HsaINT0124928 @ hg19
Intron Retention
Gene
ENSG00000011405 | PIK3C2A
Description
phosphoinositide-3-kinase, class 2, alpha polypeptide [Source:HGNC Symbol;Acc:8971]
Coordinates
chr11:17122825-17124378:-
Coord C1 exon
chr11:17124209-17124378
Coord A exon
chr11:17122982-17124208
Coord C2 exon
chr11:17122825-17122981
Length
1227 bp
Sequences
Splice sites
5' ss Seq
AAGGTATAA
5' ss Score
7.08
3' ss Seq
TGTACTTTCATTTTAAATAGGGA
3' ss Score
8.73
Exon sequences
Seq C1 exon
GCTTCAGAGAACTTTATCTATTCCTGTGCTGGATGCTGTGTAGCCACCTATGTTTTAGGCATCTGTGATCGACACAATGACAATATAATGCTTCGAAGCACGGGACACATGTTTCACATTGACTTTGGAAAGTTTTTGGGACATGCACAGATGTTTGGCAGCTTCAAAAG
Seq A exon
GTATAATGTTATTGCTGTTGCCAAAGAAATGAGGCACTTCCTGTTTCACAAATTAAAGTTTGTCTCAAGCTTTGTGTTTTGCCTCGCGGCTCCATTTGAACATAACTGGGAATGAAAAAGGCCCAAAGATATGACCATACCACATAGTAGACAAGAATGTGTGTAAATGTGTATAAACTTTGTTTTGTTGTTGTTGTTGTTGTTTTGTTCTTTTGGTATTTTTTTGAGACGGAGTCTTGCTGTGTCGCCCAGGCTGGAGTGCAGTGGCACGATCTCGGCTCACTGCAAGCTCCGCCTCCCGGGTTCACGCCATTCTCCTGCCTCAGCCTCCTGAGTAGCTGGGACTACAGGCGCCCGCCACCACGCCCGGCTAATTTTTTTGTATTTTTAGTAGAGACGGGGTTTCACCGTGTTAGCCAGGATGGTCTCGATCTCCTGACCAAGTGATCTACCCGCCTCGGCCTCCCAAAGTGCTGGGATTACAGGCGTGAGCCACCATGCGCAGCTAAACTTTGTTGAAATGAATTAAGGGACATATATTTTTTTTATCTACTTAGCGATAACTCTTAGAAAGAAATGATTTCGTGTGTATAACGGCAGTAAGTAGTTTTCTATGTTTGTAACTACTGTTTGATCTCTTTGGGTATGTGGATTTATAAATATCACCTTATTTTCATATGTAAGGAAATTTCATACATAAGTTCTCTCTAAATAATGAGATTATTATGTGATAGCTTTCTTGAAAAATGTTATTTTAGAGGCCGGGTGCAGTGGCTCACGCCTGTAATCCCAGCACTTTGGGAGGCCAAGGCGGGCGGATCACAAGGTCAGGAGATCGAGACCATCCTGGCTAACACGGTGAAACCCCGCCTCTACTAAAAATACAAAAAATTAGCCGGGCGTGGTGGCGGGCCCCTGTGGTCCCGGCTACTCGGGAGGCTGAGGCAGGAGAATGTCATGAACCCAGGAGGCGGAGCTTGCAGTGAGCCTAGATCGCGCCACTGCACTCCAGCCTGGGCGACAGAGCAGGACTCTGTCTCAAAAAAAAAAAAAAGAAAAAAAAAGAAAAATGTTATTTTAAAATTATGGAAATTCAAAAGTGTGTGGTATTAAGTTTCCTAGTTGGAAATGGCTGTACCTCAGATAGCTTAGTTTAATAATCATGTAATAGCACTATTGGAGTATCTTCTGTAAATAATATTTTGTATGTACTTTCATTTTAAATAG
Seq C2 exon
GGATCGGGCTCCTTTTGTGCTGACCTCTGATATGGCATATGTCATTAATGGGGGTGAAAAGCCCACCATTCGTTTTCAGTTGTTTGTGGACCTCTGCTGTCAGGCCTACAACTTGATAAGAAAGCAGACAAACCTTTTTCTTAACCTCCTTTCACTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000011405-PIK3C2A:NM_002645:23
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:
PF0045422=PI3_PI4_kinase=FE(25.9=100)
A:
NA
C2:
PF0045422=PI3_PI4_kinase=FE(24.1=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:
GCTTCAGAGAACTTTATCTATTCCTG
R:
CAGTGAAAGGAGGTTAAGAAAAAGGT
Band lengths:
327-1554
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)