RnoINT0111232 @ rn6
Intron Retention
Gene
ENSRNOG00000020479 | Pik3c2a
Description
phosphatidylinositol-4-phosphate 3-kinase, catalytic subunit type 2 alpha [Source:RGD Symbol;Acc:1310389]
Coordinates
chr1:185291503-185294611:+
Coord C1 exon
chr1:185291503-185291713
Coord A exon
chr1:185291714-185294488
Coord C2 exon
chr1:185294489-185294611
Length
2775 bp
Sequences
Splice sites
5' ss Seq
CAAGTAAGT
5' ss Score
10.08
3' ss Seq
GTTAAGCTTTCTTTTCTCAGTTA
3' ss Score
4.77
Exon sequences
Seq C1 exon
GCTCACTGAATCTTGAAAATCCTGTTCAAGTAAGCATGGATCACTTAACGGCAGCAATTTATGATCTTCTCAGGCTTCATACAAATTCTTGTAAGAGTTCTACAGTCTGTCCCCAAGGTAGCAGGAACATCAAGGAAGCATGGACTGCAACAGAGCAGCTCCAGTTCACCGTCTATGCCGCACACGGAATTTCCAGTAACTGGGTATCCAA
Seq A exon
GTAAGTAGCTGCTTAAAGGACATTCACAGCTTTACCCAGAAGTTACACTAACTTAGTGTTAGTAACTACTTTTATCTTTTTAGTTTAAACAAGCAATTCAAAGATCACAGGTACCCTTGTACCTGTCTGGTTTTAGCAAAATTACAGGGCTGTTTAAAATAATTGTAGTGAAAAACATCATTTTTATGACATGAAAAAAAAGAGCATGAGAGCCGGGTGTGATAGTGCACACCTTTAATCTCAGCCCTCAGGAGGCAGAGGCAGAGGCAGGCAGATCTCTGTTCAAACTCAGTCTGGTCTGCAAAACTAGTTCCAGGACAGCCAGGGCTACACAGAGAAACCCTGTCTCAAAAAACAAAACAACAACAACAAAGGAAAATATATAGTGAAACTGACAAACAAAAATGTTATTTAAAAGAATTACCTTAAAGTTGCTGAGCCTTTCTGCCTTTCTTTTACAGTCAACATAATTTGAAACAAAATGTAATCAAACTAGAATCCAGGCCCTATATCTCTTTAGTAGTTCACAGTCTACTAACTGCTGATACTTGAATTCTGCAAAAGTATATTTCTTCATACTGAAGTTTTTATAAGGTTTTTGCTTGATTTCTTTTGTTAAAATCTTTAAGACTTGGCATTTTGGTGCCAATTTTAATTTACTTTGAAATAACTAATATAAACTGAAAAGTGTAAAATTAATATTTTATTGAAATATGTTCATGATGGCCTAAAACATTCAGTAAGGGGCTGGAGAGATGGCTCAGCAGTTAGAGTCATCAGAGACTGCTCTTCCAGAGGTCCTGAGTTCAATTTCCAGCAACCACATGGTGGCTCACAACCATCTGTAAAGAGATCCGATGCCCTTTTCTGGTGCGTCTAAAGACAGCTACAGTGTACTTATATATAATAAATAAATGAATCTTTTAAAAAAAAAAACATTCAGTAAGATAAAGTCTAGTGAAGAGTTAACAAACAAAATTCTACTTGAATTGAGCTTCAATTAAATTGAATTGATTGAAATGATGGAGTGTTTTTTGTTGTTGTTTTCAAACAGGGACTCTGTGTAGTCCTGGCAATTCTGGAATTTGCTATGGAACCTTAATCTCAACAAAGCTCCACCTGCCTCTGCCTCCTAAGTACTGGATTAAAGGTGTACATCACCGGGGCTGGAGAGATGGCTCAGAGGTTAAGAGCACCGACTGCTCTTCCAGAGGTCTTGAGTTCAATTCCCAGCAACCACATGGTGGCTCACAACCATCTGTAATGGGATCCGATGCCCTTTTTCTAGTGTGTCTGAAAACGGATATAGTGTACTCATATTCATAAAATAAATAAATCTTTTTATAAAAAAAAAAAAGTGTGCACCACCATTCCTGGCTAAAACTGGTTTTGTTAAGTCATGAAGTGTTTGCTGAGCCCCATCTATAAACAGAGTTTTCAGTATTGGAAATCCAGTAACAAACAAGAGAATAATGCCTTTTATTGCCTGTTTCTTTTTGTCTGTCTTGCTATTGAAATGATTTCTCACTGTATTGCTCAGTTGGTCTCATCTTCAGAGATTGAGTGATCCTTTTTCTGAGGCCTTCTAAATAATAGGGTTACAGCTGTGTTCCAAGGTCCCAGCTAAAAACATGGCAAACAAATCGTGTTGATTTTTTTTTTTAGTTTGTGCTTTCTTTTGTTCACTGGAGTTCAGTAACAGAAGGACCCATGCATGTAGTAGGAGAGAAACAACTCCTACAAGCTGTCCTTTCACCTCCATACACACACTTTCATGGACTCAAATACAGTCTAAATAAATGTAATGAAAAGACTTTTTTCTTTTGACACAGGGTTTCTCTGTGTAGCCCTGACTGTCCACGAATTCTGTAGAGCAGTCTAGCCTACTCTCACAGAGATCCACATGCCTCTGCCTCCCAAAGGTGGGATTAAAGGCATGTACTGTCACTGCCCTGTATAACTTTAAGTTAAGTTGGTATGACATGCATTCCTTTGGTCCTAATACTTGGGAGGTGGAAATGGAAGGATAGAAGATTCCAAGAACAACCACCACTCTACTGATTCACACCAGAAGAATTTGTGGCTATGAATAGAATAATTAGCACGTAAACCTAGAAGTAAGTTAGAATAGAAACAGAATATAGTTTTATTGAGTCCAAGGTTCTTAGAAGATTGTCTTATTGTGTTTGTATGAACAGCAGTTTGGAACTAAGTCATTGCTGTTTAGTGAAAGAATGTAGCAGTACCCTGTGAGGGGTTGGCTGAATTGTTGGGCCTGTGTATTGTTAAATAATGCTTAGTCGACTATTTCAGTGGTATAGCAAAGGAAAGTAGCATCAGCATCTCCACCACTACCAAGAAGAGACCAAAAGAAACTAAGCAAACCTCAACAGAAAACAGGAGTGTAATGGAAGCAACACCAATAGAAGATACTGTTGGTACCTCCCGGGTTTTAACTAGAAATGGATAAAATAGTCTCTTATTATTTACCTGTGCTCTTAGCACAATACCCAAGACAGCTTATATTCTATGAGAATCATTATATCCCAGCACCCCCCCGCCTCAGACTGACACTTAGGGTATAGGCTTCCCTCTTTACTTCTTTTGTTACACCTCTTCTCTTTCTGTAGAATTTGCAAAGGTTAAATTTTACATGGATTTCAAAAAAAAAACCAAAAGGTGACCATTTTGTCACTTGGGAAATCTGCTAATGTACTTGTGTTAGTTAGATAATTATTACCAACCTAGAAATCAAGTTAAGCTTTCTTTTCTCAG
Seq C2 exon
TTACGAAAAATACTACTTGATATGTTCCCTGTCTCACAATGGGAAGGATCTTTTTAAGCCTATTCAGTCAAAGAAGGTTGGCACATACAAGAATTTCTTCTATCTTATCAAATGGGATGAACT
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000020479:ENSRNOT00000055120:12
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.070 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0079219=PI3K_C2=PU(0.1=0.0)
A:
NA
C2:
PF0079219=PI3K_C2=PU(29.1=97.6)
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:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]