RnoINT0111249 @ rn6
Intron Retention
Gene
ENSRNOG00000020479 | Pik3c2a
Description
phosphatidylinositol-4-phosphate 3-kinase, catalytic subunit type 2 alpha [Source:RGD Symbol;Acc:1310389]
Coordinates
chr1:185316976-185318841:+
Coord C1 exon
chr1:185316976-185317183
Coord A exon
chr1:185317184-185318716
Coord C2 exon
chr1:185318717-185318841
Length
1533 bp
Sequences
Splice sites
5' ss Seq
TATGTAAGT
5' ss Score
6.69
3' ss Seq
ATCATGTGATTTCTTTTCAGATT
3' ss Score
9.35
Exon sequences
Seq C1 exon
GCTGATTGAGTCAAGTTTGGGAAGCATTGCCACAAAGTTTAATTTCTTCATTCATAACCTTGCTCAGCTACGTTTTTCTGGCCTTCCTTCTAATGATGAGCCCATCCTTTCATTTTCACCAAAAACATACTCCTTTAGACAAGACGGCCGGATCAAAGAAGTCTCTGTTTTCACATATCATAAGAAATACAACCCAGATAAACACTAT
Seq A exon
GTAAGTTTGTTCAGTATGTAGATGATCGTGTATAAGGTTTCTGTTGTCCTTTGTTCATTTTTCACTGACTGCTTGAAGTTCTAAGCATTGGTTCTCTTTGTGCTTGTTGCTTCCATGAATGGTCGAAAAACAAGTAAATGTACTTAAACAACATGATTTTGATTTTTTTTTTTTGTATTGTTAAGTTTACTTAAAAATCACAAGGCCAAAATATATTCTTTCAGTGTCAAAGTATTGTTTTCTCATTCCTTCCATCTTTTCTTATTTCAAAGGTCAATCTTGCTTGCTATCATAGATTTATCAGTATAATTCAAAAAGTCAACTCCCAGCTGGGCTTGGTTATGCACATCTTAATCAGAGTACTCAGGAGACAAAAGGCAGGCACATCTCTGTGCTCAAGGCTAACCTGATCTACATACCTAGTTCCCAGGACAGCCAGGACTGCTTAAAGAGAGCCTGTGTCAAATAAATAAATAAACCAACCAACCAAATGAACGAACAAAAATGTCTGAAGCTCTCATGCCTCCTTTCCATACAGTATTTTTTCTATTTTTTGTATCAAACCCAGGGCTTACATAGCATTCATTAAATATACACATAAAGCTTGTTTTTGTTTTTCTGTGACTAGGTCTTACTATATAGCACTGGTTGCCATGGAACTCTGCATAGACCAGGCTAGCCTTAAACTCAGAGAGTCACATGTGTCTGACTTCCAAGTGCTGGGATTAAAGGGTTGTGCCAACAGGACTTGCCAAACCTTATTTTGAAACAAATAATAGGATTTGTATTGGTTTTTTTTCCACACTCTTTGAACTATTATTATTTACCCTTGTGTAGGTTTTTTTTTTTCCTCCTTTTATTTCATGCAGAAGTCAATCCCAATTTCCTAGGAATTGTAGCCATAAGCTCTATCACTGAGTTGCACCTCTCTCCTTCATGCTAATATTGTTAGATAATGTTTCTGGGTTTGTTTTGTTTTGATGTGTGATAAATAGTTTTCAGAAAGCCATTTCACTTTTTAACCGTTCTATTGAGGTTATATTGCCATTGATTTTATAATAGCTCTGGTAAGTATACTAAGTCTATACACACACATGCCTCTGGTTTACTGTGGATGTGCCTGACTCTTCTTACAGCAGTATTCAAAATATCGTAACTTAGAGTAGTTGAATTACCCAGTAAAATGTTCCCTTAACTCCTACCCCATAATTTTTTTTACCTTTTTTTCTATTTATTTTCTTAAATCCTAAACATTTTTTTTTGTTGGAAATGTACCAAGTGTATAATTTTGAGAGGTACATTATATTTAAACATGAAAACAAGTGTTGACTTTCAAGTTTTTATTCGAATCTTCCAATAGTTAAATTCAGTTTCAGAGTGCAGTGATGTGTACTGTAAATACAATGAACTGTATTCACTATGTCCTGATCATGGCATATATTACCAAGGTTAAAAGTACTTGCACTATAGATTTATATCAGGAAAGGAAATTTCATTATAATATAATGTGTCTATCATGTGATTTCTTTTCAG
Seq C2 exon
ATTTATGTGGTTCGAATTCTGAGGGAAGGACACCTTGAACCATCATTTGTATTCCGGACATTTGATGAGTTTCAGGAACTGCACAATAAGCTCAGCATTATTTTCCCACTTTGGAAGTTACCTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000020479:ENSRNOT00000055120:28
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:
PF0078719=PX=PU(17.7=28.6)
A:
NA
C2:
PF0078719=PX=FE(36.3=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:
GCTGATTGAGTCAAGTTTGGGA
R:
ACTTCCAAAGTGGGAAAATAATGCTG
Band lengths:
326-1859
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]