DreINT0114212 @ danRer10
Intron Retention
Gene
ENSDARG00000060841 | pik3c2a
Description
phosphatidylinositol-4-phosphate 3-kinase, catalytic subunit type 2 alpha [Source:ZFIN;Acc:ZDB-GENE-030328-39]
Coordinates
chr18:27052606-27052916:+
Coord C1 exon
chr18:27052606-27052717
Coord A exon
chr18:27052718-27052836
Coord C2 exon
chr18:27052837-27052916
Length
119 bp
Sequences
Splice sites
5' ss Seq
ACTGTAAGA
5' ss Score
4.8
3' ss Seq
CTTTGGATGCTTGTTAACAGGCA
3' ss Score
5.8
Exon sequences
Seq C1 exon
TAAACACAGTCTAGGCAGTCATGAGTACGTGCAGAACTGCAGGAAGTGGGAATCAGAGATCAAACTACAGCTCCTGTTTCTTAGCACAATGAGAAGAGATCTGGCCCGAACT
Seq A exon
GTAAGACACTTAATAAAGGCTAAAAGAAATAGATAGAATCTGGTTGTTCACTGCACTACACTACCATCACTGTTATAAAAATAATGAAGATTCTTTTTTCTTTGGATGCTTGTTAACAG
Seq C2 exon
GCAGAAGATGACATCTCGCCCATTGATTTGGAGAAATACCTTGGTCTAGTGGAGAGGCCATTTAAAGAGGCAGTCACAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000060841:ENSDART00000133547:6
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:
PF0079413=PI3K_rbd=PD(30.9=76.3)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACACAGTCTAGGCAGTCATGAGT
R:
GTGACTGCCTCTTTAAATGGCCT
Band lengths:
186-305
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]