BtaINT0116352 @ bosTau6
Intron Retention
Gene
ENSBTAG00000002178 | PPL
Description
periplakin [Source:HGNC Symbol;Acc:HGNC:9273]
Coordinates
chr25:3970293-3970986:-
Coord C1 exon
chr25:3970870-3970986
Coord A exon
chr25:3970386-3970869
Coord C2 exon
chr25:3970293-3970385
Length
484 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGC
5' ss Score
8.7
3' ss Seq
GTCTGTCTGCTCTCCTGTAGGAA
3' ss Score
11.13
Exon sequences
Seq C1 exon
GACTACGAGTTGGAAGCAGAGAAACTCAGGTCCCTCCTTGACTTGGAGAATGGAAGGAGCAGCCACGTGAGCAAGCGGGCCAGGCTCCAGTCCCCTGCCACCAAAGTGAGGGAAGAG
Seq A exon
GTGAGCTTCGTGGGCCCAGCCTCCTGGGGCTCCATTCCTCCAGGGAGCATGGCATGCAGGCCTCAGAAGGGCACGCAAAGTGGTAAACGGGGCTGGGGGCCCTCCTGGGTGCCAACAGTCTCAGTGGGAGAAGACGATGAACTTACTCTGGGCCAGCAACAGTGCCACACCTGGAAAGACAGCCTGCTGGGAGTCGTGGCTGGGGCAGTTCCCCTTGCTCCACGCCGAGTGGATCCGCACACAGAGGGCTGACGTTAACCTGTTCCTTCCGAACACGAGCGCCTTAAGGCTCAGAGACGGACCTGCTCAAGGTCCCTGGGGGTTCAGGCTTCTGACTCTAAATCCAGTTTTCTCTCTCACAGTTGAGACTAGCAGAACTCCAGGTAGGAAGTGGCAACTCTCTTTGGCATCTCTGCCCCAATGCCAGGTTTTACTCAAACACCTTACTCAGCTTGTTGATTCCTGTCTGTCTGCTCTCCTGTAG
Seq C2 exon
GAAGCAGCTCTTGCTGCCAAGTTTACGGAGGTTAATGCCATCAACAGACAGAGACTGCAGAACCTGGAGTTTGCACTGACCCTCCTGAGACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000002178:ENSBTAT00000002822:20
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.487 A=NA C2=0.097
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
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:
GACTACGAGTTGGAAGCAGAGA
R:
TCTCAGGAGGGTCAGTGCAAA
Band lengths:
207-691
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]