RnoINT0160928 @ rn6
Intron Retention
Gene
ENSRNOG00000005341 | Upp2
Description
uridine phosphorylase 2 [Source:RGD Symbol;Acc:1308188]
Coordinates
chr3:44830693-44833052:+
Coord C1 exon
chr3:44830693-44830902
Coord A exon
chr3:44830903-44832911
Coord C2 exon
chr3:44832912-44833052
Length
2009 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGA
5' ss Score
8.68
3' ss Seq
ATCACCCCATTTTCTTTCAGGCC
3' ss Score
10.09
Exon sequences
Seq C1 exon
GGATTGCTCCGGGGTCTGTTGTAATAACAGATACAGCTGTAGACTCCTTCTTCAAGCCTCGGTTTGAACAGGTCATCTTGGATAACGTGGTCACCCGAAGCACCGAGCTTGACAAAGAACTGGCTACTGATTTGTTCAACTGTAGCAGAGAGATCCCCAACTTTCTAACCCTCATCGGACACACGATGTGTACCTATGACTTTTACGAAG
Seq A exon
GTGAGACTCATTTGCACACCAGGGAAGCGTCAGAAAACAGCAGCCGCTCGTTACACGAAACCACAGTTTGTATTAAAACTGCACGCTAGCAAATTAATAGTGTGGATTTTTCAAGGGGAAGCAAATAGCCTTTTTACTTACTAAAGCATAGCAACATAAGGGCTTAATAAGCAGCTGAGAAACATGCAGAGTGACTTTATATTGAGAATGGGTTTAATCCTGTATCAATTTGAATACTAAAATGCAATTAGCGGTATTGACAGCTTCTTCTCTCTCTGCCTGTGACTTTTACTTAAATTGCTGACTTTAAGAAAGAGGAATATGCTGGTTCTATGCTTTTGTCATTCTCCTGACCCCCAGGCAAGAGAGGAGACTAGCAAACAGAGAGAAATGTTTAATTAGACAGATCCTATGGCGATGCGGTAGTCTCAGAGTGGGGCTTTTATCCTACAGCCAAGAGTAAATGCTCTCCATACCTAGTACAGAGTTAAGTTGAAGGTCACTGTCAAATAACAGCTCTCGTTCCAAGGGATGAGGGTCAAGGCAAAAGAAAAACAGGACAAACAATCTCCATGGATTCTGCTCATTACAGAAGAATCTGCACTGTCTTCAGACCATAGCATTTCACGGCAAATCTTGGGTTGTAGTTATGTTTCTATAATCATTATAGTTAATGTTAAGATTCCATTGCCAACTTCTTTTACCTTTCAATCAAAGTTTACATATTACTTTTAAAAGTCGTGCAGGGAGATAGATCGCATTCTGTTTGCCTTTGCTCGGGTTAGTAAAAGCGTTGGAGGTATTTATCCAATAGGCAAGCAGGTATTTATGGACAGGTTGAGACTGTTCTAGGACATCAGCTCTTAGGCCCTCCATTTAGAGCATCACCCACTCATGTGTTATGGCACAGTTCACTAGCAGACGCCTGGTAGAGTCAGTGTTTCCATTGGCCTGTGAGATATTGTTCCAAATATGAGGTATTTTTTTGCCAACATTTGTAATTTCTAGAGCTTTCCATGTGAAAGTCCAGATGTTTGGCTCTCTGACATAACATAAAGTAGCATTAAAAAGTACAAAATAGTCTATGCATGACAGCTCTGGAAAGACCTGGCCCACATCTGGGGCTACTTATGCTGGGGCTGGGTGAGGTGAGACAACCCCTATCTGCCTGCGTAGATCCTCACATTACCGAGGGCCTCTGGGACAACTGAGCTTGACTCAGCTTCAATACCACAGAGGTGTTGGCAGGCAGCACTGAAGAGGAGAGAAGAACAGGGGAAAGCTGGTTGTCAGGATGGAAGCCACAGGGACCAGGAGCAGAGGAAAGGAAGCACTTCCTTCGGGAAGGTCTGCATAAGTAATGGAGGGCCACTAGCTTCCATCCGGGCACTGGCTGGGTGTAAAAGGTCAGGTTACACACTCGGTGAAGGGGTAACATCAGATTGTTCTCCACTTTCTTCTGGGCCCAGTGGTCAACCCAGTGAAACTAAGCAAGGCAGGAGCAACAGGGACAATCTGGATAGGAAAACTTGAGTAAAGGGGTAGCATGAAGCCTGAGGGGTGTGCAAGGGACAAAACCCACACCAGCTGCCTATGTCTGGCCATGGTGGTCATAGGGAGAATGGCAGAATCCAAACTATTTACCTCAGGAGCATCACTGAGATATGAAACCTTTCTCTCTCGGTGTCTCCACATGGCCTGTGTCCCTGTCACTGAACCAGCTGAGATTCTCCTCAAAGGGCAACTTCCTCTGTGACCCCTTCACCCCATTCCTGGTGTCCCCACTGTCCTTCAGAACTGTGGGACTCTGGTACAGACATTCTGCCCTGTGTATGAGACCTGAGCCAGGTGTGGTCATGTTCTGTAGTTCCCTTTGGAGGAAAGAGTCCACAGTCAGGTCCCCAGAGGAGGCTCTCCAAAGAGGTAGGCACATAAGCAGGCAGCCTTCTGAGAATGTTACTTCCACTGAGGTGAGGCAGCAGCCACTGAATCACCCCATTTTCTTTCAG
Seq C2 exon
GCCGCTTAGATGGAGCGCTATGTTGTTTCTCGAGAGAGAAAAAGCTGGACTATTTGAAGAGAGCGTACAAAGCTGGAGTCAGGAACATTGAAATGGAATCGACGGTGTTCGCCGCCATGTGTGGACTATGTGGCTTGAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000005341:ENSRNOT00000035158:5
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(28.1=100)
A:
NA
C2:
PF0104815=PNP_UDP_1=FE(18.9=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]