RnoINT0111254 @ rn6
Intron Retention
Gene
ENSRNOG00000020479 | Pik3c2a
Description
phosphatidylinositol-4-phosphate 3-kinase, catalytic subunit type 2 alpha [Source:RGD Symbol;Acc:1310389]
Coordinates
chr1:185321065-185321379:+
Coord C1 exon
chr1:185321065-185321174
Coord A exon
chr1:185321175-185321253
Coord C2 exon
chr1:185321254-185321379
Length
79 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGT
5' ss Score
10.1
3' ss Seq
GAGACTGCTTTTCTTTATAGGTG
3' ss Score
8.85
Exon sequences
Seq C1 exon
GTACAAGTCCCTTCAGCCCTACTTTGGGCCAAATAGGAGGAGCAGTGAAGTTATCGGTTTCTTACCGAAATGGCACCCTCTTCATCATGGTGATGCACATCAAAGATCTG
Seq A exon
GTGAGTGGTGACAAATGATAACTGTAAATTTGTGCCCCGGTAGGAAGCACTACTGTTAAGAGACTGCTTTTCTTTATAG
Seq C2 exon
GTGACTGAAGATGGGGCTGACCCAAATCCATACGTCAAAACATACCTGCTTCCAGATACCCACAAAACGTCAAAACGTAAAACCAAAATTTCACGTAAAACTAGGAACCCAACATTCAATGAAATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000020479:ENSRNOT00000055120:32
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.014 A=NA C2=0.202
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:
ACAAGTCCCTTCAGCCCTACT
R:
TGTGGGTATCTGGAAGCAGGT
Band lengths:
172-251
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]