DreINT0016712 @ danRer10
Intron Retention
Gene
ENSDARG00000079438 | PKP3 (2 of 2)
Description
plakophilin 3 [Source:HGNC Symbol;Acc:HGNC:9025]
Coordinates
chr7:32675361-32677390:-
Coord C1 exon
chr7:32677226-32677390
Coord A exon
chr7:32675541-32677225
Coord C2 exon
chr7:32675361-32675540
Length
1685 bp
Sequences
Splice sites
5' ss Seq
GATGTAAGT
5' ss Score
9.11
3' ss Seq
TTCATCATGTGTTCCATCAGAGG
3' ss Score
6.96
Exon sequences
Seq C1 exon
GGTGTAGAAAACTGTGTGTGTGTGCTGCGTAACCTGTCGTACCAGCTGTACTCTGAGATCCCGTCTTCAGTTCAGATGCGTCTAGAAGGACCCACTCGAGCACAGGACACACGGCACAGCGACGCCATCGGCTGCTTCACACCACAGAGCAAGAAAGCAAAAGAT
Seq A exon
GTAAGTCACCAGTCTTTCATCACATCAACCCTCCATTCACTAATTATGCATTTCATTTTTGACCACATGGTGTTTTTAATGTAATATTTGACAAAATCGGGCATCATGGTGGCGCAGTGTGTAGCACGATCGCCTCACAGCAAGAAGGTTGCTGGTTTGAGCCTCGGCTGGGTCAGTTGGCTTTTCTGTGTGGAGTTTGCATGTTTTCCCTGTGTTCGTGTGGGTTCCCTCCGGCCAAAAAGAAAATAAATTTATGAATTTGACAAATCATGTGCTATAATAATACATATATTTGATGTTTTTTTTTGTACACAACCGTTCAAAAATTTGAGTTCAATGAGATTTGTCTTATGTTCACCAAATACCAATGAACATATTTGTAGCATTTAATATAAAAATACAATAACAACTGCAACATTTTGCTATATAATTAATTTTTATTGTGTGTTTTTTATTCAGGTTATTCTTGTGATGGAAAACTAAATTTTATTAAAACTCTAGAATACAGGACACAGTACGTTAATGCACTTACTGACATGAACAAAATGCTTGTACAGCATTTATTAATCATAGTTCAACATTTTCTAATGCACTATTAAAAGCTGTGTGTGTTAACATTAGCTAATGTTAAAATGTTATGACTTCTCGATGTTAATCTAGGGACATTTATTTTGTGACCATTCTGTGTAATGCGGGAGGAAAAGATCCACGCATCAACAAAAAATACTGTCCAAAAAATAATCATTTAGTACACAAATCCAAAATAAACAGAAAATAACAAAAATAAAGAATAATAATATAGATAACAACAAATAACAGCAAAAGGTAAACTAAATACAATTTCTAACAACAAAAATAATCCAAAAATAATACACCTCGCAGGATAATAGACCTTAAATAATAGACCTCGCTAAAGAAAACAAAATCAATAAAAATCAATCTAACTCAGTTTAACCCTTTTACCTAACTGAAAACAAAATAATCGAAAGCCTTATCCTAAACCTAAAGTCTTCAGTGTTTGCATGTCCTAACTTACATACTCTAATCTAACCAAACAGAAAAATACAAAGACAGCGCTCACTCCTAAACCTGATGTGTCTATACTCACCTATTCACTAGGTGTTCAGCATAGTTCAACATTTACTAATGCATTATTAAAAGTTGTGTGTGTTAACAATAGTTAATGCTCCATAAATTAACATGAACTAAAAGTGTACAACTAAATTTTCATTAAAAAACATCAATTAATGCATCAATAAATGTTCTGTTCATTGTTTGTTCATGTTAATAAGTACAAAAACTTTAAATAATAACTGTATCTCATGTATTGTAAAGTAATCCGAATCAGAATTCTTTAATAAATAGAAAGTATATCATTTTTATATACTTTTTATTGCATAATTATTATTTATGTTTATTAATCTCACCTTGCTGAATAAAAAGAATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATAATTTATTTATTTTTTTAATGGAAAACAAATCTTAATGACCCAAATAAAATATTTATTTAGTTACGTACTGTGACCAGTGCTCTGACAGAGATATAACAGTTCCTCCAACGGCTCTCAGTGTTTTAATGAGTTCATCATGTGTTCCATCAG
Seq C2 exon
AGGAATCAAGATCTGACCACCTTCACTGAAGTGGCTCGGGTCCCTAAAGGAGCCGAGTGGCTGTGGCATCCTCAGATTGTCAGTCTTTACAACCAAATCCTGCAAAGCTGCGAGGCAAACACAGCCACACGTGAGGCAGCGGCAGGAGCTCTGCAGAACATCACAGCGGGAGACAGTCGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000079438:ENSDART00000113744:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.345 A=NA C2=0.167
Domain overlap (PFAM):
C1:
PF040639=DUF383=FE(18.9=100)
A:
NA
C2:
PF040639=DUF383=FE(20.7=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTGTAGAAAACTGTGTGTGTGTGC
R:
GACTGTCTCCCGCTGTGATGT
Band lengths:
342-2027
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]