MmuINT0117377 @ mm10
Intron Retention
Gene
ENSMUSG00000038967 | Pdk2
Description
pyruvate dehydrogenase kinase, isoenzyme 2 [Source:MGI Symbol;Acc:MGI:1343087]
Coordinates
chr11:95029654-95030006:-
Coord C1 exon
chr11:95029917-95030006
Coord A exon
chr11:95029732-95029916
Coord C2 exon
chr11:95029654-95029731
Length
185 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGC
5' ss Score
9.6
3' ss Seq
GTGGTCCTGTCTCCTCCCAGACG
3' ss Score
10.35
Exon sequences
Seq C1 exon
CCCTCATCTTTGATGGCAGCACCAACCCAGCCCACCCCAAACACATTGGCAGCATCGATCCCAACTGCAGCGTGTCTGATGTGGTGAAAG
Seq A exon
GTGAGCCCCCCCACCATAGGCCTGGCCCACAAAGGAGCTCCAGGGACCCCTCCCAAATAGCCAGGTCAGAAGGTGATCCATTCCCAGCAGATGGGGGGGGGGGGCATGTCAGTTTTCACGTCAGTGCCAAAGGGACTGCTGCTGGGTCAGCCTCCCATAACCTGAGTGGTCCTGTCTCCTCCCAG
Seq C2 exon
ACGCCTATGACATGGCTAAGCTCCTGTGTGACAAGTATTACATGGCTTCCCCTGACCTGGAGATCCAGGAAGTCAATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000038967:ENSMUST00000038431:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.097 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
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCCTCATCTTTGATGGCAGCA
R:
CATTGACTTCCTGGATCTCCA
Band lengths:
168-353
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Ribosome-engaged transcriptomes of neuronal types
- Neural differentiation time course
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types