GgaINT1021592 @ galGal4
Intron Retention
Gene
ENSGALG00000006121 | PIK3C2A
Description
phosphatidylinositol-4-phosphate 3-kinase, catalytic subunit type 2 alpha [Source:HGNC Symbol;Acc:HGNC:8971]
Coordinates
chr5:11143209-11143858:-
Coord C1 exon
chr5:11143777-11143858
Coord A exon
chr5:11143319-11143776
Coord C2 exon
chr5:11143209-11143318
Length
458 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGGT
5' ss Score
10.28
3' ss Seq
ATAATTGTGTATTTTTTCAGATG
3' ss Score
8.92
Exon sequences
Seq C1 exon
TGTGATCTTGTCTATACATTTTTCCATCCATTGCTTCGTGATGACAAAGTGGAAGGAATAGATGGAATAGCCAGATCTACAG
Seq A exon
GTAGGTCATGTCTGTGGGGCAAGAGGTGGAGTATTTATAAACTGGGTGACTATAGTATGACACTTTTAAAATGTGATTTATAAAGAATCTTTTGAAATTAACTGGAATTTTTCCTCGTTGAGAAGTGTGCACATCTTCCTTTCCAAATATGGTTGCATACAATTCCAAGGAAATAAAAAGCATGCCAAGAATTACAACAGTACATGTGATCACTGGGCTTGCTTATGGCTTAAGAAAATCATTCAAGTTTTTGTTCTGGTTTTCCAACAATCTGAACAAGAGAATGCAAAAATCATTAAAACCTATCGCCTTGCCATCTTACTGGGGAATTAGAAGTGTAAATCAGAAACCGAACTTAGTCTAAACCGTGCATTTATTTTTCTACCTGTATATAATTAGTGCAGTACTGATGAAAACGTACAGATATTCACAGAGGAAATAATTGTGTATTTTTTCAG
Seq C2 exon
ATGCAAGTCCATCGAGTCCTACCTCAGGCAAAGTGGGTGGAGAAGTGAAGCTATCCATATCATACAGAAATAGCACTCTGTTTATCATGGTGATGCACATCAAAGATCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000006121:ENSGALT00000009877:31
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.214 A=NA C2=0.297
Domain overlap (PFAM):
C1:
PF0078719=PX=PD(8.8=35.7)
A:
NA
C2:
PF0016825=C2=PU(11.2=27.0)
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:
TGTCTATACATTTTTCCATCCATTGC
R:
CAGATCTTTGATGTGCATCACCA
Band lengths:
184-642
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]