BtaINT0117052 @ bosTau6
Intron Retention
Gene
ENSBTAG00000004436 | PPT2
Description
Bos taurus palmitoyl-protein thioesterase 2 (PPT2), mRNA. [Source:RefSeq mRNA;Acc:NM_001035318]
Coordinates
chr23:27028167-27029195:-
Coord C1 exon
chr23:27029141-27029195
Coord A exon
chr23:27028973-27029140
Coord C2 exon
chr23:27028167-27028972
Length
168 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGT
5' ss Score
10.1
3' ss Seq
CCCGTTGACCCACCTTGAAGGTT
3' ss Score
6.63
Exon sequences
Seq C1 exon
CTTCTTTGGTTTCTATGATGCAAATGAGACAGTCTTGGAGATGGAGAAGCAACTG
Seq A exon
GTGAGTCCCCTGGAATTACTTTCCCTTTCTGCACACACTGTGGTTCTCTCTGCCCCTGACACGGAAGCTGAAGGGTCTACCCTGTGGGGAGGGGGTCTGGGACGCCAGCGGGAACTTACTTTGTCTCTCCCTATGTCTTTCTTCCATGCCCGTTGACCCACCTTGAAG
Seq C2 exon
GTTTATCTGCGGGACTCTTTTGGGTTGAAGACTCTGCTTGCCCGGGGGGCCATAGTGAGGTGTCCAATGGCTGGGATCTCCCACACGGCCTGGCACTCCAACCGTACCCTTTATGAGACCTGCATTGAACCTTGGCTCTCCTGAGGGACCCCTCAGGAACTCCCCGCCCAGAGACTGAGTGGAGCCTTGGATGTCAGGCCTTGGTGTGCCTGTGACCACCTCACTGGTCCCACACTGCCCCCACCAACCAGGGCTCCAGGACCCCTGCTCTGTGAATGACACATCCTGGTCTCCTCCATCTCGTGTCCTCCCTTTTGGGGGTTGCTCCACGCTCTCCCATGCCCCCCAAGGCCAAGGCTGGGAAGTGGGAAACAAGATTAACTTGTGGCTGCTCCTGTTGCTGCTGCTCCTCTGTCTCTGGCTCTACACAAGGAGAACCCAGCCCCTGCCCACCACAGGGTCTCCTTCCAAGCCACTCAGGACATTTTTAGCTTGTTTTTCCCACGTTCCCTTTTCCTCTGAACTCCCCTGTTGTGAGCCCTCCCAACCCCTCAGGAAGGACCACCTATGAGAGTGGGGTTCTGAGGTTCCACTATGGGGACAGTTCGTTCTTGAAGTGTCAGTGTTGGGGAATATCTGTGGCCTGTGAGGCCCATCTCAGGTTTGGGGATCCCCCAGTCCCTATGTTCAGTATTGGGGTGCCCTCTGGGAGCCTAGTTTCTTTGAGGCTCCAGCCCCTCTTTTAGCTACCCTGGAATGGGTGTGTTACTACCCCTGTATTTATGAAAATAAAGTTGCATTTACTC
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000004436:ENSBTAT00000005815:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0208910=Palm_thioest=FE(6.7=100)
A:
NA
C2:
PF0208910=Palm_thioest=PD(15.7=87.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGCAAATGAGACAGTCTTGGAGA
R:
CACCAAGGCCTGACATCCAAG
Band lengths:
243-411
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]