RnoINT0116069 @ rn6
Intron Retention
Gene
ENSRNOG00000002930 | Ppl
Description
periplakin [Source:RGD Symbol;Acc:1305511]
Coordinates
chr10:10672538-10672866:+
Coord C1 exon
chr10:10672538-10672645
Coord A exon
chr10:10672646-10672770
Coord C2 exon
chr10:10672771-10672866
Length
125 bp
Sequences
Splice sites
5' ss Seq
GAGGTACAG
5' ss Score
6.62
3' ss Seq
GTCTCTCGTCTTCCCGGCAGGCA
3' ss Score
9.69
Exon sequences
Seq C1 exon
AATTTCATCAACCGGAACCTGGAGGCCAAAGAAGAGAGAATCAACAAACTGCACACTGAAGGCGACCAGCTGCTGACAGCCGAGCACCCGGGGAGGAACTCCATTGAG
Seq A exon
GTACAGTTCCCTCATAGGCGAGGCACCTCCCGTCCTCTTCCCGCCCCGCCTGGTTTTCTATCAGTCCCTCTCCTGACAGCCCAGGCGTCTAGGCTGCAGTGATGGGTCTCTCGTCTTCCCGGCAG
Seq C2 exon
GCACACATGGAGGCGGTGCACGCGGAGTGGAAGGAGTACCTGAACCTGCTCATCTGTGAGGAGAGCCACCTGAAATACATGGAAGACTATCACCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000002930:ENSRNOT00000004026:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.556 A=NA C2=0.031
Domain overlap (PFAM):
C1:
PF0043516=Spectrin=FE(33.7=100)
A:
NA
C2:
PF0043516=Spectrin=PD(22.1=71.9),PF0043516=Spectrin=PU(5.1=12.5)
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:
TTTCATCAACCGGAACCTGGA
R:
TTGGTGATAGTCTTCCATGTATTTCA
Band lengths:
202-327
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]