BtaINT0116357 @ bosTau6
Intron Retention
Gene
ENSBTAG00000002178 | PPL
Description
periplakin [Source:HGNC Symbol;Acc:HGNC:9273]
Coordinates
chr25:3982129-3983551:-
Coord C1 exon
chr25:3983510-3983551
Coord A exon
chr25:3982291-3983509
Coord C2 exon
chr25:3982129-3982290
Length
1219 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGA
5' ss Score
7.54
3' ss Seq
CTGTTCTTGCCTGCCTGCAGGCG
3' ss Score
10.89
Exon sequences
Seq C1 exon
GAGCAGAACGGTGAACTCCAGGCCAAGTACCAGAAACTGCTG
Seq A exon
GTGAGACGCCCCCAGGACCGGGATGGGAGGGGATGGGAAGCCGGGCTGTGGGCAAAGAAGTGTGTGCGGTTAACACTTCAAGCAGGATGGAGGGGGATGAAGTGGGGAGAAGCAATATCCCGAGCCCCTATCTGCGAGGCAACCCTGATTGCCCTTTGCTCATAGGAAATCCCAAGAGACCCTGTGATATAGTTTATCCTACTGTTTGCTGCTTAATTTTTCATTGAGCACCTACTATGTGCCAAGTACAATGCCAGGTGCTTAATAAGCAAAAGTTCTCTATTTCTCTTTTCAAAACCTTCTTTTTTATAACTGCACGTGATGCGTAAATGCTTTCTTGTTGTGAATGTTACAGACACCTCAGACAAGAGAATGTAGGGACGGTAACAGTGTAGCTCATAGTAGGAGGCTCTGGAGCTGGGCCGCCTCCACCCCCTTTAGGTGGGGAGACCTCGAGCATGAGCTGCTGAGTCTCTGGGGACCTCAGTCTCCTCATCTGTAAAATGGAGTCACTTCCACTCCTTGGCTTACAGGAAGCTTTCAGGGTTGCATGAGTTGATGTTGGATAAGTCCTTTGCACAGTCATGGGACATGGTGGGCTCCCCCGTACGTGTTCACCACTGTTCTCATTTGCATAGTGGAATTCAGACACCCCCTCCCCACTGCCCTGTGGTAGTTTGCACCATGACATGTTAAAGACAAAAGCAGAAGCGTAGCTGCTGACGTTTATGGAGCACCAACTGTATGCCAGGCTTGGTGCCCTATGAGATCTGTGCTGTTATTCCCATTTTGCAGATGAGTAAACCAAGGCTCCACAAGCATGTCTATTCTGTGAGGGTTTTGTCTCGCTCACTGCTATATCGCAGGGCCTGGAGCCATGCCCAGCACTTGCATACATGCCAAGTTGCTTCAGTCATATCTGACTTTTGTGACCCTATGGACTGTAGCCCGCCAGGTTCCTTTGTCCATGGGATTCTCCAGGCAAGAACACTGGAGTGGGTTCATGCCCTCCTCCAGGGGATCTTCCCGACCCAGGGATAGAACCCAAGTCTCTTTGTGCATTAGCCCAGCACTCAGTAGATGCACAATAAACGTTTGCTGAATGAATGAAGGGGTTTGGGAGGGTCAGATGACTTATCCAAGGGAGTCCAGCGGGGCAGGAGGTGTGGAGGGAGTCCCTTGCCGGCGAGGCTGCAGCCCTGTTCTTGCCTGCCTGCAG
Seq C2 exon
GCGGCGTCACAGGCGCGGCAGCAGCACCTGAGCTCACTGCAGGACTACATGCAGCGGTGCACGAACGAGCTGTACTGGCTGGACCAGCAGGCCCAGGGCCGCATACAGTATGACTGGAGTGACCGCAACCTCAACTACCCCAGCCGCCGGCGCCAGTACGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000002178:ENSBTAT00000002822:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.071 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF084565=Vmethyltransf_C=FE(8.1=100)
A:
NA
C2:
PF084565=Vmethyltransf_C=FE(33.1=100),PF0043516=Spectrin=PU(41.3=79.6)
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:
GAGCAGAACGGTGAACTCCAG
R:
GGCGGCTGGGGTAGTTGAG
Band lengths:
190-1409
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]