HsaINT0124959 @ hg19
Intron Retention
Gene
ENSG00000133056 | PIK3C2B
Description
phosphoinositide-3-kinase, class 2, beta polypeptide [Source:HGNC Symbol;Acc:8972]
Coordinates
chr1:204408063-204409449:-
Coord C1 exon
chr1:204409320-204409449
Coord A exon
chr1:204408200-204409319
Coord C2 exon
chr1:204408063-204408199
Length
1120 bp
Sequences
Splice sites
5' ss Seq
GAGGTCAGT
5' ss Score
7.7
3' ss Seq
CCCCATTTCTCCCCTCACAGGGA
3' ss Score
10.13
Exon sequences
Seq C1 exon
TGTGGGGACGACCTTCGCCAGGACATGCTAACGCTGCAGATGATTCGCATCATGAGCAAGATCTGGGTCCAGGAGGGGCTGGACATGCGCATGGTCATCTTCCGCTGCTTCTCCACCGGCCGGGGCAGAG
Seq A exon
GTCAGTTGGGAGTAGGGGTGAGGGTGGAGGAGGGGACCGCTTTGCTTATTGTCCTTCTGCCCATTGCCAACACAAACTGTGTCCTCCTCCAGGAAAGTGAAAAGGGCAAGATTATTTCATGAGAAGCTGTGGGATAGCCTTAAAAGGGAGGCATGGGAGAAGACTGTTATAAAGTAAAACAGACTTGGTGCCGTGACAGCCAAGCATATTGTGTAGACTTTGGATCCTGATTAAAACAAACCAATTGTAAGGAAATATTTTTTGGGCCAGACATGCTAGCTCATGCCTGTAATCCCAGCACTTTGTGAAGCTGAGATGGGAGAATTGCTTGAGCTCAGGAATGTTTGGGACCAACCTAGACACCTCATCTCTAATAAAAATTATAAAAAATTAGCCAGGCCTAATGGCATGTGCCTGCAGTCCCACCTCCTCGGGAGGCTGAGGCAGATGGATCGCTTGAGTCCAGGAATTTGAGGCTGCAGTAAGCCATGATGGTGCCACTGTACTTCAGACCAGGCGACAGAATGAGACCCTGTGTGAAAATATATATATAGAGAGAGAGAGAGAAGGAGAGAGACAGTTGGGGGAAGTTTGAATATAGATTGAGTTAGATTAAAGAGTGATTGTTAATTTTTTGGATGTGACAATGGCATGGTGTCTTTGTTAATTACACTTGAAATATTTATGAGTGAAATAAAGTATCTGGGATTTGCTTTAAAATACTCCAACCAAGGTGGCAGGGAGTGGAGAAATAGGGTTGTGTGATTAGCAAACAAGATTAGCAAAATGTTGACAATTTTTGAAGCTGGGTGATAGTTACATGTGAAGTCATGATACCATTCTTTTTATTCTTATATATATTTTCAAATTCCCATAGTAAAAGCTAAAAACAAAGGGAGCAGCAGCTATGAACTGGAGAGACCAAAAAGTCACAGTATGGAATAGGAAATGTGGGAATGACCTTCCTTTCTATGGTTATTCTCTTCCTGTTATTATCAGACTTAGTCCAAATGCCTTACAGCTTAATTTATAGGGAAGCATGAGCACAGTCCTTGTAGTCCTCTCCCTGCAGTCCCCTTCATTCTGGTCTGGAACGTGACCCCCATTTCTCCCCTCACAG
Seq C2 exon
GGATGGTGGAGATGATCCCTAATGCTGAGACCCTGCGTAAGATCCAGGTGGAGCATGGGGTGACCGGCTCGTTCAAGGACCGGCCCCTGGCAGACTGGCTGCAGAAACACAACCCTGGGGAGGACGAGTATGAGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000133056-PIK3C2B:NM_002646:23
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(19.9=100)
A:
NA
C2:
PF0045422=PI3_PI4_kinase=FE(20.8=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:
GGGGACGACCTTCGCCAG
R:
TCTCATACTCGTCCTCCCCAG
Band lengths:
262-1382
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)