MmuINT1034487 @ mm10
Intron Retention
Gene
ENSMUSG00000020407 | Upp1
Description
uridine phosphorylase 1 [Source:MGI Symbol;Acc:MGI:1097668]
Coordinates
chr11:9118103-9119449:+
Coord C1 exon
chr11:9118103-9118284
Coord A exon
chr11:9118285-9119373
Coord C2 exon
chr11:9119374-9119449
Length
1089 bp
Sequences
Splice sites
5' ss Seq
TGGGTATGA
5' ss Score
5.85
3' ss Seq
CTCTCATCTCTCTCCCTCAGGTC
3' ss Score
12.92
Exon sequences
Seq C1 exon
ACAGTTTACAACAGCCTAGCTCTGCATTCTTGACCACGTCCACACGGCCATTCATCTCTGGTACATTCCTTCATCATTTCTAGAAAAATGGACTTGGACCCTGGCACTAGAGGTGACCTTGGGTAGCCATACAGCGACTTCCAGATCTTTTCTTCGACAGTGGAACAGAGATAGCAGCTTGG
Seq A exon
GTATGATTTCATCTGTAGTTAGGGAGGCTATGGAGCTACAGGAATGGCTCTGGATAACTTAAAATGGTCAGTTATCCCTAAAAGAAAGGATAATAGAAGGTGGTGGTTCCCAGGCAACTTTTCCGGGTTCGGGTTGAGGGAATGGACGCTAGAGAAGGTGTGGTCGGGGCGTGTTCGGGCGAGCAGGTCCGGGTGCTATCAGCTGAGCCCTCCAGCGGAGCCAAAGCCAGGCGGTGACCTCTGGGCGGGGCTGCGGGAGACAGATCAGGGGAGGCGAGCCTGCCGACAGCTAGGTTCTCCTTTCTGGTCCTTTTAAAAGCTCTGGTGCGCTGCTTCTCTCTCACAGTGCTCCAGCGCGGCCAACGGGGACTGAGCGGTGAGTGGTCTGCTTTGCTGGCTGCTCTCTGGCTCTTCCTGCCTATATAGGTGGGGACTGAAGAGTCGACTCTGGTGATCACTACTAAGACCCCGCAGGGAGTGGCTGGAGAGAGGGGTAAAAGTTGGCGGAGCGCAAAGCTGTAGGAGCAGCCCGCTCGGGATGTTCTGCTAGGTGTGCGCCGATGACCTCTCTCAGCAGATGAAGGTGCTGGAGCCACACTGGGGAGACGTGAAGTCCCCCGTGTGCGTGTGCGTGTGCGGCGGGGGTCTAGGGGGGAGGGGCTCAGATGAAGCGAGCCCACGCGAGGTAGGTGCAAGCCAGTGAGGGTCGCCCAGGTGTGGGTCGGGCTGCTGACAGGTGAGGGGGAACGTAAGAGAGGCATGAGCAGGTGAGTGGCTCTCAGCGTCCTCTGGTGCTTCCAGCATATCCAGTCCCACACGGAGTAATTCGTCTTTTCACGAAGGACCGAACAAAGTTTCATTTTGATCACTCGCATGGATTTCCTTGTAATTGATTTACCAAATGTTATCGCATAAAGTATTGGCTCCAAGTTGTTTGGCTGCAGACCAACCGGGAAACTCGACTCCGGTGTATTAAATGTCACTGATTTGCACGGGACCTGCCTCACTTTACTGCTCCTTTTCTGTGACAACCTTCTTGCAGACCTGCAGGACTCTGCAGTCCTTCTCACTCTCATCTCTCTCCCTCAG
Seq C2 exon
GTCTTGACGAAGTGATTGACTGGTGGTCTCTGACACTCTGGAAGCCTTCTCGCGACGTGGACATCGGTCTCTGACA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000020407:ENSMUST00000020677:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=NA
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NA
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Cow
(bosTau6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGTTTACAACAGCCTAGCTCTGC
R:
TCAGAGACCGATGTCCACGTC
Band lengths:
254-1343
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