATCATCCTGCCCCTTCCTGACCAGGGGCTTGGAGCGCACCCAAGACACACCTCTGCGGTCTATTCCCCATCCCCTAAGATGGGTCATTTTAGCCGCTCCTGTGCTTTTGGTTTGGTTTTGTGGTGGCTGTTTTCTCTTTGGTGGGAACAGCTCCTATGCTGAGAGCCCCTGAGCTCATGTTCCCTGTAGCCCAGCCCAAAGTTTGGTTGGCGTCCCATTCCCACAGCTGGTCAGAGAGGCTAGCAGGTCTTCCTGCTTCTGGTAGGCAGCCATGTGAAAGCCCCAGCTCCCCTATTCGTTATTAATTCTACAGCTTCTGGACTCAGGCTCTCAGTTCACCTCCCCTGGGAGGGCCTAGGTTTGGAGGGAGGGCCCCACACAAGGAGGGCAGTGGCATTCCCAGCTGTAGACAGGCTGGGATGACGCCAGAATGACAGATGACTCTGGTGCCCCTGCAG
Seq C2 exon
GTTCATGATTGGCCGGGAGCGGCCTGGAGAACAGAGTGAAGTGGCCCAGCTAATTCAGCAGACCTTGGAGCAGGAGAGGTGGCAGCGGGAGATGATGGAGCAGAGATACGCCCAGTATGGAGAAGACGATGAGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000052113:ENSRNOT00000089497:4
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=0.500
Domain overlap (PFAM):
C1:
PF0059519=PDZ=FE(40.7=100)
A:
NA
C2:
PF0059519=PDZ=PD(4.7=8.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCCAAGTGAACGATCTCCTGGT
R:
TCCTCATCGTCTTCTCCATACTGG
Band lengths:
238-1160
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]