GgaINT0055159 @ galGal4
Intron Retention
Gene
ENSGALG00000004260 | PKP3
Description
plakophilin 3 [Source:HGNC Symbol;Acc:HGNC:9025]
Coordinates
chr5:1561678-1562171:-
Coord C1 exon
chr5:1561979-1562171
Coord A exon
chr5:1561766-1561978
Coord C2 exon
chr5:1561678-1561765
Length
213 bp
Sequences
Splice sites
5' ss Seq
CAGGTGGGA
5' ss Score
6.71
3' ss Seq
ATTTTCTCTCCCTACTCCAGCTC
3' ss Score
9.16
Exon sequences
Seq C1 exon
CCACCAAGGTGGTCAGCCACTTGATTGAGAAGCTGCCAGGGAGTGTCGGGGACAAGGCACCACCTGCTGATGTTATCGTGAACATCATTGCGGTGCTCAACAACCTGGTGGTGGAGAGCCCCATGGCTGCTCGCGACATCGTCTACTTTGATGGCCTCAGGAAGCTCTTCTATGTCAAGAAGAGGAGGGACAG
Seq A exon
GTGGGAGCTCGCTTGTCTGTTTCTCCATCCCAACCATGGTGTTGCCCATCACCGCAGCCATCTCTTTTCCATCTGGGTGCTTCTCACCACTCCTACTAGAAGCACTTTGACATCAGCCCTCGGACTTTGTGGGGTGGTATCCTTGGGCTGGTGGGTACCATCCCATACTCTGTGGTACCCAAAACATGATTGTATTTTCTCTCCCTACTCCAG
Seq C2 exon
CTCAGACAATGAGAAGTCCTCCCGGGCAGCAGCCAGCCTCCTGGGCAACATGTGGCAATACACCAAGCTCCACCGGGACTTCAAGGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004260:ENSGALT00000006774:12
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms (No Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.167
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:
TGGTCAGCCACTTGATTGAGA
R:
CTTGAAGTCCCGGTGGAGCTT
Band lengths:
269-482
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]