BtaINT0111668 @ bosTau6
Intron Retention
Gene
ENSBTAG00000004901 | PIK3C2A
Description
phosphatidylinositol-4-phosphate 3-kinase, catalytic subunit type 2 alpha [Source:HGNC Symbol;Acc:HGNC:8971]
Coordinates
chr15:35900179-35900518:+
Coord C1 exon
chr15:35900179-35900227
Coord A exon
chr15:35900228-35900307
Coord C2 exon
chr15:35900308-35900518
Length
80 bp
Sequences
Splice sites
5' ss Seq
GGGGTATGT
5' ss Score
7.48
3' ss Seq
AACAATTTCTTTAAATCTAGGCT
3' ss Score
6.38
Exon sequences
Seq C1 exon
GCAACTTCACTGTCTGGAGGAGGAGACATTAACAGGAGTTCAAGTAGGG
Seq A exon
GTATGTATTTAAGTTCCTTACATTTTAGGAGTAATTGTTGCTTTTACAGAGAATTATATTAACAATTTCTTTAAATCTAG
Seq C2 exon
GCTCACTGAATCCTGAAAATCCTTTTCAAGTAAGCATGGACCAGTTAACTGCGGCAATTTATGATCTTCTCAGACTCCATGCAAATTCTGGTAGAGGTTCTGTAGATTGTGCCCAAAGTAACGGGAACATTAAGGAAGCATGGACTACAACAGAACAGCTCCAGTTTACAATTTTTGCTGCTCATGGTATTTCAAGTAACTGGGTATCAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000004901:ENSBTAT00000046627:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.941 A=NA C2=0.070
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0079219=PI3K_C2=PU(0.1=0.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CACTGTCTGGAGGAGGAGACA
R:
GTTCCCGTTACTTTGGGCACA
Band lengths:
170-250
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development