HsaINT0122522 @ hg19
Intron Retention
Gene
ENSG00000005882 | PDK2
Description
pyruvate dehydrogenase kinase, isozyme 2 [Source:HGNC Symbol;Acc:8810]
Coordinates
chr17:48184158-48184517:+
Coord C1 exon
chr17:48184158-48184247
Coord A exon
chr17:48184248-48184439
Coord C2 exon
chr17:48184440-48184517
Length
192 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGC
5' ss Score
9.6
3' ss Seq
ATGACCCCATCTTCTCTCAGATG
3' ss Score
9.43
Exon sequences
Seq C1 exon
CCCTCATCTTTGATGGCAGCACCAACCCAGCCCATCCCAAACACATCGGCAGCATCGACCCCAACTGCAACGTCTCTGAGGTGGTCAAAG
Seq A exon
GTGAGCCATTCCCACGGTGCCTGGCCCGCAGAGAAGCCCCGGGGACCCCTCCAAGCTTACCTGGCCAGAGGGTGACTCGTTCCTCAGTAAGGGGTGCCATGGATTTAATGCTGGTGGTCCCCAGTATCAATGTCAGGAGGACTGCCTGCTGGGTGGGCCACCCATGCCCTGAATGACCCCATCTTCTCTCAG
Seq C2 exon
ATGCCTACGACATGGCTAAGCTCCTGTGTGACAAGTATTACATGGCCTCACCTGACCTGGAGATCCAGGAGATCAATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000005882-PDK2:NM_002611:5
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.154 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF104364=BCDHK_Adom3=PD(15.5=64.5)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCCTCATCTTTGATGGCAGCA
R:
GGATCTCCAGGTCAGGTGAGG
Band lengths:
156-348
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)