BtaINT0112672 @ bosTau6
Intron Retention
Gene
ENSBTAG00000048098 | PKP3
Description
Bos taurus plakophilin 3 (PKP3), mRNA. [Source:RefSeq mRNA;Acc:NM_001076858]
Coordinates
chr29:51274344-51274701:-
Coord C1 exon
chr29:51274584-51274701
Coord A exon
chr29:51274512-51274583
Coord C2 exon
chr29:51274344-51274511
Length
72 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGG
5' ss Score
9.16
3' ss Seq
GCGGCCCCCTCCGTCCACAGAGT
3' ss Score
10.25
Exon sequences
Seq C1 exon
GAACCTCAGCTCCGCCTCCCAGGCCACTCGCCAGAAAATGCGTGAGTGTCACGGGCTGGTGGACGCCCTGGTCACCTACATCAACCACGCCCTGGACGTGGGCAAGTGTGAGGATAAG
Seq A exon
GTGAGGGTCGGCCTGGGCCCGGGGGCCCCGGGGGTGCCAGCCCGCCCTGACCGCGGCCCCCTCCGTCCACAG
Seq C2 exon
AGTGTGGAGAACGCCGTGTGCGTGCTGAGGAACCTGTCCTACCGCCTGTACGACGAGATGCCGCCCTCGGCCCTTCAGCGGCTGGAGGGCCGGGGCCGCCAGGACATGGGGGTACCCCCAGGCGAGGCGGTGGGCTGCTTCACTCCACAGAGCCGGCGGCTCCGAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000048098:ENSBTAT00000065717:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.286
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:
ACGTGGGCAAGTGTGAGGATA
R:
GCTCTGTGGAGTGAAGCAGC
Band lengths:
176-248
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]