BtaINT0112665 @ bosTau6
Intron Retention
Gene
ENSBTAG00000048098 | PKP3
Description
Bos taurus plakophilin 3 (PKP3), mRNA. [Source:RefSeq mRNA;Acc:NM_001076858]
Coordinates
chr29:51273106-51273482:-
Coord C1 exon
chr29:51273290-51273482
Coord A exon
chr29:51273194-51273289
Coord C2 exon
chr29:51273106-51273193
Length
96 bp
Sequences
Splice sites
5' ss Seq
CAGGTCAGG
5' ss Score
7.2
3' ss Seq
CCCTGCCCCCCACCCCCCAGCCC
3' ss Score
7.87
Exon sequences
Seq C1 exon
CCACCAAGCTGGTGAGTCACCTGATCGAGAAGCTGCCCGGCAGCGTGGGTGAGAAGTCTCCTCCAGCCGACGTGCTGATAAACATCATAGCTGTCCTCAACAACCTCGTGGTGGCCAGTCCCGTGGCCGCCCGGGACCTGCTCTACTTCGACGGGCTCCGCAAGCTGGTCTTCATCAAGAAGAAGCGGGACAG
Seq A exon
GTCAGGGCCCAAACCCTGTGCCCACCCTGCCCCCCGGCTGCCCCTGCCTTCTGGCCATGCCTGTCACCCCGCTGACCCCTGCCCCCCACCCCCCAG
Seq C2 exon
CCCTGACAGTGAGAAGTCCTCCCGGGCGGCCTCTAGCCTCTTGGCCAACCTGTGGCAGTACAACAAGCTCCACCGAGACTTCCGGGCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000048098:ENSBTAT00000065717:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.167
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:
CTGTCCTCAACAACCTCGTGG
R:
GCTTGTTGTACTGCCACAGGT
Band lengths:
171-267
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]