HsaINT0124943 @ hg19
Intron Retention
Gene
ENSG00000011405 | PIK3C2A
Description
phosphoinositide-3-kinase, class 2, alpha polypeptide [Source:HGNC Symbol;Acc:8971]
Coordinates
chr11:17156366-17156706:-
Coord C1 exon
chr11:17156658-17156706
Coord A exon
chr11:17156577-17156657
Coord C2 exon
chr11:17156366-17156576
Length
81 bp
Sequences
Splice sites
5' ss Seq
GGGGTATGT
5' ss Score
7.48
3' ss Seq
TTTTTTTTTCTTTAATCTAGGCT
3' ss Score
10.2
Exon sequences
Seq C1 exon
GTGACTTCTTTGTTTGGAGGAGAAGACACTAGCAGGAGTTCAACTAGGG
Seq A exon
GTATGTGTTTAAATCTTTAAATTTTAGCAATAATCATCGCCTTTTCAGAGAATCTATTAACTTTTTTTTTCTTTAATCTAG
Seq C2 exon
GCTCACTTAATCCTGAAAATCCTGTTCAAGTAAGCATAAACCAATTAACTGCAGCAATTTATGATCTTCTCAGACTCCATGCAAATTCTGGTAGGAGTCCTACAGACTGTGCCCAAAGTAGCAAGAGTGTCAAGGAAGCATGGACTACAACAGAGCAGCTCCAGTTTACTATTTTTGCTGCTCATGGAATTTCAAGTAATTGGGTATCAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000011405-PIK3C2A:NM_002645:9
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.824 A=NA C2=0.127
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0079219=PI3K_C2=PU(0.1=0.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGGAGGAGAAGACACTAGCAGG
R:
TGCTTCCTTGACACTCTTGCT
Band lengths:
175-256
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)