HsaINT0122546 @ hg19
Intron Retention
Gene
ENSG00000004799 | PDK4
Description
pyruvate dehydrogenase kinase, isozyme 4 [Source:HGNC Symbol;Acc:8812]
Coordinates
chr7:95216322-95216840:-
Coord C1 exon
chr7:95216730-95216840
Coord A exon
chr7:95216436-95216729
Coord C2 exon
chr7:95216322-95216435
Length
294 bp
Sequences
Splice sites
5' ss Seq
TTGGTAAGA
5' ss Score
8.85
3' ss Seq
ATAACGTCTCTCTTCTCTAGGCT
3' ss Score
10.68
Exon sequences
Seq C1 exon
ATTTCAGACAGAGGAGGTGGTGTTCCCCTGAGAATTATTGACCGCCTCTTTAGTTATACATACTCCACTGCACCAACGCCTGTGATGGATAATTCCCGGAATGCTCCTTTG
Seq A exon
GTAAGAACAATTATATGGCTAAATTAATCTCAGCCACCTAGTTCTAAATGTAGAGCAAGGATTGCAAGGGATTATTTAGACAAGTTCATCAATTAAGTAAAATTAGACATGAAGGATATAAGAATGAATGATAAAGCAAGCTAAAAATGGTGAAACAAGGGATGTCTGATTGGAAGTAGAAGATATTTATTTAGGTTCTAGGACATTAGTATCAGTGAGGACAGTAATTTCCTGCTTGTTTGTATTTCAGTGATCACATACACTTCTTTACCTGATAACGTCTCTCTTCTCTAG
Seq C2 exon
GCTGGTTTTGGTTACGGCTTGCCAATTTCTCGTCTGTATGCAAAGTACTTTCAAGGAGATCTGAATCTCTACTCTTTATCAGGATATGGAACAGATGCTATCATCTACTTAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000004799-PDK4:NM_002612:9
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:
PF0251821=HATPase_c=FE(28.8=100)
A:
NA
C2:
PF0251821=HATPase_c=FE(29.6=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTCAGACAGAGGAGGTGGTGT
R:
TGATAGCATCTGTTCCATATCCTGA
Band lengths:
212-506
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)