RnoINT0160921 @ rn6
Intron Retention
Gene
ENSRNOG00000004972 | Upp1
Description
uridine phosphorylase 1 [Source:RGD Symbol;Acc:1305566]
Coordinates
chr14:89330956-89332686:+
Coord C1 exon
chr14:89330956-89331070
Coord A exon
chr14:89331071-89332476
Coord C2 exon
chr14:89332477-89332686
Length
1406 bp
Sequences
Splice sites
5' ss Seq
TAGGTGAGG
5' ss Score
7.65
3' ss Seq
GATACTCGGATCTTCCTCAGGTC
3' ss Score
6.35
Exon sequences
Seq C1 exon
CATGGCATGGGCATCCCTTCCATTGGGATCATGTTGCATGAGCTCATCAAGATGCTGTACCATGCCAGGTGCTCCAACATCACCATCATCCGCATTGGCACTTCAGGAGGGATAG
Seq A exon
GTGAGGACCAATGAAGGGTTCTGGCCCTGTGTGTGGAGGGGCCAGAGCCCAGAACCTGCTCCAGCATGATGTGGGTCAATACAGGGTTGGTTAAGGGCCTTCCTTTCTGCCTGTCTCCTCTCATTCCATCAAAGTGTGTATGAGGGGTGGGGTGGGCTATAAAGCTAACCAAGGGATCCTGAAATTAGCTCAAAGGTACCTAATCATTGACCAAAAAAATCCTATACAAACACACAACCAACCAACCTAAGAAGCAGAGAGGATTTGAAGACTTCGAAACATTGAAGAGTGTTAAACTGTGTCCTGATCCGTTTTCTGTTATAAAGACAAGGTCTGCTTTGGCCTTGCGATTATACTCAGCTGAATAAAGCCTTCCTGCCAGAGTCTAGTGAGGGCACAGGCTTCATCATGTATGAGAGATGGTGGGTCCTGTGAGCTTACCCACCGTTCATTTCAGTAAACGAGTCAATCCACTCCTATGGCGGAGCCAGTCACTTCTCCCAGGTCCCACCTGCTCGAGTCTCTCTATTTCCTTCACAGTGGCGACTATTTTATTGTGGCTTTCGGCAGTCAGGTCTTGTGTGTGTGTGTGTGTGTGCGCTGGGCAGTCACATACTCTAGCAGTAAGTAAAAGTCTCTGAAGCAATTTTATTTTAAAATAAGGGTTGCCATAGGAACTGGTTTCTTGTGATTATTGTTCCCGCAAGGGACATGATAGGAATAAGTAAACATTGATAGGAAGCTGTGTTGACTCTGGGGATAGTACGGCCTTAGATTTCAGCATCCAGGTCTCTACATTATTCTTGGGAGGTAGAGTTCCAAACTCCCCAACAGCGGCCATATTGCATAAGAAAATAAAAACCCAAGAGAAAAGAGCAGGGTATTTTACTTATAAACATTCGTGTCCTCCATGAGATCGCACCTCCAATGCTGGTACAGTGGAGATGGTTGTTACTGAATCAGAGGAAAAACAGGCTAGTCAGGAGTTGGAAAAGCTTGAGGCTGTGTTTGGGGTACATGGCGGGGTGTCTATACTTTTCCCTGCTTTTGTATCCGGTTGAAAGTTTACAGAGTAAAGATATAATCTGGAATGATTCAACTAACCTGGTTCACCTGGTTGGTAGCGTGCTAGTCAGAGGCAATGCCTCGAAGAATAGAAACATCGGGTTAAAGGCTGCAGAGTCCCTGGTGGGATTGCTCTTCTCTGCTTCTCTCTGCTTCCAGCAATGGTGCTGTACAAATTCCCACTCAGAAAAAGCTCTTAGTAGGAGAAGGGATGGAATGGCTTTGAGCATACGCCGGGGGCCTCAGTACTTGGCTTTGCCGATGGATTCTGTTGGTTGCGCCTGTGTCCCACTGAGCTGCTTTGTCACCCTGTGTCACCGTGATACTCGGATCTTCCTCAG
Seq C2 exon
GTCTGGAGCCTGGCTCTGTCGTCATCACTCAGCAGGCAGTGGATGAGTGCTTCAAACCAGAGTTTGAGCAGATTGTGCTGGGAAAGCGGGTGACTCGAAACACCAGCCTGGACGCGCAGCTGGTACAGGAGTTGATGCAGTGCTCCTCAGACCTGAACGAGTTCCCCACTGTTGTGGGTAACACCATGTGCACCTTGGACTTCTATGAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000004972:ENSRNOT00000006765:6
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(15.1=100)
A:
NA
C2:
PF0104815=PNP_UDP_1=FE(27.9=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:
CATGGCATGGGCATCCCTTC
R:
GAAGTCCAAGGTGCACATGGT
Band lengths:
318-1724
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]