GgaINT0055157 @ galGal4
Intron Retention
Gene
ENSGALG00000004260 | PKP3
Description
plakophilin 3 [Source:HGNC Symbol;Acc:HGNC:9025]
Coordinates
chr5:1562588-1563127:-
Coord C1 exon
chr5:1562942-1563127
Coord A exon
chr5:1562742-1562941
Coord C2 exon
chr5:1562588-1562741
Length
200 bp
Sequences
Splice sites
5' ss Seq
AGGGTGAGG
5' ss Score
7.13
3' ss Seq
GTGTGTTTTTGCCTCTGCAGTGG
3' ss Score
8.94
Exon sequences
Seq C1 exon
CACTATCTGAATGCAGACATCGTCACTTTCACGGAGGTGTCCAAGGATCCCAAGGGCATGGAGTGGCTCTGGAACCCACAGATTGTGGGCATCTACAACCGGCTGCTGCAGCGCTGCGAGCTCAACAAGCACACCACCGAGGCGGCCTCGGGTGCCTTGCAGAACATCACTGCTGGGGATCGCAGG
Seq A exon
GTGAGGACACAGGAGGGGAGCGTTCCTTGGGCTTGTCCCATCTTGTCTGGCTGTCGCTGCTGGTCACAGCCCTACCTGGGTGGAGGAACGTGGCCATCACGCTCCTTGCCAGTCAGGTCACCCTGCCACGCTGAGCAAGAGAAGGAGGAGAATGGGGCAAACCAGGTGGGTGCCTCTACTGTGTGTTTTTGCCTCTGCAG
Seq C2 exon
TGGGCAGGCGTGCTGAGCCGGCTGGCTTTGGAGCAGGAACGCATCCTGAACCCCGTGCTGGACCGCGTCCGCACCGCTGACCACCACCAGCTGCGCTCCCTGACAGGGCTCATCCGCAACCTGTCCCGCCATGCACGCAACAAGGACGAGATGT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004260:ENSGALT00000006774:10
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.048 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:
GGAGGTGTCCAAGGATCCCAA
R:
ACATCTCGTCCTTGTTGCGTG
Band lengths:
308-508
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]