MmuINT0120184 @ mm10
Intron Retention
Gene
ENSMUSG00000017453 | Pipox
Description
pipecolic acid oxidase [Source:MGI Symbol;Acc:MGI:1197006]
Coordinates
chr11:77881501-77882276:-
Coord C1 exon
chr11:77882118-77882276
Coord A exon
chr11:77881577-77882117
Coord C2 exon
chr11:77881501-77881576
Length
541 bp
Sequences
Splice sites
5' ss Seq
ACGGTAAGT
5' ss Score
11.81
3' ss Seq
AGGTGTGACTCTCCTTCTAGAAT
3' ss Score
7.78
Exon sequences
Seq C1 exon
ATCTGCTATCACCATGGTGACAATGTGGACCCAGAGGAGCGGGACTGCCCCAAAACCTTCTCAGACATCCAAGACGTTCAAATTCTATGCCACTTTGTCAGAGATCATTTACCAGGCCTGCGGGCTGAGCCAGACATCATGGAACGCTGCATGTACACG
Seq A exon
GTAAGTGGGCTGTTCCAATCTGCAAATCGGGGCATGGGGGTGAGGGGCAGAGATAGACAGACCCCCGGCCGGCCAGGCCTGACTCTATGTGACCTCTGATCCAGTGCGTGACTTTCAACTAGCTAGCTAATTCCTGTGGATTGGTTCACCTCGGTGAGAGAGGGGCCTGTTAAAGATTATTCATATTCCTTTTTATTAGGCAGTGAGGCTTTTGCCTGGCAGTCCTTCCCTAAATTTCCCAGAAGAACTCTAAAACAGTTCTTGGCAAGATGTTCCCAGTTGAGCAGGCCTTGGGGACAAAGAGAAGAGACAGATGCCACCAGGCCCGAGGCATCTTGGCTAAAGTTAGTTCACAAAGATGACTACCTACTGAGTAGGATAGTGGCAGCTATTCAGTGAGGACAGAGTAGATTGGGCAAGCAGAGAGCAGACCTCAGCCCCGTCCAGTTCTCTCTTGAAAGAGACCCAGGCCAGTTCTTTCCAGACAGAGCCTGTAGTTCCTACCTGTCTTCAGAGGACACAGGTGTGACTCTCCTTCTAG
Seq C2 exon
AATACTCCTGATGAGCACTTTATTCTTGATTGCCACCCAAAGTATGACAACATTGTCATCGGCGCTGGATTCTCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000017453:ENSMUST00000017597:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.038 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0126619=DAO=FE(14.6=100)
A:
NA
C2:
PF0126619=DAO=FE(7.0=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGACAATGTGGACCCAGAGGA
R:
GAATCCAGCGCCGATGACAAT
Band lengths:
214-755
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