RnoEX6004464 @ rn6
Exon Skipping
Gene
ENSRNOG00000020479 | Pik3c2a
Description
phosphatidylinositol-4-phosphate 3-kinase, catalytic subunit type 2 alpha [Source:RGD Symbol;Acc:1310389]
Coordinates
chr1:185211685-185252682:+
Coord C1 exon
chr1:185211685-185211770
Coord A exon
chr1:185233419-185234547
Coord C2 exon
chr1:185252579-185252682
Length
1129 bp
Sequences
Splice sites
3' ss Seq
ATGTTTATTTTTATGTATAGGTC
3' ss Score
8.45
5' ss Seq
CAGGTATAA
5' ss Score
7.46
Exon sequences
Seq C1 exon
CCAGTGGGTGTTTTGAATTGAGTGACACGAAGGAAGCATCCCTGTTTGAACAAGATTACTTAAGAAGTATTCCCAAATCTTACCAG
Seq A exon
GTCCTGGTATTTTGGAAGCCACAAGAAAAAAGATTAAGAGATTTGGTCTCTTGTGGACATGGCTCAGATTTCCAACAACAGTGAATTTAAACAGTGTTCATCTTCACATCCAGAACCAATAAGAACCAAAGATGTGGACAAAGCAGAAGCATTACAGATGGAAGCAGAAGCCTTAGCAAAATTGCAGAAGGATAGACACATGACTGACAGTCCAAGAGGCTTTGAGCTGTCTAACAGCACTAGACAAAGAACACAGGGTTTTAACAAACAGGATTATGATCTCATGGTGTTTCCTGAGTCGGATTCCCAAAAAAGAGCATTAGATATTGACGTAGAAAAGCTTACCCAAGCTGAACTTGAAAAGATATTGCTGGATGACAATTTTGAAACTAGAAAAACTCCTGCATCGCCAGTTACTCCTGTTCTGAGCCCTTCATTTTCAGCACAGCTATATCTTAGACCTGCTGTTCAAAGAAGCCAGTGGCCCCCTGGATTATGCGGGCCTTCCACATACACTTTACCTTCTATTTATCCTTCAGCATACAGTAAACAGGCCACATTCCAGAATGGCTTCAGTCCAAGGATGCCTACTTTTCCATCTACAGAGTCTATATATTTAAGACTTCCAGGACAGTCTCCATATTTTTCATATCCTTTGACACCTGCCACACCATTTCATCCACAAGGAAGTTTACCAGTCTATCGGCCACTAGTCAGTCCTGACATGGCAAAACTATTTGACAAAATAGCAAGTACCTCAGAATTTTTAAAAAATGGGAAAGCAAGGACTGATTTGGAGATAGCAAACTCGAAAGCTTCAGTCTGCAATCTACAAATATCTCCAAAGTCTGAAGACATCAATAAATTTGATTGGTTGGACTTGGATCCTCTGAGTAAGCCTAAGATAGACTGTGTGGAAGTGTTAGAACATGAAGAAGAGAAGAAGAATCCAGTTTTGCTAGCAGAGGATCCTTGGGATGCTGTTCTTCTTGAAGAGAGATCACCAACAAGTCGTCACCTAGAAAGGAAGGTGAATGGAAAATCCCTTTCTGGGGCGACTGTAACAAGAAGCCAGTCTTTAATCGTTCGGACAACTCAAGTTACAAAAGCCCAGAGCCAGGTATCTCAG
Seq C2 exon
AAAGACCCAAATGGGACCAGTAGTTTGGCAACTGGAAGTTCTCTTCTACAAGAATTTGAAGTACAGAATGAGGAGGTGGCAGCTTTTTGTCAATCCATTATGAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000020479-'3-5,'3-2,8-5=AN
Average complexity
A_C1
Mappability confidence:
100%=100=100%
Protein Impact
ORF disruption upon sequence exclusion (Ref, Alt. ATG (<=10 exons))
No structure available
Features
Disorder rate (Iupred):
C1=NA A=0.342 C2=0.257
Domain overlap (PFAM):
C1:
NA
A:
NO
C2:
NO
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCAGTGGGTGTTTTGAATTGAGTG
R:
TTCATAATGGATTGACAAAAAGCTGC
Band lengths:
190-1319
Functional annotations
There are 1 annotated functions for this event
PMID: 12719431
Encodes an experimentally validated Eukaryotic Linear Motif (ELM). Method: alanine scanning, de novo protein sequencing by mass spectrometry, electrophoretic mobility supershift assay, inhibitor, protein kinase assay, western blot. ELM ID: ELMI003240; ELM sequence: LQVSPK; Overlap: FULL
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]