RnoINT0111241 @ rn6
Intron Retention
Gene
ENSRNOG00000020479 | Pik3c2a
Description
phosphatidylinositol-4-phosphate 3-kinase, catalytic subunit type 2 alpha [Source:RGD Symbol;Acc:1310389]
Coordinates
chr1:185304319-185306508:+
Coord C1 exon
chr1:185304319-185304499
Coord A exon
chr1:185304500-185306403
Coord C2 exon
chr1:185306404-185306508
Length
1904 bp
Sequences
Splice sites
5' ss Seq
CAGGTATGT
5' ss Score
9.8
3' ss Seq
AGAGGCAATCTCTTCCATAGGTG
3' ss Score
6.52
Exon sequences
Seq C1 exon
GCTTCTCAAGGATGCTTTGCACGATACACGGTTTGGAAGCAGATATGAACATGTGTTGGGTGCTCTCCTCTCTGTAGGAGGAAAAGGACTCAGAGAAGAGCTTTCTAAGCAGATGAAACTTGTACAGCTTTTAGGAGGAGTGGCAGAAAAAGTAAGGCAGGCTAGTGGATCAGCCAGACAG
Seq A exon
GTATGTACCCATGAAAGAGAACACAAGTATTCTTTTGGGGGAACAGGGGGTTGGGGAGGAGATCTCTATATACCCAGGAAGGCTGGCCCCTATATCTTCTTGCCTCAGCCTCTTCAGTGCCCGGATTGTAGATGCTTGCCACTTTACTTGGGCAGTTGGTATTTTTTTTAACTTAATGTTTTTATTGATTATTTGAAAATTTCACATAATTCACCCTGATCCCATTCATTTCCCAGTCCTCCTAGGTCCACCTCAACTCTTATACCTCCCCCAAAACATAAGAAGGAAAACCAAACAAAAACTCAAGCCCAATTCGTATTGCCCATATATTCACTGGAGCATGGCCAAACTCCCAGTGGCCAGCCCTTTAAAGAAAACTGATTCCATCTCCTACGCCAACCCCTCCAGAAGCCAGCAACTGGAAGAGCCTATACTTCAGCAGCCTTATCACAATTTTTAAGAGTTCTCTTCTCACTTGGGCAGTTGAAATTTTAATAAGAACTATGTCGAATCTATAAATCAATTTGGAAATACTGCGATTATAGTAATGTGTATGTGCTCATCTGTCTGTCTGTCTATCTATCTAATTAGGGATTTTTGTTTTTTGGTTTTTTGAAACAGGGTCTCCCTATAATCCCTGACTGTCCTTGAACTCACTATGTTGACCAGGCTAATCTCAAAATCACAAAATCTTCCTGCTTCTGCCTCCCAATGCCGAGTTAAAGGTGTATACCACTACACTCAGCCATAATAATGTATCTTAATTCTTGAACTCAGCTTGTCTTGTGTCATGAACACAAGATAGGACGTCTATTTAGATAAACTTAGATTCTTTCAAAAATTGTTCTAGTTTTTGTTTTGTGTTTTGAAAATGGCTCTTTTCACTTTATCTTGGAGAAGTCTTGTCAGCACAGTTACACTTCACATTCAGTAAGTACATAATATTACGAAGTATTTAGAACATGATTTCTGACCTCCATGGACATTGTTCATATTTTTGTGCTTTCTTGTGTAATGTTGCTGTGAACATTACTGCACATCTCTACCCATCCCGCAGCATTTCTTATTTCCTTCTTATGATGTTTTGAAAGGATGATACCATCCTTACTGTGTTGCCTAGGCTGGTCTCAGACTCTCTTAAGTTATCTCAAAATCCTGTCTCAATCTCCCTAGTAGCTCACTCTGTAGATGCATGTCACTGATTTAGGTATGCTTTTCTTTCTTTATGGGATATTCCTATGGACAAAATAGTCAAGTTAAGAACTATACACATTTTAACTATAGTGACTTCTGTTAGAATCTTATTTTCTCTAAAAAGCAACCCCTGCCTGGGCATGATGACACACGCCTTTAATCCCAGCTCTTGAGAGAGGAAGGCAGATCTCTGTGAGTTCCAGGCCAACCAGGGTGATAGAGACCCCATGCCCATGACCCCAAACCCTGTGTATATGGGTGTTACTAATTGGATTTAGTGGGTTATATAGGAAAAAAAAAAGAGAGTTTGTGATGTTGGGAGGTAGATGTATTAGGGGATGTAGAAGGAGGTGTGGATATGAGCAAAAAACATTGTATATACATAGAAGAAATTTTCAAAGAACAATCTTCAGTGCTAGAAGATGACATTGTCAGTAAAGTACTTGCAGCACAAGCTTGAATTTAGAGTCTCAGTACCCACATAAAAAGACTGGAAGCAAAGACAAGAAAGGATCCCTAGGGCTCACTGGCAAGGTAGCTTAGCTAACCAGTCCTTTGATGAGAAACTGTCCAGAAAGATAGTGATTACAAAAGACACCAAGCATTAACCTGTGGCCTCCATGAGTGTGTGTGTGCATTCACATGAACATACTCAAAATGAATAGATCTTCATTTTCATGATGCACTTACAGAGGCAATCTCTTCCATAG
Seq C2 exon
GTGGTCCTCCAGAAGAGTATGGAACGAGTACAGTCCTTTTTTCTGAGAAATAAATGCCGGGTTCCTCTCAAACCAAGTCTAGTAGCGAAAGAATTAAATATTAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000020479:ENSRNOT00000055120:20
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:
PF0061315=PI3Ka=PD(18.5=55.7)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCTTCTCAAGGATGCTTTGCAC
R:
TTAATTCTTTCGCTACTAGACTTGGT
Band lengths:
278-2182
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]