BtaINT0116348 @ bosTau6
Intron Retention
Gene
ENSBTAG00000002178 | PPL
Description
periplakin [Source:HGNC Symbol;Acc:HGNC:9273]
Coordinates
chr25:3972511-3974185:-
Coord C1 exon
chr25:3973992-3974185
Coord A exon
chr25:3972662-3973991
Coord C2 exon
chr25:3972511-3972661
Length
1330 bp
Sequences
Splice sites
5' ss Seq
CAGGTCAGG
5' ss Score
7.2
3' ss Seq
TGGCTGGCTTTGCCCCGCAGGGT
3' ss Score
9.2
Exon sequences
Seq C1 exon
GCCATGGCCTCCGAGCTGCAGGCCCGGAAGGCCCTCCTCGGCGAGGTGCAGCGGAACCTGCAGGCCGCCAAGCAGTGCTCGGGCTCGCTGGCCAGCCGCTTCCAGGAGCACTGCCCGGACCTGGAGCGCCAGGAGGCCGAGGTGCACAAGCTGTGCCAGCGCTTCGACGGCCTCTGCCAGCAGGCGGAGCTCAG
Seq A exon
GTCAGGGGCCACGGAGCGGGGCTGGGGGTGGGGAGGGTGGTCTCGGAGGCCTTGGCTGAGCTAGTCTGCCTGAGGTACCCAGGGGGGATTTCTGTGGACAGCGCTGAAGGCTGTTTGTTTTCCAAATAATTGCCGCTTTTGGGAAAAAGCAATACACATACAAAATTAAAAAACCCAAAGGGGTTGTAATGACCAAACCGTTCCCCCGAAGATCAGCCCTGCTGTGAGTTTCTCGTGAGTCCTTCCAGAGCCACTCTGTATGAGCCAGGGTTGGTAGGAAATGTAGGAACACCCAGCGTGTCCTACTATTTCCCCATCGTGTATTTTCCTGGCCTGAACAGTCAGGAAGTGCTCCCTCCTCCTCTTGTGTTTTCTGAAAAAGGGTCTGTGAAGACTGGGTATTACTTCCTTAAATGCGTGGTAGAATTCACCCCGGAAGCCATCTGGGCCTGCAATTTTTTTTTTTTTTTTTTGGTAAGAAGGTTTTTAACTACAAATGCAACCTCTTTTATTAGATATTGGACGATCTGGGTCATCTGATGCTTGAGCAGCTTCACAAGTTTGTGTCTTTCAAGGACACACTGTACACCTCGTCAAGCTGTTGAGTTTTTGGCATGAGATGGTTCATAATATTCTCTTATACTTGAACGTCTGCGAGATCTGAGGGAACGTCCTCGCTTTCATTCCTGACATCGTATCTTCTTTTGTCGTGTTTGTTTATTCTGTTTTCTCCCCCGATGATTCTGTCTGGGGTTGATCACTTCACTGACTGTTTCAATGAAACAGCTTTGGTTGCAGTGATCTTTCCGTTTTCCTGTTTCCTGATTCACTGAATTCTGCTCATCATTATTTCCTACTATAGCTGCTTACATTAGGTTCAGTTGGCTCTTCTTTTTCTTCCTGAAGTTAGAAGCTTGGACTGTTGATCTGAGAGTCTGCTTTGTTTTTTTTTTCTCCCTCATCTAAGCATTTAAGTACATCTCGCTAAGTACTGCATTCGCTTTGTCCCACAAACGATGTTTTTATTTTCAGTGACTTCAAAAGATTTCCACACCTCCCTTGTGATTTCTCCTTGGATCTGGGAGTTATTTAGGTCCTGAGATTCACAGTGGGCATCACCTCAGGTCCGCACACTCGGGCCTGCCTGCCTTTAATGGAGGCCGTGCAGTATTCCCACCCAATACTCCATAATTTACCTGACTACTCCCCTTCCTGGTAAACGTTGCGCTGACTCCCAGTTCAGTTCCCTTTGGTAACCTCTAGAAAGGGACAGCAGGCAGCTCTCGGTGCAACCCGAGCGCTCAAAGGCCTGGCTGGCTTTGCCCCGCAG
Seq C2 exon
GGTCCAGAGCCTGCAGAGCGCCCGGGCTGAGCACGACGCCTTCTGCAGCGGCCGTGACCGCCTGCTTCAGTTCCTGTCCCACATCCCCAGCTACGAGCCCCAGGAGACGGACGGCCTCGGCCAAGTGGAGACCAAGCTGAACAACCAGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000002178:ENSBTAT00000002822:17
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.015 A=NA C2=0.235
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:
ATGGCCTCCGAGCTGCAG
R:
CTTCTGGTTGTTCAGCTTGGTCT
Band lengths:
342-1672
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]