DreINT0112048 @ danRer10
Intron Retention
Gene
ENSDARG00000014527 | pdk3a
Description
pyruvate dehydrogenase kinase, isozyme 3a [Source:ZFIN;Acc:ZDB-GENE-061220-3]
Coordinates
chr24:24805044-24805401:-
Coord C1 exon
chr24:24805217-24805401
Coord A exon
chr24:24805134-24805216
Coord C2 exon
chr24:24805044-24805133
Length
83 bp
Sequences
Splice sites
5' ss Seq
ACAGTACGT
5' ss Score
7.54
3' ss Seq
TGTTTTTCTCTTGATTGCAGCTC
3' ss Score
9.22
Exon sequences
Seq C1 exon
CTTCTTAGAGACTCTTATTGAGATCAGGAACAGACACAATGATGTGGTCCCAACTATGGCCCAGGGTGTGATAGAATATAAGGAGAAGTTTGGATTCGATCCATTCGTCAGCTCCAACATCCAGTACTTTCTGGACCGCTTCTACACCAACCGAATTTCCTTTCGCATGCTCATCAACCAGCACA
Seq A exon
GTACGTCACTCAAAAAAAAGAAACACCCCACATACTGTAACTGTCATCGAGTTTTGCTGTGATTGTTTTTCTCTTGATTGCAG
Seq C2 exon
CTCTCCTCTTTGGCAATGACATCAACCCAGCGCATCCCAAACACATCGGCAGTATTGATCCCAGCTGCAATGTTGCTGAAGTGGTGACTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000014527:ENSDART00000146930:4
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:
PF104364=BCDHK_Adom3=FE(43.4=100)
A:
NA
C2:
PF104364=BCDHK_Adom3=PD(14.0=64.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AACTATGGCCCAGGGTGTGAT
R:
ATGCGCTGGGTTGATGTCATT
Band lengths:
169-252
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]