BtaINT0117048 @ bosTau6
Intron Retention
Gene
ENSBTAG00000004436 | PPT2
Description
Bos taurus palmitoyl-protein thioesterase 2 (PPT2), mRNA. [Source:RefSeq mRNA;Acc:NM_001035318]
Coordinates
chr23:27034111-27034403:-
Coord C1 exon
chr23:27034308-27034403
Coord A exon
chr23:27034219-27034307
Coord C2 exon
chr23:27034111-27034218
Length
89 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGT
5' ss Score
10.03
3' ss Seq
CACTGCTGTTCTTTTGCCAGACA
3' ss Score
7.07
Exon sequences
Seq C1 exon
GGGGCCTGGTGTGCCGGGCACTCCTGTCTGTGATGGATGAACACAATGTGGATTCTTTCATCTCTCTCTCCTCTCCACAGATGGGACAGTATGGAG
Seq A exon
GTGAGTGGGCACTGTGGGCTCCATAGGGGGGCCCTGAGTCTTGAGGGCACAAAGTTCGGGGCCACTTGGCACTGCTGTTCTTTTGCCAG
Seq C2 exon
ACACAAACTATTTGAAGTGGCTGTTCCCCACCTCCATGAGGTCTAACCTCTACCGGATCTGCTACAGCCCGTGGGGCCAGGAATTCTCCATCTGCAACTACTGGCATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000004436:ENSBTAT00000005815:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0208910=Palm_thioest=FE(12.0=100)
A:
NA
C2:
PF0208910=Palm_thioest=FE(13.5=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGCACTCCTGTCTGTGATGGA
R:
GCAGATGGAGAATTCCTGGCC
Band lengths:
175-264
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]