HsaINT0122539 @ hg19
Intron Retention
Gene
ENSG00000004799 | PDK4
Description
pyruvate dehydrogenase kinase, isozyme 4 [Source:HGNC Symbol;Acc:8812]
Coordinates
chr7:95223011-95224476:-
Coord C1 exon
chr7:95224335-95224476
Coord A exon
chr7:95223083-95224334
Coord C2 exon
chr7:95223011-95223082
Length
1252 bp
Sequences
Splice sites
5' ss Seq
CTGGTAAGT
5' ss Score
10.65
3' ss Seq
GCATACCTGTTTCTTTACAGGTA
3' ss Score
10.41
Exon sequences
Seq C1 exon
GTTCAGAAAATGCATGTGAAAGAACTTCTTTTGCATTTTTGCGACAAGAATTGCCTGTGAGACTCGCCAACATTCTGAAGGAAATTGATATCCTCCCGACCCAATTAGTAAATACCTCTTCAGTGCAATTGGTTAAAAGCTG
Seq A exon
GTAAGTGGTGAACCATATTGAAGTCTCTAGTTTTGAAACAGTTACCCGGGTATGAATTCTTATACTATGTTAACATCATAATTGGAAAACAGGTGATCTGAATGGTAACTACTTTTGAAAGATGTAAGAATTTTAAAATTAATTTAGGGTAAGTTATCATTAGAGAAGTTATAAAACTATAAACAGACATTTTTACCCTGAAAAAGTAGATTACTTTATAATAAAATTTTGAGTTCTAGGAAAAATTTGAAAAAAATTGGCATGCAATTTTAATTTTCAATTATAGAAGAGCACTTTCAATAATAAAAGAGTTTGATATTGCAAAAGAAATCCTATGCCTAGAAACCAATTCACATGACTGCTATTTAGGGAAGGCCTAATCTTTGTAACTTACAAAGTGATTGACAGAGTGGGCTCTGGGTTCAAATCCTGCCTCTGTCACTTCTAGTTGTGGAATCCTTGGCAAGTGTCTTAAACTCTTTATGCCATTGAGTTATTATTCCCATCTGTTATTAAAGAGATTAAAGTATATGCCTCAGAGGGATGTTTGAGTGTAATGAAATGAGATAATCCATAAAAAAGAAAAAAAAAACCACTTAGGACAGCACTTGGCACACAGCCAGCAGTCAGTAAGTGTCAGTTGTTGTCATCTCATTTTATAAATGAAGATACTGATGCTTAGAGAAGGTAGGTAACCCAAAACAGCAAATTTTTGGGTCACAGAAGCAGGATATGCACAGGTAGCAGACATGCATGAGACCCTTATCTTAATCCACTGACTGCACAGCCTTTTGTTCATTGATTCAAGAAATACATGTATTATATACCTATAAGACAATTACAATCTAAAACATATATTCAATCTGTAGTATTTACTATTGCAGTCAAGACTTACACTCTTCTATGAATGAATGTAGTAGAAAAAAAATAAAAAGCTTTAAAAAAAGTTGTTTCTAAGTATTATTGCTAGAAGAAATGAAAATATTTGCCAAACAAAACAGTCAGGAAACTGAATACTGACCTGAAATAGTTAAAGAAACATTTTGCGTTAAATTTTAAGTTTGAAAGTCAAGGATTAAAAGTTATAGCATTTTAAATTTATATTATTTTCCAAATGTTCTGGAGGAAAGTTTTAAGTTTGAACATAATGCTTACTTTCTCTTTTCAAATTATTTGAAAAAGCTATTCTATTTTCAGCCATTTGTATCTGACTATTAATTTTAAAACTTAAAGCATACCTGTTTCTTTACAG
Seq C2 exon
GTATATACAGAGCCTGATGGATTTGGTGGAATTCCATGAGAAAAGCCCAGATGACCAGAAAGCATTATCAGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000004799-PDK4:NM_002612:2
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:
PF104364=BCDHK_Adom3=FE(28.7=100),PF0160215=Adaptin_N=PU(28.1=52.1)
A:
NA
C2:
PF104364=BCDHK_Adom3=FE(14.6=100),PF0160215=Adaptin_N=FE(27.0=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:
GTTCAGAAAATGCATGTGAAAGAACT
R:
TCTGATAATGCTTTCTGGTCATCTGG
Band lengths:
214-1466
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)