BtaINT0117049 @ bosTau6
Intron Retention
Gene
ENSBTAG00000004436 | PPT2
Description
Bos taurus palmitoyl-protein thioesterase 2 (PPT2), mRNA. [Source:RefSeq mRNA;Acc:NM_001035318]
Coordinates
chr23:27033250-27034218:-
Coord C1 exon
chr23:27034111-27034218
Coord A exon
chr23:27033334-27034110
Coord C2 exon
chr23:27033250-27033333
Length
777 bp
Sequences
Splice sites
5' ss Seq
ATGGTGAGT
5' ss Score
10.13
3' ss Seq
TAACTGCTGTTTGTACCCAGACC
3' ss Score
7.37
Exon sequences
Seq C1 exon
ACACAAACTATTTGAAGTGGCTGTTCCCCACCTCCATGAGGTCTAACCTCTACCGGATCTGCTACAGCCCGTGGGGCCAGGAATTCTCCATCTGCAACTACTGGCATG
Seq A exon
GTGAGTAGGACATGCCAAACTGGGGCCTCCATGCTAAGGGCATCCTGGAGGGTGGGGCCTGCTGCTCCCACCTCTACCATAACTAACAGCAGTGATGATGATAACTTACATTTATCGAGCACTTACTATGTGAACGGGCACTGTTCAAAATGCTTTATGTGTTTCACTTTGTTGCCTTAGAGAATACAGTTTGCTGCAGGGGTTGGCAAACTTTATCCTTAAAGGGCCAGACAGTAAATTTTTTTTGGTTTTGCAGGCATATAGTCTCTGTCACAACCACTCAATTCTGCCATAGTCATGTGAAAGCAGCCATATACCATATGTAAATGAATGTGTCTGTGTTGCAATAAAATTTTATTTACAGAACAGTGAACTGGATTTGACTAATGAATCATAGTTTGCAAATGCCTGGTTATAGTTTTTAAGATCATGGATGCTGGATCCAGACTACTTGGGTTTGAAGCCTAGTTCTGCTGCATGACTTTGGGCAAGTTGCTCAACCTTTCTGTGACTCAGTTTTCCTCATCTGTAAAGTATAGTATGTACCTTTTATTGTGTTTATGAGGATTAAATAATGAATGTCATGTGCTTTGAACAGTATCTGGCTCACAGCAGGTGCTGGAAAAAGGTGTTTGTTATCATGTTTGCAGTTATTACTGCTACTATCATATTACTGTGCGCCTTGTCTGTTACTGTAGCCTTCTGATTGGTCTTCCAGCATCTGGTCTTGCCTCTTCTCCCTGCTTCTCTGACGATCTAACTGCTGTTTGTACCCAG
Seq C2 exon
ACCCTCACCATGATGACTTGTACCTCAATGCCAGCAGCTTCCTGGCCCTGATCAATGGGGAAAGAGACCATCCCAATGCCACTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000004436:ENSBTAT00000005815:5
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(13.5=100)
A:
NA
C2:
PF0208910=Palm_thioest=FE(10.5=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:
ACACAAACTATTTGAAGTGGCTGT
R:
CAGTGGCATTGGGATGGTCTC
Band lengths:
192-969
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]