RnoINT0111258 @ rn6
Intron Retention
Gene
ENSRNOG00000020479 | Pik3c2a
Description
phosphatidylinositol-4-phosphate 3-kinase, catalytic subunit type 2 alpha [Source:RGD Symbol;Acc:1310389]
Coordinates
chr1:185263914-185264972:+
Coord C1 exon
chr1:185263914-185264034
Coord A exon
chr1:185264035-185264860
Coord C2 exon
chr1:185264861-185264972
Length
826 bp
Sequences
Splice sites
5' ss Seq
GAAGTAAGT
5' ss Score
9.82
3' ss Seq
TAATTCATGTATTTTAACAGTAA
3' ss Score
4.85
Exon sequences
Seq C1 exon
TGAGTTCTACTGTAGACATAATTATAATGCAAGCCCTTTGCTGGGTACATGATGACTTGAATCAAGTGGATGTTGGCAGCTACATTCTGAAAGTTTGTGGTCAAGAGGAGGTTCTACAGAA
Seq A exon
GTAAGTTTAACTACTGAGTGGTATCTTTGGAAATTCACTTTTAATACCTTAAATTAGAATCTTTTTCAATTTAGATTTGTAATCTAAAAATATATTTGAATGTTAGGCATGATGTCGATGCCTTTAATCCCAGGACTTGGAAGGCAGAGGCAGGTGGATCTCTGTGAACTTGAGACCAGCCTGATCTGCATATTGAAATATAGGTTAGCCTACATAGTGAGGCCCTGTTCCTAAGTTCATTCATTCATTTATATACTTATTTTTTATATATTTATGAAATATAATAAGTATATTTTGTCATATTATTGAAACTTATGTTGAGATATGTTGTATTGAAGATAGTGGTGGGATTATAGAAATAAGGAAGACATGATATTCTCTTAAGTTTAATATCCTTATGTGTGAAAAGTTGTAGTCTATTGGTTAAAAACAGAATAAAATGCTTATTTCTAAAAGGCCAGTAATCACCTCATTTGTAGACTCCATTCTTCTTTGTAGCATGCAGCTACTGTATATACAGGAGTCAGTTGTTAACTGACTTTTATTTGTCTGCAATAATCACTGTATGAACTTCAGTAATTTGTTATACAGTTTCTCCAATTGTTTTAAAGATTGAGGCATTATACTCTTATTTGCCTCTATCGCCTTTCATATTTACTGACTCATATGGAAAAATTCCTGCTTAAATGTTTACAGTTAATTTAAAAACCGTGTTTCACCATTTTCTTTAATTTCTAATACAGATACAATTTGTAGTTTACTTTTATGTCTATAACTTGTGATTTGAATAGAATAATACCGGTGGATAATTCATGTATTTTAACAG
Seq C2 exon
TAATCATTGCCTTGGAAGTCACGAACATATTCAAAATTGTCGAAAATGGGACACAGAGATTAAATTACAACTCTTGACCTTCAGTGCAATGTGCCAGAATCTGGCTCGAACA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000020479:ENSRNOT00000055120:6
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=FE(38.5=100)
A:
NA
C2:
PF0079413=PI3K_rbd=PD(27.9=76.3)
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:
TGTAGACATAATTATAATGCAAGCCC
R:
CCAGATTCTGGCACATTGCAC
Band lengths:
215-1041
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]