BtaINT0116341 @ bosTau6
Intron Retention
Gene
ENSBTAG00000002178 | PPL
Description
periplakin [Source:HGNC Symbol;Acc:HGNC:9273]
Coordinates
chr25:3978609-3978975:-
Coord C1 exon
chr25:3978853-3978975
Coord A exon
chr25:3978756-3978852
Coord C2 exon
chr25:3978609-3978755
Length
97 bp
Sequences
Splice sites
5' ss Seq
GATGTGAGT
5' ss Score
7.77
3' ss Seq
GCACTCCCCTCCACATCCAGGAC
3' ss Score
8.54
Exon sequences
Seq C1 exon
TTCCACAAAGACATGAAGGATGCCCAGGAGCTGCTTCGCAAGGTGGACTCAGACCTGAACCAGAAATACAGCCCTGACTTCAAGGACCGATACCAGATTGAGCTGCTGCTGCGGGAGCTGGAT
Seq A exon
GTGAGTGCTGCCCGCCGAGTACGCCCTTCCCCGACTCCCTGCCTGCTGCCTGGAGAGGGCTGCGTGGTCTCACCTGGGCACTCCCCTCCACATCCAG
Seq C2 exon
GACCAGGAGAAGGCTCTGGACAAGTACCAGCATGTGGTGCGGGGGCTGCAGAAGCGAGGGCAGCAGGTGGTGCCCCTCAAGTACCGCCGGGAGACGCCCCTCAAGCCCATCCCCGTGGAGGCGCTCTGTGACTTCGAGGGTGACCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000002178:ENSBTAT00000002822:10
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=0.020
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:
ACCGATACCAGATTGAGCTGC
R:
GGTCACCCTCGAAGTCACAGA
Band lengths:
183-280
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]