GgaINT0055158 @ galGal4
Intron Retention
Gene
ENSGALG00000004260 | PKP3
Description
plakophilin 3 [Source:HGNC Symbol;Acc:HGNC:9025]
Coordinates
chr5:1561979-1562741:-
Coord C1 exon
chr5:1562588-1562741
Coord A exon
chr5:1562172-1562587
Coord C2 exon
chr5:1561979-1562171
Length
416 bp
Sequences
Splice sites
5' ss Seq
TGTGTGAGT
5' ss Score
5.84
3' ss Seq
ACGTTGCTTTTGCCCTCCAGCCA
3' ss Score
7.45
Exon sequences
Seq C1 exon
TGGGCAGGCGTGCTGAGCCGGCTGGCTTTGGAGCAGGAACGCATCCTGAACCCCGTGCTGGACCGCGTCCGCACCGCTGACCACCACCAGCTGCGCTCCCTGACAGGGCTCATCCGCAACCTGTCCCGCCATGCACGCAACAAGGACGAGATGT
Seq A exon
GTGAGTGCTGGGGAGGGCAGGGCCGGGGTGGCACAGAGGAGGCCGTTGGGATGCTTTCCATCCTTTTGATCCTCAGTTTGGCCTCCGCTTACCTCCAGGCATGTCTCAGCACCTTCCTGCGTCCATGCTCACAGCTAGACGCACACCTGTGTGGTGTCCTGTCTGTCCCCAGTGACCAAACATCCCTGGCGTGCTCTGCTCTGCCTCCAGCCCCACTGTCTTCCTTGGCTGTGCATCTATTGCCCCAACCCATCTTGCACACTGCTCCTCTCCCATGTGCCACAGAGTCTCAGCATAGAGCTTGAAGCAACCCCTGGTGCTGCCTCACGGGTCCTTGGCTGCGGGGCTCCTCCCTAGGTCACCATGCATCCAATGGGGTTAGCCACTAGACCTGATACGTTGCTTTTGCCCTCCAG
Seq C2 exon
CCACCAAGGTGGTCAGCCACTTGATTGAGAAGCTGCCAGGGAGTGTCGGGGACAAGGCACCACCTGCTGATGTTATCGTGAACATCATTGCGGTGCTCAACAACCTGGTGGTGGAGAGCCCCATGGCTGCTCGCGACATCGTCTACTTTGATGGCCTCAGGAAGCTCTTCTATGTCAAGAAGAGGAGGGACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004260:ENSGALT00000006774:11
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=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTTTGGAGCAGGAACGCATC
R:
CTGTCCCTCCTCTTCTTGACA
Band lengths:
322-738
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]