BtaINT0112673 @ bosTau6
Intron Retention
Gene
ENSBTAG00000048098 | PKP3
Description
Bos taurus plakophilin 3 (PKP3), mRNA. [Source:RefSeq mRNA;Acc:NM_001076858]
Coordinates
chr29:51274079-51274511:-
Coord C1 exon
chr29:51274344-51274511
Coord A exon
chr29:51274265-51274343
Coord C2 exon
chr29:51274079-51274264
Length
79 bp
Sequences
Splice sites
5' ss Seq
GAGGTGGGC
5' ss Score
6.32
3' ss Seq
CTCTGTGCCCTCCTGCCCAGCTG
3' ss Score
7.49
Exon sequences
Seq C1 exon
AGTGTGGAGAACGCCGTGTGCGTGCTGAGGAACCTGTCCTACCGCCTGTACGACGAGATGCCGCCCTCGGCCCTTCAGCGGCTGGAGGGCCGGGGCCGCCAGGACATGGGGGTACCCCCAGGCGAGGCGGTGGGCTGCTTCACTCCACAGAGCCGGCGGCTCCGAGAG
Seq A exon
GTGGGCCCAGACTGGGGCGGGCGGGCAGAAGCAGGGGTCCCAGGCGACCTCAGCTGACCCTCTGTGCCCTCCTGCCCAG
Seq C2 exon
CTGCCCCTCACGGCCGACGCGCTCACCTTTGCCGAGGTGTCTAAGGACCCCAAGGGCCTCGAGTGGCTGTGGAGCCCCCAGATCGTGGGGCTGTACAACCGGCTGCTGCAGCGCTGTGAGCTCAACCGGCACACGACCGAGGCAGCAGCCGGGGCGCTGCAGAACATCACCGCAGGGGACCGCAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000048098:ENSBTAT00000065717:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.286 A=NA C2=0.032
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:
CTACCGCCTGTACGACGAGAT
R:
CCTTAGACACCTCGGCAAAGG
Band lengths:
176-255
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]