RnoINT0116051 @ rn6
Intron Retention
Gene
ENSRNOG00000002930 | Ppl
Description
periplakin [Source:RGD Symbol;Acc:1305511]
Coordinates
chr10:10674650-10675075:+
Coord C1 exon
chr10:10674650-10674772
Coord A exon
chr10:10674773-10674928
Coord C2 exon
chr10:10674929-10675075
Length
156 bp
Sequences
Splice sites
5' ss Seq
GATGTGAGT
5' ss Score
7.77
3' ss Seq
GTGCTGTGCTGCTCTTCCAGGAC
3' ss Score
10.09
Exon sequences
Seq C1 exon
TTTCACAAAGATATGAAGGATGCTCAGGAACTGCTGCGCAAGGTGGACTCAGACTTGAACCAGAAATACAGCCCTGACTTCAAAGACCGATATCAGATAGAGCTGTTGCTTCGGGAGCTGGAT
Seq A exon
GTGAGTGATGGCATGCGAGGTACCCTGCCAGGCTGGGGACAGGTGCCCACACCTCCCTCCCCAGACCTGAGCTGACCACATCCAGTGCCCGCCTCGTGCTCCTCCTGGGTCATGGATGGGACGATGGCCTTACCTGGTGCTGTGCTGCTCTTCCAG
Seq C2 exon
GACCAGGAGAAGGCTCTGGACAAGTATGAGGATGTGGTGCGGGGGCTGCAGAAGCGAGGGCAGCAAGTGCTGCCACTCAAGTACCGGCGTGAGACGCCACTCAAGCCCATCCCTGTGGAGGCCCTCTGTGACTTTGAGGGTGACCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000002930:ENSRNOT00000004026:10
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.049 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0043516=Spectrin=FE(50.6=100)
A:
NA
C2:
PF0043516=Spectrin=PD(40.5=65.3)
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:
GGAACTGCTGCGCAAGGT
R:
TGGTCACCCTCAAAGTCACAG
Band lengths:
243-399
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]