HsaINT0124935 @ hg19
Intron Retention
Gene
ENSG00000011405 | PIK3C2A
Description
phosphoinositide-3-kinase, class 2, alpha polypeptide [Source:HGNC Symbol;Acc:8971]
Coordinates
chr11:17170214-17172202:-
Coord C1 exon
chr11:17172045-17172202
Coord A exon
chr11:17170335-17172044
Coord C2 exon
chr11:17170214-17170334
Length
1710 bp
Sequences
Splice sites
5' ss Seq
ATGGTAGGT
5' ss Score
8.6
3' ss Seq
AATGACTAACTCTTTTACAGTGA
3' ss Score
6
Exon sequences
Seq C1 exon
ATTGAAGACCAAATTTCCATATACCAATCACCGCACAAACCCAGGCTATTTGTTAAGTCCAGTCACAGCACAAAGAAACATATGCGGAGAAAATGCTAGTGTGAAGGTCTCCATTGACATTGAAGGATTTCAGCTACCAGTTACTTTTACGTGTGATG
Seq A exon
GTAGGTTTATGGTTCCTCAAGCCTCTCGTTTTGCTCTGTTAGGGGGAAATGTTTAAAATATCAATATTATCATTCTTTTAATAAACCAATTTTGTTATGTGTCTTTTTGGCATTCATATGGATAGTTTTCTCGTTAGAACTAGTGGGGAATCAGGTTACCTTTATAAATAGATAATTATCTGAAAAGTGCTAAGTAACTTTTGTTAATCAGTGGCTCTTGGCCAAGGCTGAAAAGCATTAGATAGAAAAGCTAATTATAATTTAATTCTTTATTTTTCTCCTTCATTTTATGACAGGAAGCATGCTTGCTTATAAAGAGCTGTCAGTGAAATTGAAATTCCAGATATCTTGCTAAGTTCTTCTGTGGAGAAGATAATTCTCTTTTATTTTAATCCTTTCTTCCAAACTTGGTATGGGTGTCCTCTCTAGAGATGTATTCCCAAAGTCTGTAGGAAATTTTTTTTATAGTTTTAAAAACTAATTTTATTTCCTTGCAGAGTTTATTGCATTTCATAATATATATTATCTTAACGGGATTCCAACCAAGGAATGAGATCCTGTATTTCTACAGTACTTTGGCCTAAGAATTATGCTGTTTTTATTCTTTAATGGTTATGACTAGGAATGTGTCTAATATTCAGATACATTCTTTCTAGCTTTGTACTTTTGAAGGCCCTTTGAAAAAATATAAATCTGAAACAGAAAACCATTAGCTACTGTAACAATTATTCTTTTAGTTGTTAAAGGAAAAGTTTTGTGTTTTTTTGTTGTTGTTGTTGTTTTTTGAGAGAGAGTCTCACTCTGCCACCCAGGCAGGAGTGCAGTGGCATGATCTTGGCTCACTGCAGTGAGGGTGACAGAGTTAGACCCCATCTCAAAAATACAGCCTACCTGCTGTATTTTTATTTTTCATTGGAAAATATACCAGGCAAATGTCAAACATTTAAAATGGTGAATCTTTTTCTTATAATTCATTTTAAATCATTGTTTGCTAGATACTGCTAAATATCATCTGTGGGGGATTGTTTCCAGGACCCCCTTCAGATACCAAAATCCCAGGATGCTCAAATCCCTGATATAAAAGACATAGTATTATCATACAACTGATGCACATCCTCCTGTATACCTTATTTATTTTTAGTTTAATTTTTAAATTTTTAACTTGTATGGGTACATAGTAGGTATATATATATTTATGGGGTACATGTGATTTTTTTTAAAGTATCAAAGGGAAAGGGTAACGTGATGTTTTGATACAGGCATACAATGTGTAATACTCCTGTATATTTTAAATCATCTCTAGATTAGTTATAATACCTAATACAATGTAAATGCTATGTAAATATATGCTGTACTGTATTGTTTAAGGAATAATGACAAGAAAAAAAGTGTGTACATATTCAGTACAGATGCAGTTTTTTTCTTTTCAAGTATTTTTGTTCCAAGATTGGTGAATCCACAGATGCAGAACCAACATATATAGAGGGCCAACTGTATTAGGTTAAATAAAACATATTATTAAAATTAGCTTCACCTCTTTCCATTTACTTTTTTCAATGTGGCAACTAGAAAATTTAAAATTATATATGTGGCCTACATTTGTGGACTACATTATATTTCTATTGTATACTGCTGTCTTAAATTATAAGTAATACAGTCTTGAATAAATATAAATGAGCAAAGTGAAAATAATGACTAACTCTTTTACAG
Seq C2 exon
TGAGTTCTACTGTAGAAATCATTATAATGCAAGCCCTTTGCTGGGTACATGATGACTTGAATCAAGTAGATGTTGGCAGCTATGTTCTAAAAGTTTGTGGTCAAGAGGAAGTGCTGCAGAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000011405-PIK3C2A:NM_002645:3
Average complexity
IR-S
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=PU(32.7=63.0)
A:
NA
C2:
PF0079413=PI3K_rbd=FE(38.5=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATTGAAGACCAAATTTCCATATACCA
R:
TCTGCAGCACTTCCTCTTGAC
Band lengths:
278-1988
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Genotype-Tissue Expression Project (GTEx)
- Autistic and control brains
- Pre-implantation embryo development
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)