BtaINT0116342 @ bosTau6
Intron Retention
Gene
ENSBTAG00000002178 | PPL
Description
periplakin [Source:HGNC Symbol;Acc:HGNC:9273]
Coordinates
chr25:3977859-3978755:-
Coord C1 exon
chr25:3978609-3978755
Coord A exon
chr25:3978011-3978608
Coord C2 exon
chr25:3977859-3978010
Length
598 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGC
5' ss Score
9.6
3' ss Seq
ACTGGCCTGTTCCCCACCAGGGC
3' ss Score
9.89
Exon sequences
Seq C1 exon
GACCAGGAGAAGGCTCTGGACAAGTACCAGCATGTGGTGCGGGGGCTGCAGAAGCGAGGGCAGCAGGTGGTGCCCCTCAAGTACCGCCGGGAGACGCCCCTCAAGCCCATCCCCGTGGAGGCGCTCTGTGACTTCGAGGGTGACCAG
Seq A exon
GTGAGCCCCTGCCCAGGTGTTCCAGGTGCCCCAGGCAGACTGGGCCCAGATTGGCCTCTGCTCCACTCACTGAAAGGTCTAAGGGATGACAGGGAGGAGACATGACCTCATGTTTTCAGGAGCCTGTGTTCATCTCCATCATTGGGGTCACTCTCTGCCAGCGCCCCGTCCCCCGCATGGTCCCACCTGCTGCCCTGGCCTTCTGTCCCACCAGCTTAGAGGCGCCAGTTATTCCAGCAGATGTCTCAGGGAAGGTTCTCATTGGCCCACTCTTGAGTCATGTGTGCAGCCTGAACCAATCACTGCGAGTGCCATTCTCTCATTGGCCAGACCTGAGTCACACGTTCACCCTGAGCAGTCAGAGGATGAAGGGAGGAGACTCCCTGGGCTGGGACTGCATGGGCGGAAGCGGGTCCCCAGAGGGAAGTCCAGGTGGGTGTTAGGCTGGCAGAGCCTCTCTTTATGATGAAACGTCTTGAGGAGTTTCTGAGAGACAGGCTAAGGCTCCCCAGGTCCCAGAGTTCGGCAGTGACTGGGCTTCCGGCCACCAGCTGTGATAGGTCTCTCCATGTGTCCTGACTGGCCTGTTCCCCACCAG
Seq C2 exon
GGCCTGATCTCTCGGGGCTACAGCTACACCCTGCAGAGGAACAATGGGGAGAGCTGGGACCTCACCGACAGTGCGGGGAACAAGCTGACCGCCCCGGCCGTCTGCTTCATGATCCCGCCCACTGACCCCGAGGCCCTGGCTCTGGCTGAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000002178:ENSBTAT00000002822:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.020 A=NA C2=0.255
Domain overlap (PFAM):
C1:
PF0043516=Spectrin=PD(40.5=65.3)
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:
CCAGGAGAAGGCTCTGGACAA
R:
CTTTCAGCCAGAGCCAGGG
Band lengths:
297-895
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]