MmuINT0003804 @ mm10
Intron Retention
Gene
ENSMUSG00000033624 | Pdpr
Description
pyruvate dehydrogenase phosphatase regulatory subunit [Source:MGI Symbol;Acc:MGI:2442188]
Coordinates
chr8:111124479-111125753:+
Coord C1 exon
chr8:111124479-111124612
Coord A exon
chr8:111124613-111125604
Coord C2 exon
chr8:111125605-111125753
Length
992 bp
Sequences
Splice sites
5' ss Seq
ACTGTAAGT
5' ss Score
8.59
3' ss Seq
ACCTCAACCTTGCCTTGCAGTCC
3' ss Score
8.68
Exon sequences
Seq C1 exon
ACCTTCTTGCATTAGAACAGAGCAAGACTTTCTACAAGCCAGATTGGTTTGATATTGTGGAGTCAGAAGTCAAATGCTGCAAGGAAGCTGTGTGTGTCATTGACATGTCCTCTTTCACAAAATTTGAAATAACT
Seq A exon
GTAAGTATTAAAGTTTGGGGAAACATTTTCTACTTATTGAGTGTTTTCTTTCATGTATTTTCATGTTTTTAATTATATACATATAGTTATTTTGCTTCAATGTATGCCTGTTGACCGTGTGCATGCAGTACCTGAGGAAGCCAGCCAGAAGGCAGCCTTGGCTTCCCCTGGGACTGGAGTTATAAATGGCTGTGGGCTGCCATGCGGGTGCTTGGGAATTGACCAAACAGCCAGTGCTCTTAACCAAGGAGCCACCTCTTCAGCCCCCAAAATGTTTGTTTTGATCTCCCCCTCCCCTCCCCTTCCCTCTCCTCCCCTCCCCTCCCTCCCCTCCCCTCCCCTTCCCTTCCCTTCCCCTCCCTTCTCTTCTCTTCTCTTTCAGACAGGGTTTCTCTGTGTAGCCCTGGCTGTCCTGGAACTCACTTTGTAGACCAGGCTGGCCTCCAATTCAGAGATCCACCTGCCTCTGCCTTCTAAGTGCTGACATTAAAGGCGTGCACCGCCAGCCCAGCAAAGACTTGCTTGTGTATGAGTGTTTTGTCTGCATATATATCTGCATACCAGAAGAGGACACTGGATCTCATGAGACTCTAGTTTTAGGTGGCTGTGAGCCACCCTGTGGTTGCTAAGATTGAACTCAAGATTTCTTTCTGGACGTGTAGCCAGTTTTCTTGACCACGGAGACACCTCTCTAGCTCCCAAATGCCCATTTTTCACTTATTACCTCAAAACTGATTCTGGAAGAACTCTACACTATTTTAGTGTTTCAACTGTATAATCACATTTTTCTGAAGTTTAGCTCCTGTAGCAGTTTTTAATTAACTTGGTAAGACATGTTTATCATAAGTACTGATGGTTAGATTTCCTTGTGGCTTACAGGAAAGTAAGCCTGCAAATGGTGCCATGTAGGTTGTATCTTTGAGTTCCCTCAGTCGGGCAGTGCGGTCAGGTGCTCCTGTGTTCACTGTCCCCACCTCAACCTTGCCTTGCAG
Seq C2 exon
TCCACTGGGGACGAGGCGTTAGAAAGTCTGCAGTACCTTTTCTGCAATGACCTTGATGTACCTGTAGGCCACATCGTTCATACTGGCATGCTCAATGAATATGGAGGATACGAAAACGACTGCAGCATCGCACGCCTGACCAAACGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000033624:ENSMUST00000039333:12
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=PU(5.5=26.7)
A:
NA
C2:
PF0157116=GCV_T=FE(22.5=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:
ACCTTCTTGCATTAGAACAGAGCA
R:
TTTGGTCAGGCGTGCGATG
Band lengths:
278-1270
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