GgaINT0055154 @ galGal4
Intron Retention
Gene
ENSGALG00000004260 | PKP3
Description
plakophilin 3 [Source:HGNC Symbol;Acc:HGNC:9025]
Coordinates
chr5:1563925-1564479:-
Coord C1 exon
chr5:1564305-1564479
Coord A exon
chr5:1564043-1564304
Coord C2 exon
chr5:1563925-1564042
Length
262 bp
Sequences
Splice sites
5' ss Seq
CAGGTACCT
5' ss Score
8.16
3' ss Seq
GGACCCTTTTCCCCGTGCAGAAA
3' ss Score
8.39
Exon sequences
Seq C1 exon
GGATCCTATGGAATCTTTCCTCCAGTGACAACCTGAAGGATCGCTTGGCTCGAGACACACTGGAGCAGCTCACGGACCTGGTCCTGGTCCCCCTCTCTGGCCTGGGTGGCTCTGGTGTCATCCAGCAGAACCCCTCCGAGGCAGAGATCTTCTACAACTCCACAGGCTTCCTCAG
Seq A exon
GTACCTGCTCTGGACCAGCCTCAGTCCTACTGCGGATAAACGTTTAGAGGGGAGAAAGCACCGCCTGTACTGCCAATCTAGGGAGCAAGGTTGTGAGAGCTTGTTTTTGAGGTCCCCATTCCTTGCAGTGCTTGTGCATCAAGGCAAAGTTTTGTCAACCCCATGGGACAAGCATTAGTTGCCCTCACTGCTGTAGTGGGGCACAACGATGGAGTGGCCGTGGTGCCACTTCTCGCTGTGATGGACCCTTTTCCCCGTGCAG
Seq C2 exon
AAATCTGAGCTCTGCGAGCCAGCAGACCCGGCAGAAGATGCGTGAGTGCCATGGGCTGGTGGATGCCATGATCCACTACGTTAACAGCTCCCTAGAAGTGGGGAAGTCAGAAGATAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004260:ENSGALT00000006774:7
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=0.075
Domain overlap (PFAM):
C1:
PF0051418=Arm=PD(17.1=11.9)
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:
GAATCTTTCCTCCAGTGACAACCT
R:
TCTGACTTCCCCACTTCTAGGG
Band lengths:
276-538
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]