HsaINT0124934 @ hg19
Intron Retention
Gene
ENSG00000011405 | PIK3C2A
Description
phosphoinositide-3-kinase, class 2, alpha polypeptide [Source:HGNC Symbol;Acc:8971]
Coordinates
chr11:17113094-17113615:-
Coord C1 exon
chr11:17113543-17113615
Coord A exon
chr11:17113204-17113542
Coord C2 exon
chr11:17113094-17113203
Length
339 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGA
5' ss Score
9.22
3' ss Seq
GAAAATATTTGTATTTTCAGATG
3' ss Score
7.28
Exon sequences
Seq C1 exon
TGTGATCTTGTTTGTACTTTCTTCCACCCTTTACTTCGTGATGAGAAAGCTGAAGGGATAGCTAGGTCTGCAG
Seq A exon
GTGAGATTATTTTTTTTCTCTTTATTGGTAACTCATGATCTGCAAGTCTGTAACTTCTCGATGAATGTGGTAGAATGACAGCAGGCTTACTAGCTGTAGTCTGAGAATGGGAGGAGAGTATTCTTTCTAAGCCAGTCTATTTCTGAATAAATATAACTTTCCTAATAGATGTGATTACTAAAGAAGTATAAATCAATGACCTATCAGGTTGTTTACTCCTTTTTCCCCTCCCTTCTGTCCGCACCACATGTGACAGTCTTGAAAATAAAGCAAAATCCTTTTATTGCAGCTTGAACCACTACAACCAGTAAATAAAGATGAAAATATTTGTATTTTCAG
Seq C2 exon
ATGCAGGTTCCTTCAGTCCTACTCCAGGCCAAATAGGAGGAGCTGTGAAATTATCCATCTCTTACCGAAATGGTACTCTTTTCATCATGGTGATGCATATCAAAGATCTT
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000011405-PIK3C2A:NM_002645:29
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.120 A=NA C2=0.027
Domain overlap (PFAM):
C1:
PF0078719=PX=PD(8.8=40.0)
A:
NA
C2:
PF0016825=C2=PU(11.2=27.0)
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:
TGTGATCTTGTTTGTACTTTCTTCCA
R:
AGATCTTTGATATGCATCACCATGA
Band lengths:
182-521
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- 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)