BtaINT0116347 @ bosTau6
Intron Retention
Gene
ENSBTAG00000002178 | PPL
Description
periplakin [Source:HGNC Symbol;Acc:HGNC:9273]
Coordinates
chr25:3973992-3975057:-
Coord C1 exon
chr25:3974919-3975057
Coord A exon
chr25:3974186-3974918
Coord C2 exon
chr25:3973992-3974185
Length
733 bp
Sequences
Splice sites
5' ss Seq
GCGGTGAGT
5' ss Score
10.49
3' ss Seq
CCTGCCTCTCCACCCCGCAGGCC
3' ss Score
11.55
Exon sequences
Seq C1 exon
GCTCGACATCGCCAACCGCCTGGAGAAGAGCCTGCAGCAGGGCCGGGAGATGCTGGCCACGTATGAGACCCAGCTGGCCCAGGAGGACACGGTGCCCGAGAGTGGCCAGGCCCTGGACAGCAGGAGGCAGGAGCTGGCG
Seq A exon
GTGAGTGTGCGGACTCCGGGCCCCGGGAGCCCCTTGCTGAGCTGGGCGTGGGCTCTAAGGGCCCCCGTTTGCTCTCCACCTCTGGACAATCGAGGGACCCAAGGCCCAGGACAGCAGGTCTCTCCAGGTTTGGAATCCCAGCCACACAAGGGGTTTGTGCGGCCTGCGGAAATCAGGTGCTGGTATCTTCAAATCAGGTATCAGCGTAGCCACCCCCTCTCCCTGTTTCTCTGAAGGAGCAGACCTGGCCACCTGTGCTCAGACGCCCGCCGGGCAGGTCAGCCGAGCAGAGGCAGCTCTGCCCCTCGCCCGGCACCTGCCATCTTCATGGTGCCACTGGGCCACTCTAAGCGCCAGTCTGTGAGCCCGTGGGAGGCCCCTCATTCACGAACCACCTCACAGACCCCTTGCCTTGTAGCGACAGCCTCACTGGGAGTCCAGGAAGCATGCTCAGAGGGCAGCGCCTCCGCCGGGGGCCCTTCCGGTCCGTGCGCGGCGTCACCGGCCTGCGCTGTGCGCCACAGGGTTTTAGAAGCTGTTTTTCCCAGGTGGTGTTCATTGTCACGGGACGGAAATTGTAGAAGTGACCTCAGGTTTGAGGACCAACTCAGAGGCAAAGCCCTGGTCACTGACCGGGCCAGGCCTACCACCCCTTCTAAGCGGGCGGCCCCAAGCACTCTGGGCCCTGGAGCCCTTGGCCACGGCGCCCACCACCTGCCTCTCCACCCCGCAG
Seq C2 exon
GCCATGGCCTCCGAGCTGCAGGCCCGGAAGGCCCTCCTCGGCGAGGTGCAGCGGAACCTGCAGGCCGCCAAGCAGTGCTCGGGCTCGCTGGCCAGCCGCTTCCAGGAGCACTGCCCGGACCTGGAGCGCCAGGAGGCCGAGGTGCACAAGCTGTGCCAGCGCTTCGACGGCCTCTGCCAGCAGGCGGAGCTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000002178:ENSBTAT00000002822:16
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.617 A=NA C2=0.015
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:
GACATCGCCAACCGCCTG
R:
CTGAGCTCCGCCTGCTGG
Band lengths:
329-1062
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]