MmuINT0170912 @ mm9
Intron Retention
Gene
ENSMUSG00000020407 | Upp1
Description
uridine phosphorylase 1 [Source:MGI Symbol;Acc:MGI:1097668]
Coordinates
chr11:9033237-9034934:+
Coord C1 exon
chr11:9033237-9033351
Coord A exon
chr11:9033352-9034724
Coord C2 exon
chr11:9034725-9034934
Length
1373 bp
Sequences
Splice sites
5' ss Seq
TAGGTAAGG
5' ss Score
9.31
3' ss Seq
GATCTGTGCATCTTCCTCAGGTC
3' ss Score
9.01
Exon sequences
Seq C1 exon
CATGGCATGGGCATTCCTTCCATCGGCATCATGTTGCACGAGCTCATCAAGATGCTGTACCATGCCAGGTGCTCCAACATCACCATCATCCGCATTGGCACTTCAGGCGGGATAG
Seq A exon
GTAAGGGCTGTGAGAAGGGATTCTGGCCATGGGTGTGGAGTAGCCAGAGCCCAGTACTAGGTCCAGCAAGGTGTGAACACATACAGGGTTGATAAAGGGCCTTCTTTTCTGCCTGTCTTCTCTTATTCCATTAAAGTGTGTGTGGGGGTGGAGCGGGATATAAAACTAACAAAGGGGTTCTGAAATTAGCTCAAGGCTTCCTAATCATTGATCAAAACAAATCCCAAGCAAACAAACAGACAGACAATTTAAGAAGGAGAGAGGATTTGAAGACTGCAGTACAATGAAGACTAGTGTCCTGTTTGACTTCATGTTATAAAGACAAGGTCTGCTTGGCCTCTGCGATTATGCTCAGCTGAGTGAAGTCTTCTTCCTGGCAGAGCCTGGTGATGGCACAGGTTTCATCAAGTATGAGAGACGGCAAGTCCTGCGAGCACTCATCCACCATTAATTTCAGTATTGAGTCAATTCATTCCTTATGGCAGAGTCACAGTCACTTCTCAGCGGTCCCACCTGCTCGAGGCTCTCTATTTCATTCACAGTGGCCACTCTATTTTATTGGGGCTTTTTGGCAGTAAGCTGTGTGTGTGTTGGGCAGTGACATTCCCTAAAGTCTCTTTATCAATTTTATTTTAAATTAAGGGTTGCCTTAGGAACTGGTTTCTAGCGATTCTTGTTCCTACCAGGAACATGATAGGAATCAATAAACATTGATAGGAAACTGTATTGGCTCCAGGGATAGTATGGCCTTAGATTCCAGCATCCAGGAATCATCCCTACATTATTCTTGGGAGGTAGGATTTCAAACTCCCTAACAGCGGCCATATTGCATAAGAAAATAAAATCCCAAGAGGAAAGAAGAGCAGGGTATTGTCCTTATAGACAAACAGGTCCTCCGAGAGGACCTGCCTCCAATGCAGGCGCAATGCAGGTGGTTGTTATTGGTTGGAGGAAAGCAGGCTAGTCAGGAGTTAGAAAAGCTTGAGGCTTTGTTTGGGGGAACATATCGGGGTTTCTATACTTTCCCTGCTTTTGTGTCCAGTTGAAAGTTTACAAAATACAGAATCTGGAACTACTAAGCTTACATGGTCACCCAGTTGGTGGCGTGCTAGTCAGTGGCAATGCCCTGAAGATAGAAATGTCAGACAAAGGCTGCAGAGACTCTGGTGGGTTCTCTGCTTATCTCTGCCTTCAGCAATGGTCTGTACAAATTCCTACTCAGGGAAAGCTTAGTAGGAAAAGGGATGGACGGCTTTGAGCATATGCCTGGTGCCTCAGTACTTGGCTTTGCCGATGGATCCTGTTGGCTGTGCCTAGGTTCCGCGCTGCTGCTTTGTCACCCTGTGTAACCGTGATCTGTGCATCTTCCTCAG
Seq C2 exon
GTCTGGAGCCTGGCTCTGTTGTCATCACGCAGCAGGCAGTGAATGAGTGCTTCAAGCCGGAGTTTGAGCAGATTGTCCTGGGAAAACGGGTGATTCGCAACACCAACCTGGACGCGCAGCTGGTTCAGGAGTTGGTGCAGTGCTCCTCAGACCTGAATGAGTTCCCCATGGTTGTGGGCAACACCATGTGCACCTTGGACTTCTATGAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000020407-Upp1:NM_001159401:6
Average complexity
IR-S
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:
PF0104815=PNP_UDP_1=PD(32.1=86.7)
A:
NA
C2:
PF0104815=PNP_UDP_1=FE(27.9=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CATGGCATGGGCATTCCTTCC
R:
GAAGTCCAAGGTGCACATGGT
Band lengths:
318-1691
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: