MmuINT0003807 @ mm10
Intron Retention
Gene
ENSMUSG00000033624 | Pdpr
Description
pyruvate dehydrogenase phosphatase regulatory subunit [Source:MGI Symbol;Acc:MGI:2442188]
Coordinates
chr8:111128243-111129695:+
Coord C1 exon
chr8:111128243-111128337
Coord A exon
chr8:111128338-111129605
Coord C2 exon
chr8:111129606-111129695
Length
1268 bp
Sequences
Splice sites
5' ss Seq
AAGGTAGGT
5' ss Score
10.29
3' ss Seq
TGCTTTCCTTTTCTTTGTAGGAG
3' ss Score
10.54
Exon sequences
Seq C1 exon
CCCTCAATCTGATTGGCCCTCGAGCCGTGGATGTGCTATCTGAGCTGTCCTATGCCCCTATGACTCCAGATCACTTTCCAACGCTCTTCTGCAAG
Seq A exon
GTAGGTGCTAGTCATTTATTGTTTGTGATCAGTGTCTCATGTAGTGCATGCAGGTCTCAAACTTGTTATGTAGCTGGGCATGACCTTACACTTGCGAGCTTGCTCAAGTGCTGGGAATGCGGGTGTGTGTCTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTAATGGGTTTATATGGTGCTGAGAATCAAACCCATGGCTCCATGCATGCTAGGCAAGCAGTCTGCCAACTGAGCCACATTCTTAGCAGTTCTGTTTTTTTAAATGTTAAATATGTTTCTTTTATAGTGATGGCAGGTTCATATTCTTAATATGGTGTTAATACTTAAACAGTGTTTTGACCTTTATTAAGCAAGCAAAATGACCAAGCAACTTTTATTTTTTACTTCCAAGTCTGCTTTATTTAGTAAGGATTAGGGTATTCCCTGAAGTATACTTAATGTCTTTGAATGTCAGGTATGTGTACTTATTGGTTTCTCTAGCGCCTGAATTAAACTTAAGGTGACAGTAAATGCACACTGAGGTCAGATGTTTTTTCTCCTTGCATTTGCTGTTTTGTTTTTATTCTCATAGTATATTGATAGCTGAACCCTAGACAACACACAACTAGTTGCTTGGCACACACTACACTGAATAACTGAGCGCTTTGCAGGAAGCAGTCACACAGCCACTTTGGACATGCACCATGCATGGAGAAACTTGGAAGTTTAAACCCAAGTGGAGATTTTTAGAGCAGATTGTTTAATGATTTCCTGCTCTCCCAAGCAGAGAAAACAACAGAAAACTTCCATGTTGGTGAACAGATCCCTCTACAGTCTTCTCTGTACTTTACAAATGATCCAACCTGACTGTCAAATGCCTTGTCAGAATTCATGTGGAATTGTTTCAGTGCTGTCTTGCTTGGCCTTACACTTCCCTTCATAGAGCAGTATTATATCAGTGACCCTTTCAAGGCGACTGAGCAGCTGTAACACTAGAAACTGAGCTTTTGGTCCCAGAGTGCATGAATTGTATTCTGCAGGCATTGTCCTTTATGTGTCTTACAGAGTCCTCCAGAGAAAACACTTGGTTGGTCTTCATTGTTCCTAACGCTGCTTGGCTAACTCAATGTTTTAGCATGAGCTGGTAAAGAGAGATGCTTTCCTTGGTTGTAGCTCTTCCAGGGTTAACATAGGGTGGGTACTGACAGGCTCCCCTCGGGACTCAGTCTCTTGACTGTCAGGAGGGACGAGTACTGACTGCTTTCCTTTTCTTTGTAG
Seq C2 exon
GAGATGAGTGTGGGCTATGCAAATGGGATCCGGGTGATGAGTATGACGCACACGGGAGAGCCAGGCTTCATGCTGTATATCCCCATAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000033624:ENSMUST00000039333:15
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(14.2=100)
A:
NA
C2:
PF0157116=GCV_T=FE(13.3=100)
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:
CCTCAATCTGATTGGCCCTCG
R:
TCTATGGGGATATACAGCATGAAGC
Band lengths:
183-1451
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