GgaINT1021593 @ galGal4
Intron Retention
Gene
ENSGALG00000006121 | PIK3C2A
Description
phosphatidylinositol-4-phosphate 3-kinase, catalytic subunit type 2 alpha [Source:HGNC Symbol;Acc:HGNC:8971]
Coordinates
chr5:11142837-11143318:-
Coord C1 exon
chr5:11143209-11143318
Coord A exon
chr5:11142963-11143208
Coord C2 exon
chr5:11142837-11142962
Length
246 bp
Sequences
Splice sites
5' ss Seq
CTGGTAAGT
5' ss Score
10.65
3' ss Seq
GTCTTGGTTTTGGATTCCAGGTT
3' ss Score
7.22
Exon sequences
Seq C1 exon
ATGCAAGTCCATCGAGTCCTACCTCAGGCAAAGTGGGTGGAGAAGTGAAGCTATCCATATCATACAGAAATAGCACTCTGTTTATCATGGTGATGCACATCAAAGATCTG
Seq A exon
GTAAGTAAGAGAAGAGAGAAGCTCACTGCCAAAAACTATTTTGTCAATTACCTTCTTGACTTACGATCTGTGTAGGAATGATGAGAGATATCTCTCTTCCTCCAAACTCTCCCACTGCAAACTTACATCAGCTGCTGCTTTTGATCTGCTTGGTGGTTAAGACTAGCAATTCGAAAGTAGTCGTGTAAGTGTGCAATAACTACTTTTCCAACTCATCTTCTAACACGTCTTGGTTTTGGATTCCAG
Seq C2 exon
GTTACAGAAGATGGTGCAGATCCAAATCCCTACGTAAAAACATACTTATTGCCAGACACGCACAAAACATCCAAACGCAAAACCAAAATCTCCCGGAAGACGAGAAATCCAACTTTCAATGAAATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000006121:ENSGALT00000009877:32
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.297 A=NA C2=0.270
Domain overlap (PFAM):
C1:
PF0016825=C2=PU(11.2=27.0)
A:
NA
C2:
PF0016825=C2=FE(46.1=100)
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:
ATGCAAGTCCATCGAGTCCTAC
R:
CATTTCATTGAAAGTTGGATTTCTCG
Band lengths:
236-482
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]