HsaINT0122540 @ hg19
Intron Retention
Gene
ENSG00000004799 | PDK4
Description
pyruvate dehydrogenase kinase, isozyme 4 [Source:HGNC Symbol;Acc:8812]
Coordinates
chr7:95222072-95223082:-
Coord C1 exon
chr7:95223011-95223082
Coord A exon
chr7:95222257-95223010
Coord C2 exon
chr7:95222072-95222256
Length
754 bp
Sequences
Splice sites
5' ss Seq
AGAGTAAGC
5' ss Score
6.31
3' ss Seq
CCATAAATATTGTGGCTTAGCTT
3' ss Score
2.68
Exon sequences
Seq C1 exon
GTATATACAGAGCCTGATGGATTTGGTGGAATTCCATGAGAAAAGCCCAGATGACCAGAAAGCATTATCAGA
Seq A exon
GTAAGCTCTATGCATTAGAATAAGTGTTTAAAACTTTGGTTCTTTCCAGATAGATTCCTAAGATATTTTTAGACCTAAATTAAAGGAATTCAGCTCTGAATAATAAATCACTACCCTCTTACACATGACAAGTTTTGGCTTGTTGGTTTTTCAGAAGCGAAGAAATATGGCATTGAAAATGATGCTGAGTGTGAAGAAATGTAGAGGACTCATTTTTGATCCCCCAGGGAGACCTATTTTTACTATAAATTTACTCCAATAATGAGATGTGTAGGAGGATTTACCATTACATAGTTTTAATACATTTCAGCGTCATTGGAGACTAAACATTTTCTTTCAGAGTAACTGATAGTTTCTAGCTACCTAAATAAGGATCTTTTCTAAATCTGACAAGAAATTTTGAAAGTTTTTTCACAATGGCATTCTAGAGTCATCTCTAGAATGATGATATTAGATATTAATCATTATTTTATAAAGAGAAGACTTAATGAATACATCTGATGAATGCATTGGTTATAAGGCTAATAGTTTTACATATAAGCTAGAAACAAAATGAGTCTGTTTGTGAAATTATCTCCTCTACTCTAGTGGAAGAATCTGTAGTGAGATTACTAATAAAGGACTAATGTTTTATCATTTGATTTGTTCAGATGGGTAATGCAAAAAAAACTTTAGCCTTCTGTGAAGTAACCTTAGGAGTATAAGTGAATGAAACGTATTTGAACTTTTACTAACCATAAATATTGTGGCTTAG
Seq C2 exon
CTTTGTAGATACACTCATCAAAGTTCGAAATAGACACCATAATGTAGTCCCTACAATGGCACAAGGAATCATAGAGTATAAAGATGCCTGTACAGTTGACCCAGTCACCAATCAAAATCTTCAATATTTCTTGGATCGATTTTACATGAACCGTATTTCTACTCGGATGCTGATGAACCAGCACA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000004799-PDK4:NM_002612:3
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(14.6=100),PF0160215=Adaptin_N=FE(27.0=100)
A:
NA
C2:
PF104364=BCDHK_Adom3=FE(37.8=100),PF0160215=Adaptin_N=PD(43.8=61.9)
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:
CAGAGCCTGATGGATTTGGTGG
R:
CTGGTTCATCAGCATCCGAGT
Band lengths:
246-1000
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)