RnoINT0111242 @ rn6
Intron Retention
Gene
ENSRNOG00000020479 | Pik3c2a
Description
phosphatidylinositol-4-phosphate 3-kinase, catalytic subunit type 2 alpha [Source:RGD Symbol;Acc:1310389]
Coordinates
chr1:185306404-185307538:+
Coord C1 exon
chr1:185306404-185306508
Coord A exon
chr1:185306509-185307445
Coord C2 exon
chr1:185307446-185307538
Length
937 bp
Sequences
Splice sites
5' ss Seq
AAGGTAACA
5' ss Score
8.92
3' ss Seq
GTTCAGTGTTGTGTTTGCAGTCA
3' ss Score
4.72
Exon sequences
Seq C1 exon
GTGGTCCTCCAGAAGAGTATGGAACGAGTACAGTCCTTTTTTCTGAGAAATAAATGCCGGGTTCCTCTCAAACCAAGTCTAGTAGCGAAAGAATTAAATATTAAG
Seq A exon
GTAACACAATACTCTTTAAGTTTATATATACTTCAAAATAATGCACAAACATACAAGTATAAATGAGATGTGTAGTTTGTAAGTGCATAGGAAAGGGTGTCGTTAGATGTATTTTTTAGCATATTTTTACCTAATCAATATTCTTTAAAGACATAGTGTCAGACTTTTTTTTTTTTTTTTACTATTTTGGGTTTTGTTTGTATTCTTAAATTAGGGGTCTTACATTAGCTTTTTGGTAAATTTTATCTTAAGGTGAGATTTTTGTAGAGCATTTGTCTATATGTGCAAAGCCCTATATGTCCAATCCCCAGTCCCACAAAAAATTAGGTAAAATGTGATTTGATCTTTTCTGTAGTTGTTATTTGATGGCATAAATCATGAATCTCACCATACATACGTGAAAGTGGAGCTGTTCCAGATCAGGATGGGAATCACACAGCTGTGTGCTTTGTTGAGAGATTCAGATACTTTAAAGTTCAGGTGATTAAAATTTTTTGCGGGCTGGAGAGATGGCTCAGTGGTTAAGAGCACTGACTGCTCTTCCAGAAGTCCTGAGTTCAATTCCCAGCAACCACATGGTGGCTCACAACCATCTGTAAAGAGATCCGATGCCCTCTGGTGTGTCTGAAGACAGCTGCAGTGTACCTATATATAATAAATGAATAAATCTTTAAAAAAAATTTTTTTTGCACCAGATTTTTAAATTTTTGTCATTTCTGCCTTTTTTAGTGAAGGTATTTTACTGCTATATGCTATGTTTAAATTTTAAGAGATATTTACATATATTATTGGCGGATCATGTAAACGCTAGTTAACAACCATTGTATGATTTGCTGTAATTCAGAGCAGATAAAAAGGAAAACATGAGGGACTATACATTCATAATTCACTTTTATGCTAGTGTTAACCTTTCTAACGTTCAGTGTTGTGTTTGCAG
Seq C2 exon
TCATGCTCATTCTTCAGTTCGAATGCCATGCCTCTGAAAGTCACAATGGTGAATGCTGATCCTCTGGGAGAAGAAATTAATGTCATGTTTAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000020479:ENSRNOT00000055120:21
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:
NO
A:
NA
C2:
PF0045422=PI3_PI4_kinase=PU(2.8=19.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Cow
(bosTau6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTGGTCCTCCAGAAGAGTATGGA
R:
TGACATTAATTTCTTCTCCCAGAGGA
Band lengths:
190-1127
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]