RnoINT0111233 @ rn6
Intron Retention
Gene
ENSRNOG00000020479 | Pik3c2a
Description
phosphatidylinositol-4-phosphate 3-kinase, catalytic subunit type 2 alpha [Source:RGD Symbol;Acc:1310389]
Coordinates
chr1:185294489-185295640:+
Coord C1 exon
chr1:185294489-185294611
Coord A exon
chr1:185294612-185295472
Coord C2 exon
chr1:185295473-185295640
Length
861 bp
Sequences
Splice sites
5' ss Seq
ACTGTAAGT
5' ss Score
8.59
3' ss Seq
TTTTTTTTTCTGCTCCACAGAAT
3' ss Score
11.05
Exon sequences
Seq C1 exon
TTACGAAAAATACTACTTGATATGTTCCCTGTCTCACAATGGGAAGGATCTTTTTAAGCCTATTCAGTCAAAGAAGGTTGGCACATACAAGAATTTCTTCTATCTTATCAAATGGGATGAACT
Seq A exon
GTAAGTGGAGTTTTTTACTTTTATAATTTCACTTACCCTATTCTATAATTTTTCCAATGTATACATTATGTTTGCCTTTGAAATTCAGTAAATTCTTATTAATATCTTGATATCTTCTACACAAAATATACTAAGACAAATTGTAATTAACATTAAAAATGTTGAAGGTACGGGGTTGGGGATTTGGCTCAGCGGTAGAGTGCTTGCCTAGCAAGTGCAAGGCCCTGGGTTCGTTCCCCAGCTCCGAACAAAAAGAAAAAAAAAAAAAAGAAAGAAAAGAAAAAAAATGTTGAAGTACTTTAAATCTCTATATTAGATTTATATTTAAATCTTTATATTTATCTAAATTCTATAAAATTGCAATAGTGTAGTGTTACTTCTTTGTAGACTTTTGACATGTCAAAGGTAAAAATTTATATAACATTATACAGGAATCCAGATCTTAACAACCAAGCTGAATCTTAAATCTATGTTCGTGATAATATTCTTAATGTTAATTCTTTTAAATACTTTTCTTTTTAACTAAGGGAACTGCGATTATTTAAGTAAATAGCTAGTTGCAGAACTAAGGTCTAATTTTACTTTCGACTGTAATCGAACTGCCTATCTTTAAGTGCTTAGACATTTTTACCAAAAGAATTGTTTACATTTTTTAAGTTTTATACTAATAGTGAAATTTAAGATGTAATACTACAAGTTAGCCATACTTGATACTTAGCTAAAAGTTACTCAGAACTAAAGATTGTTTTATAAGTGAAATAAAACACCTAAAGTTATTGGTCTTCATTAAATGATTTCTAAGCCTTATTTTTCATCTATTATTTTCTAAACACCAACAAATTTTTTTTTTCTGCTCCACAG
Seq C2 exon
AATCATTTTCCCTATCCAGATATCGCAGTTGCCTTTAGAGTCAGTTCTTCATCTCACTTTGTTTGGAGTTTTAAATCAGAGCAGTGGAAGTTCCCCTGATTCTAATAAACAGAGAAAGGGGCCAGAAGCTCTGGGCAAAGTCTCTTTAACTCTATTTGACTTTAAACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000020479:ENSRNOT00000055120:13
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=0.175
Domain overlap (PFAM):
C1:
PF0079219=PI3K_C2=PU(29.1=97.6)
A:
NA
C2:
PF0079219=PI3K_C2=FE(39.7=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:
ACTACTTGATATGTTCCCTGTCTCAC
R:
CAAATAGAGTTAAAGAGACTTTGCCC
Band lengths:
270-1131
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]