GgaINT0055155 @ galGal4
Intron Retention
Gene
ENSGALG00000004260 | PKP3
Description
plakophilin 3 [Source:HGNC Symbol;Acc:HGNC:9025]
Coordinates
chr5:1563465-1564042:-
Coord C1 exon
chr5:1563925-1564042
Coord A exon
chr5:1563633-1563924
Coord C2 exon
chr5:1563465-1563632
Length
292 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGC
5' ss Score
9.6
3' ss Seq
TGTCCTATTTCTTTCCCCAGAGC
3' ss Score
11.01
Exon sequences
Seq C1 exon
AAATCTGAGCTCTGCGAGCCAGCAGACCCGGCAGAAGATGCGTGAGTGCCATGGGCTGGTGGATGCCATGATCCACTACGTTAACAGCTCCCTAGAAGTGGGGAAGTCAGAAGATAAG
Seq A exon
GTGAGCCTTGAGATTTGCTCTCCTCGGTGGGCTTGGGGCTTCAGTGCCCTCAGATGGGGTGTTACTCACTCCCTTGTGTCCCCTGGGGTCACCAGACATCCTTCACAAAGTGGGGAAAACGAAGCTGGATCTGTCCAAGCTTACTGGGCATAGTGGGGTACTGTCAGTGGCGGTGCCACAGATGTGACTTTGAACATGGAGCCCAAGTGGAACTCCGTGGGAATGGGCCCTGGAGGGTGTGCCAACTCACCAGGACTGACTGCTGCACTTCGTGTCCTATTTCTTTCCCCAG
Seq C2 exon
AGCGTGGAGAATGCTGTCTGTGTCCTGCGCAACCTCTCCTACCGCCTCTACGATGAAATGCCCCCCTCCTCCCTCCAACGCCTGGAGGGCCACCGTAGGAACAACGGTGGAACCATGACAGGGGAGCTGGTGGGCTGCTTCAGCCCCCAGAGCAAGAAGGCTCGAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004260:ENSGALT00000006774:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.075 A=NA C2=0.304
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:
AGCAGACCCGGCAGAAGAT
R:
AGCCTTCTTGCTCTGGGGG
Band lengths:
260-552
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]