HsaINT0124965 @ hg19
Intron Retention
Gene
ENSG00000133056 | PIK3C2B
Description
phosphoinositide-3-kinase, class 2, beta polypeptide [Source:HGNC Symbol;Acc:8972]
Coordinates
chr1:204399049-204400921:-
Coord C1 exon
chr1:204400797-204400921
Coord A exon
chr1:204399167-204400796
Coord C2 exon
chr1:204399049-204399166
Length
1630 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGCT
5' ss Score
6.52
3' ss Seq
TGCCTACGCTGCCACGCCAGCTT
3' ss Score
1.92
Exon sequences
Seq C1 exon
ATATATGTGGTAAAGGTGATGCGAGAGAACACTCACGAGGCCACCTACATCCAGCGGACCTTTGAGGAGTTCCAGGAATTACACAATAAGTTGCGGCTGCTCTTCCCTTCTTCCCACTTGCCCAG
Seq A exon
GTAGCTGCCCCCTTTACTATCTGCACAGAGGGATGTCGGGGAGGGGGAAAGGATACGGGATGGGAGGTGGTCAGGGCTGCAGGGGCAGAAAATACCCTTTTGGACTAAACATCTGCCTGCTTTGCTTGGCCTGGTATGGAGTTTGATGACAAGTGCTCCCCCTGCTGGCCAAGCTCTCCTTGCACGCAAGAGCTCTCACTCCAGGCCCACTGGCCAGAAAGGAAGGCATGGTTGAATCTGATGTTTCAAAATTTCTAATTTTTTAAAGAGTTACACCATTTTTCAAATGGATAAGCAAAATGTCATATGTACATACAGTGGGATATTATTCAGCATTTAAAATGGAGGGAGATTTCGACACGGGTAACAACGTGGATGGACCTTGAGGACATTCTGCTAAGTGAAATAAGCCAGTCACAAAAAAACAAAAACGGCACGATTCCACTTATCTGAGTTACCTGGAGTAGTCAGACTCCTAGAGGCAGAAAGTAGAAAGCTAGTTGCCCAGGTCTGAGGGGAGGTAGGTGTGGTTGTTTAATGGGTACAGAGCTTCAGTTTTGCAAGATGAAAAGAGCTATGAAGTTGGATAGTGGCGATGGTTGCATGACAGTGTGAATATGGTTAATTCCACAGAACTGTACACTTAAAAATGGTTAAGATGGCAAATTTTATGTTACACATATTTTACTGCAATTTTTTTAAAAACTACTTTTCAGGCCGGGCGCAGTGGTTCACGCCTGTAATCCCAGCACTTTGGGAGGCCTAGGTGGGCAGATTGCCTGAGGTCAGGAGTTCGAGAGCAGCCTGGCCAACATGGTGAAACCCCATCTCTACTAAAAATACAAAAATTAGTGTGGTGGCATGCTTTTATAATCCCAGCTACTCAGGAGGCTGAGGCAGGAGAATCGCTTGAACCCGGGAGGCAGAGGTTGCAGTGAGCTGAGATCACGTGACTGCGCTCCAGCCTGGGCGGCAAAGCGAGACTCAGTCTCAAAACAAACAAACAACTTTTTAAATGAATTTTTTGGCCGGGTGCGGTGGCTCATGCCTGTAATCCCAGCACTTTGGCAGGCTGAGGCAGGCAGATCATGAGCTAAGGAGTTTGAGACCAGCCTGGCCAACATGGTGAAACCCCCCTCTACTAAAAATACAAAAATTAGCTGGGTGCGGTGGTGTGTGCCTGTAATCCCAGCTACTGGGGAGGCTGAGGCAGGAGAATCGCTTGAACCCGGGTGGTGGAGGTTGCAGTGAGCCGAGATTGCGCCACTGTACTCCCGCCTGGGTGACAGAGCGAGACTCCATCTCAAAAAAAAAAAAAGGATTTTTACATCGATGGGAGAAACTGAGGGCTCCCGAGCCATTTCTGGGGAGCCACAGGACTCTGGCCTGCTGTTTGGTTTTCTTGTCTGGGGCCCTTGGAAATGTAGTCATGAGATGCTGAGCAGGTGTCAGACCTGGGCACAGATGTGCAGCACAGGAGGAATTGTGAGGGTCCCTAGAAATGGAGGCTGCTGGGAAATGGGTGCTAGGGGACTGGAAACGCAAATGAAATGTGAAAAAAGCCCATTGTGTCCATTTTCTTTCCCCATCTTCACCTCCTGCATCCCCGCTGCCTACGCTGCCACGCCAG
Seq C2 exon
CTTCCCTAGTCGCTTCGTGATCGGCCGCTCCCGGGGAGAGGCGGTGGCCGAGCGGCGGAGGGAGGAGCTAAACGGTTACATCTGGCACTTGATCCACGCACCCCCTGAGGTGGCCGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000133056-PIK3C2B:NM_002646:29
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:
PF0078719=PX=FE(36.3=100)
A:
NA
C2:
PF0078719=PX=FE(34.5=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:
ATGTGGTAAAGGTGATGCGAGA
R:
CTCAGGGGGTGCGTGGATC
Band lengths:
230-1860
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)