RnoINT0109226 @ rn6
Intron Retention
Gene
ENSRNOG00000004172 | Pdk2
Description
pyruvate dehydrogenase kinase 2 [Source:RGD Symbol;Acc:69428]
Coordinates
chr10:82841487-82841877:-
Coord C1 exon
chr10:82841788-82841877
Coord A exon
chr10:82841583-82841787
Coord C2 exon
chr10:82841487-82841582
Length
205 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGC
5' ss Score
9.6
3' ss Seq
GTGGTCCTGTCTTCTCTCAGATG
3' ss Score
10.82
Exon sequences
Seq C1 exon
CCCTCATCTTTGATGGCAGCACCAACCCAGCCCACCCCAAACACATTGGCAGCATTGATCCCAACTGCAGCGTGTCTGATGTGGTGAAAG
Seq A exon
GTGAGCTCCCCACCATAGGCCTGGCCCATGAAGGAGCCCCAGGGACCCCTCCTAGATAACCAGGTCAGAGCACCCAGGTCAGCCATTCCCAGTGGTGGGGGGCCATGTCCCCATGGATTTCATGTTGGTGATGTCTAAAGTCAGTGCAAAAGGGACTGCTGCTGTCAGCCTTACCTTTAACCTGAGTGGTCCTGTCTTCTCTCAG
Seq C2 exon
ATGCCTATGACATGGCTAAGCTCCTGTGTGACAAGTATTACATGGCTTCCCCTGACCTGGAGATCCAGGAAGTCAATGGTAAGCAAATGAGTGTGT
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000004172:ENSRNOT00000005641:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.129 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF104364=BCDHK_Adom3=PD(12.1=64.5)
A:
NA
C2:
NO
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:
CCCTCATCTTTGATGGCAGCA
R:
ACACACTCATTTGCTTACCATTGAC
Band lengths:
186-391
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]