DreINT0112060 @ danRer10
Intron Retention
Gene
ENSDARG00000054848 | pdk4
Description
pyruvate dehydrogenase kinase, isozyme 4 [Source:ZFIN;Acc:ZDB-GENE-060503-754]
Coordinates
chr19:41606912-41607256:-
Coord C1 exon
chr19:41607158-41607256
Coord A exon
chr19:41607023-41607157
Coord C2 exon
chr19:41606912-41607022
Length
135 bp
Sequences
Splice sites
5' ss Seq
AAGGTGACT
5' ss Score
6.64
3' ss Seq
TTATTCTTCTGCTTTGTTAGATG
3' ss Score
6.94
Exon sequences
Seq C1 exon
AATGCAATGAGAGCAACTGTGGAAACCCACGAGACCAGCCTTCATCTCCCACCAATCAAAGTGAGAGTTTCTCTAGGAACAGAAGATCTGACTATTAAG
Seq A exon
GTGACTATTAACGTCTATGTGTGTTTACACTCATGGTTCACCAAAAGTTGAATATTTAATCTCTGTTTTAACTCGCTGCATACTGGCTGTAGCAGAGGCCAAAGCATGTTTGTGATTATTCTTCTGCTTTGTTAG
Seq C2 exon
ATGTCTGACAGAGGCAGTGGAGTTCCTTTGAGGAAAATTGAACGACTTTTTAGCTACATGTATTCAACTGCGCCGAGTCCTGTGGCTGAAGACACTCGCAATGCTCCCCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000054848:ENSDART00000145135:4
Average complexity
IR
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(25.6=100)
A:
NA
C2:
PF0251821=HATPase_c=FE(28.8=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AATGCAATGAGAGCAACTGTGGA
R:
CAGGGGAGCATTGCGAGTG
Band lengths:
210-345
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]