HsaINT0124949 @ hg19
Intron Retention
Gene
ENSG00000133056 | PIK3C2B
Description
phosphoinositide-3-kinase, class 2, beta polypeptide [Source:HGNC Symbol;Acc:8972]
Coordinates
chr1:204418313-204419145:-
Coord C1 exon
chr1:204418978-204419145
Coord A exon
chr1:204418425-204418977
Coord C2 exon
chr1:204418313-204418424
Length
553 bp
Sequences
Splice sites
5' ss Seq
GCAGTATGT
5' ss Score
5.57
3' ss Seq
CCACTCTCCCTCCTTCTTAGGGT
3' ss Score
10.44
Exon sequences
Seq C1 exon
GATCTGCTTCCCAGTGCAGGTGAACCGGCTGCCTCGGGAGACACTGCTGTGTGCCACTCTCTATGCTCTGCCCATCCCCCCACCGGGGAGCTCCTCAGAGGCCAATAAGCAGCGGCGGGTGCCTGAAGCCCTGGGCTGGGTCACTACCCCACTCTTCAACTTCAGGCA
Seq A exon
GTATGTGAGCCCCAGGGTACAGCTTCTTGGCCTTGGAAGGGGAGGAGGGGGACAGAGAAAGGGGCCTGGCTGCTGCACTGGCCAGTGCGCCTTGGGAGAGTTGGCCATGTGGGGCTCACTGGTGAAGTCCAGAGGATCCCCAAGCACAGAACTGGTGACCAGGACTATTGATGTAACCAAGAGCCACTGAGCGGTTCTGGTGGCACAGGACCATGTTAAGGATACATGGAAAAGCAATGCTTGGGTAATAGATCATCTGGTCTTGTCATTGGAAGAACCTTAGAGGTCATCTAGCCCAGCCTCCCCACCTCATGAAGGCATCCCTGCCACCAGGTCATCCAGACCAGGGTGTGGTTAGCTCACAAGTCCTCTTGGAGGGCGTAAGCTTTTACAGGACTTGGGAGAAGGAAGAGGCTATGGTCCACGGTGAGAATGAGAGGGGAGTTGGATGATGGCTTCAAACAGAAAAGGCAGATTTTTGGATTGGGGGAGCAGTAGAAATATTCTCTGCTTAGCCACTTTAGCAGCTCTTCCCACTCTCCCTCCTTCTTAG
Seq C2 exon
GGTCCTGACCTGTGGCCGGAAGCTTCTGGGTTTGTGGCCAGCAACACAGGAAAATCCCAGCGCCCGTTGGAGTGCACCTAATTTCCACCAGCCAGACAGTGTCATCCTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000133056-PIK3C2B:NM_002646:14
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.088 A=NA C2=0.026
Domain overlap (PFAM):
C1:
PF0079219=PI3K_C2=FE(39.7=100)
A:
NA
C2:
PF0079219=PI3K_C2=FE(26.2=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:
GATCTGCTTCCCAGTGCAGG
R:
CTGCAGGATGACACTGTCTGG
Band lengths:
280-833
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)