MmuINT0170921 @ mm10
Intron Retention
Gene
ENSMUSG00000026839 | Upp2
Description
uridine phosphorylase 2 [Source:MGI Symbol;Acc:MGI:1923904]
Coordinates
chr2:58777805-58780148:+
Coord C1 exon
chr2:58777805-58778014
Coord A exon
chr2:58778015-58780001
Coord C2 exon
chr2:58780002-58780148
Length
1987 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGA
5' ss Score
8.68
3' ss Seq
ATCACTCCATTCTCTTTCAGGCC
3' ss Score
10.76
Exon sequences
Seq C1 exon
GGATTGCACCAGGCTCCGTTGTAATAACAGATACAGCTGTAGACTCCTTCTTCAAGCCTCGATTTGAGCAGGTCATCTTGGATAACGTGGTCACCCGAAGCACTGAGCTTGACAAAGAACTGGCTAATGATCTGTTCAACTGTAGCAGAGAAATCCCCAATGTTCCAACCCTCATCGGACACACGATGTGTACCTATGACTTTTATGAAG
Seq A exon
GTGAGAATTGTTTGCACACCAGGGAAGCAGTAGGAAAACACAGGCTGCTTGTTATACAAACCCACGATTTATATTAAAACTGCACGCTAGCAAATTAATAGTGTGGGTTTTCAAGGGGAAGCAAATAGCCTTTTTACTTACTAAAGCATAGCAACATAAGGGCTTAATAAGCAGCTGAGAAACATGCAGAGTGACTTTATATTGAGAATGGGTTTAATCCTGTATCAATTTGAATACTGAAATGCAATTAGTGATATTGACAGCATCTCCTCTCTGCCCGTGACTTTTACTTAAATTGCTGTCTTTAAGAATGAGGAATATGCTGGTTCTATGCCTTTGTCGTTCTCCTCAACCCCAGGCAAGAAAGAAGACTAAGGAATGGAGAGAAATGTTTAATTAGACAGATCCTCTGGGGATGTGGTGGTCTCAGAGTGGGGGCTTTTAGCCTACAGCCTAAACGGTCTCCACACCTAGTGTAGAGTTAAGTTGAAAGTCACTGTCAAATAATGGCTCTCGTGCGAAGGGATGAGGGGCAAGGCAAAAGAGAAACAGGGCAAAACAATCTCCTGAGAAGAATGAGGATTGTACTCATTGCAGAAGAAACTACACTGTCTTGAGCCTATAGTGTTTCACAGTAAATCTTGTGCTGTACATATATTTATATAATCATTAGAGTTGATGTAAGACTTTCATCACCAACTTCTACCTTTCTCTCAATCAATGTTGGCATGTTACTTTAGAAAGTTGTGCATGGAAAGAGGCTGTACTCTGCTTACATTTGTTCAGGTTAGTAAAGGTGTTGGAGGTGTTTCTACAACAGGCAGCAGGGGTAGAGGGACAGGGTGAGACTGTTCTAGGACATCAGCTCTGAGGCCCTTCATTTAGAGTGTCACCCACCCATGTGTTTCCACACACAGCTCATTAGCAGAAGCCCAGTAGAGTCAGTGTTTCCATTGGCCTGTGAGATACTGTTTCAAATATGAAAGATTTTTGCCAACATTTGTAATTTCTAGAGCTTTCAATCTGAAATTCTAGAATTTTGGCTGTCTGACATGAGAGAAAATAGTATTAAAAAGTACAAAATAGTTGATGCATGACAGTCCTGGAAAGACACATCTGGGGCTACTTAAGCTGGGGCTGGGTGAGGTGAGAGAACTCCTATGTGCCTGCGCAGACCCTTATATTCAAATTATGTACAACCTCTGGGCCTACTGAGTTTGACTCAGCCTCAATAACACAGAGGTATTGGCAGGCAGCACTAAAGAGGAGAGAAGAACAGGAAAAAGCTGGCTGCCAGGACAGAAGCCAGAGGGAACAGGAACAAAGGAAAGGAAGTACTTCCTTAGGGAAGGACTGTGAAAGTCATGGATAGCCACTAGCTATACGGGTGGGTATAAAGGGTCAGGCTACAGACACAGTGAAGGGGTGACATCAGATTGTTCTCCATCTCCTCTGTGCCTACTGGTCAACCCAGTGCGATTAAGCAAGGCAGAAGGAATAGGGACAATCTGGATGGGAAAACCTGAGTAAAGGAATAGCACAAAGCCTCGGGGGTATGCAAGGGACACAGAACACACCAGTTGTCTATGTCTGGTCTTAGGGAGAGTGGCAGTATTCAAACCATTTGCCTCAGGAGCATCACTGAGGTATGAAACCCTTCTCCCCTGGTATCTCCACATGGCCTATGCCCCTGTCACTGCATCAGCTGAGGGTCTCCTCAAAGGACAGCTTTCTCTGTGACCCCCTTCACCCCATTCCTGATGTCCCCACTGTCTTTCAAAACCGGGCACTTCGGTACATTCTGCCTTGTGTATGAGATGTGAACCAGGTGAGGTCATGTTCTATAGTCCTTTAGAGGAAAGAGTCCACAGCCAGGTCCCCAGAAGAGGGTCACTCAAGAGGTAGGGACATAAGCAGACAGCCTTCTGAGGATGCTTCTGCCATGGAGGTGAGGCGGTAGCCACTAAATCACTCCATTCTCTTTCAG
Seq C2 exon
GCCAAGGTCGCCTAGATGGGGCGTTATGCTCCTTTTCGAGAGAGAAAAAGCTAGACTACTTGAAGAGAGCATACAGAGCTGGTGTCAGGAACATTGAAATGGAATCGACTGTGTTCGCAGCCATGTGTGGCCTGTGTGGCCTGAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026839:ENSMUST00000059102:6
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:
PF0104815=PNP_UDP_1=FE(27.9=100)
A:
NA
C2:
PF0104815=PNP_UDP_1=FE(19.5=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:
GCACCAGGCTCCGTTGTAATA
R:
CCACACAGGCCACACATG
Band lengths:
344-2331
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