MmuINT0003805 @ mm10
Intron Retention
Gene
ENSMUSG00000033624 | Pdpr
Description
pyruvate dehydrogenase phosphatase regulatory subunit [Source:MGI Symbol;Acc:MGI:2442188]
Coordinates
chr8:111125605-111126328:+
Coord C1 exon
chr8:111125605-111125753
Coord A exon
chr8:111125754-111126215
Coord C2 exon
chr8:111126216-111126328
Length
462 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGC
5' ss Score
9.6
3' ss Seq
TTTGGGGTTTTCATTTTCAGTTT
3' ss Score
9.24
Exon sequences
Seq C1 exon
TCCACTGGGGACGAGGCGTTAGAAAGTCTGCAGTACCTTTTCTGCAATGACCTTGATGTACCTGTAGGCCACATCGTTCATACTGGCATGCTCAATGAATATGGAGGATACGAAAACGACTGCAGCATCGCACGCCTGACCAAACGCAG
Seq A exon
GTGAGCTGAGCTGCCATGCCCTTCTCCTTCCACTAAACTGATACTTCACGGGCTCTGGATGTTGAACAATTAGTACTTCTCTAGGAGGCCACAGTCCTAGGAGCCCAGAAACGATTTCATAAACTCCTGTCTAAATCACTAGTCACCTGTAAACAAATCAGCAAAGGCCAATAAAGAGAAGAAACCCAGGGTGGGTTGGTGGCTCATACTTATAATGTCAGGAATGTGAAGGTTTAACACAAGTTTGGGGCCAATCTGGGCTACATGAGAAGTTCCAGGCCAGCTTGGCCTATGAAGTGAGACTCACTCTGCTTAAAAGATAAGAACAGAATAAGTTGTACTATGTATAACTGTACACTGGGTGTAGTCACCCTAATGGGAAAGGATTCTTTAGAAATGTTACTAAATCTGTGTAAATTTTCTGCCTTTTGGTTTTGATTATTTTGGGGTTTTCATTTTCAG
Seq C2 exon
TTTCTTTATGATTTCTCCAACCGATCAGCAGGTCCACTGTTGGGCCTGGCTTAACAAATACTTGCCGAAAGACAGCAACTTGCTGCTGGAGGACGTCACCTGGAAATACACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000033624:ENSMUST00000039333:13
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:
PF0157116=GCV_T=FE(22.5=100)
A:
NA
C2:
PF0157116=GCV_T=FE(17.4=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGGACGAGGCGTTAGAAAGTC
R:
TGTGTATTTCCAGGTGACGTCC
Band lengths:
254-716
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- 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