HsaINT0122538 @ hg19
Intron Retention
Gene
ENSG00000004799 | PDK4
Description
pyruvate dehydrogenase kinase, isozyme 4 [Source:HGNC Symbol;Acc:8812]
Coordinates
chr7:95212809-95216435:-
Coord C1 exon
chr7:95216322-95216435
Coord A exon
chr7:95215094-95216321
Coord C2 exon
chr7:95212809-95215093
Length
1228 bp
Sequences
Splice sites
5' ss Seq
AAGGTATCC
5' ss Score
8.33
3' ss Seq
TTTCCCCCCTTTTCTTTTAGGCT
3' ss Score
12.83
Exon sequences
Seq C1 exon
GCTGGTTTTGGTTACGGCTTGCCAATTTCTCGTCTGTATGCAAAGTACTTTCAAGGAGATCTGAATCTCTACTCTTTATCAGGATATGGAACAGATGCTATCATCTACTTAAAG
Seq A exon
GTATCCCTTGAATTCAATAGCAAAATCCTGTTTCTAAAACCATTGCTCCTTTTATAGCCTTGAGTGCTATGGTCTGGAGTGAATTCCCCAAACTGAGTTAATGCAAATAATGACTACAGGTCATTCATTCTCTTCTCTTTCTGGGTGTGTGTACATTATTTAATATGATAACTTACCAAAGAGGAAGCTGGGCCATACTACCTGCCTCAAGTGAAGCAAAATTGTTTCCTAAGAAGGTTAATACATTACCAAAGTTTCAGAATGAGGACATGTTCATGTGAATTTTTTAAGGCAACTCCTTTTGGCATCTATGAGAGTAGCTGTGCTTTTATTTTACTTAGATTTGTGGGAAATATATGCTAATAATGTTCCAGCCTGAAAAAATAACAGGTATCAAGATACTCAAGTCCTTAAGCTGACCTTGTTAGAAATCCTGGGAAAGGAAAGCTGACTGTTCCAAAGCTGTCAGTGGGGTGCCAGACATTCACTGTTTGAACTTAAAAACTTGGTGCATGTTGGCTGGGCACAGTGGCTCACGCTTGTAATCCCAGCACTTTGGGAGGCCGAGGCAGGTGGATCACAAGTTCAGTGGTTCTAGACCAGCCTGGCCAACACAGTGAAACCCCGTCTCTACTAAAAATACAAAAATTAGCTGGGTGTGGTGGCGGGTGCCTGTAACCCCAGCTACTTGGGAGGCTGAGGCAAGAGAATTGCTTGAACCCGGGAGGCAGAGGTTGCAGTGAGCTGAGATCGTGCCCCTGCACTCCAGCTTGGGCAACAGAGCTAGACTCCGTCTCAAAAAAAAAAAAAAAAAACCTTGGTGCATATTTTCCTGTTTCTGGTAAAGCCTCAATTTCTTTGTTAAGATCACTGTCTTGATTCTGTTCATTTGCTGACTATTTCAACTGAAAATATAGATATTAGCAACTAAAACATTAAACTTTCAGGCTCCCATTTTTTGCACTGGAATTACTTGCCAAATGGCCTTTTCACCATCTGAAATAGTTAATGTATTCACTTCTTAAATGAGCAAAAGTCTTCAAACTATTAAGAAAGAGCCATAGACTGAGTGCAGGCACCAGTGTGCTCTTATTACTGTGTCAATTAAATGAATGTATTTGAATGTTTGGATACTTACCTCTGAATGTATTTTGAGTAATAACTTCAAGTGCAAATTATGCCATGCATAATTTCTTTGGTCTCATGTTTTTCCCCCCTTTTCTTTTAG
Seq C2 exon
GCTTTGTCTTCTGAGTCTATAGAAAAACTTCCAGTTTTTAACAAGTCAGCCTTCAAACATTATCAGATGAGCTCTGAGGCTGATGACTGGTGTATCCCAAGCAGGGAACCAAAGAACCTGGCAAAAGAAGTGGCCATGTGAAGAGGGACACTCAGGACACTTTACGGGATCAAAGTGGGTCTACACCAGTGCTGCTTCCTGAATGTTTGTGTGTGAACCCTTGTTTCCTCCAAAACAAACGACAGCAACGAAAACTCCTTAATCAGAACACTGATCCAATGAGGAATGGAGCTTGTTTCTGTGACCCAGGAGAACTTAGTGCAAGACTACAGGAGTTAACAGATGGCCAGCTCCTTATTTTTTAATGTAGAATAACTCCTGAGTTTATATCAAATCCTGAAGAAATAAGCCTCAGTTTTCCATCTGTTTTTGATAAGAATAAGAAAGGGAGTGAGTGTGAAGATGGTGGTTAGCAGTTTCACTAAGACTGATATTTTAGGCCTCTTGTTCACATCAAAAGATATTGGTGTCAGAATACCAGCATTTTCCTGCCATGCAAAGGATTAAAACTTAGTTTACACTATGTGGTTACAAATATATGTCAATGTACATTTTGAACATATTTATGTGCTATGGAAGGAAATGCTGGTGACTAAAATAAGGTTTACTCTGAAAGAGGAGGAATTTTATTCAAAGCATTCAAACATTTTATTCAAGTGTTTCAAAATTCAAAGCATTGTATTCAAAGTTGCAGTGAAGGCATCAACTTATGTAAAAACTCAGAAGGAAGGCTCCTCTGATAAAAACACAGCTCCTTTATTATGCTGCTTTTCTTGTTCACTTTACACACTAAGTAAACACTTATTGTCAGGTGCCTAGTCTTGAGTGAATTGTTAGATGTGCACTGAACTCGGGATGTTGGGGATTGGAGAGAGAGAATTGCCAAAGTAACAGCAAAAATATCTCTTACTTTGCTTTGTTTATAAATAAATTAGTAGATTGGAAAAACTAGTGTTAGGGAAAGAAATCACATGTTCAGAGCCTAATTCAGTAGGAAGGGCTTTTCTCTACCCTGAAATGAAGGTAATCCAAAGGCATCCATTTTCTAGGCTTAAAAGATATATTTTTGATATATTTAATTATATTCTCTACACTCCAGCATTAATATGTCTGTTTAAAAATTACTAATTCTCAAATGGCTCAAGAACATTAGAATTTAAGTACCTTTTAGAGTAATTATTTTAAGCAAATAGCCTGGACGTAAGAGATTCTCATGCCAGCATGCTTTCATTTGTCAGTTGTTGTGACTGAGAGATAATGAATGACACCTGAAATGCATATGGTATTTTTGGGAGAGTTAAGGTATAATTTGAAGGTTGGCAGACCAGTTGCGCTGATTACTCTTAGAGAAGAAGAAATGGAAAAATGAAAGAAGGCAGGAAGGAAAGAAAGGATATAGGAAGAGAGGGAAGCAGAAGGCAGGCATTTTTCTATTTTCCCCACAAATTATTTCAAAAAAAATCTGTATTTTCTGGGATATGTCATTGGCAAGAGGAAGAACTGGTGTTTTGAAAGCAGTATGGATTCTTTAAATGCCTCTCACTCTTACAAGATAGTAGGCTTTGAGATAATAAACTTACCCGTGTCAATTAACATTTAAACTGGCATATAGAAAAAAAGGAGGATTTTTCTGCATTGTAAAATAATCAGTATGGTTTATATGTTGAATTTGACATTTGTGTGTAATTTCATGGTGGCCTAGTGTTGTGGTGCTTCTGGTAATGGTAATAGAAGCTCAACTATTTTTTTGTGGATTTCAGTTTTTATCATCAGAAGTCCTAGACAGTGACATTTCTTAATGGTGGGAGTCCAGCTCATGCATTTCTGATTATACAAAACAGTTTGCAGTAGGTTATTTGTCATTTCAGTTTTTTACTGAAATTTGAGCTAAACATTTTTACATGTAAATACTTGTATTTACCAAAGATTTAAATCAGTTGATTAATTAATTAACTCAAATACTGTGAACTATCTCTAAAACACTAGAAAAAAGAAATGTTAGTATCTCAATTACACCAACTGTGCAAATGAACTTTGATAAAATAGAAATAATCTACATTGGCCTTTGTGAAATCTGGGGAAGAGCTTTAGGATTCTAGTAGATGGATACTGAATACTCAGGCCCACTTAAATTATTAATGTATACATTGTGTTTTTGTCTTTATGCTATGTACAGAGAAATGTGATAATTTTTTATAATAAATATTTTTTATGATGATAAAAGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000004799-PDK4:NM_002612:10
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0251821=HATPase_c=FE(29.6=100)
A:
NA
C2:
PF0251821=HATPase_c=PD(0.8=2.1)
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:
GGCTTGCCAATTTCTCGTCTG
R:
AGGAGTTTTCGTTGCTGTCGT
Band lengths:
358-1586
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)