RnoINT0160922 @ rn6
Intron Retention
Gene
ENSRNOG00000004972 | Upp1
Description
uridine phosphorylase 1 [Source:RGD Symbol;Acc:1305566]
Coordinates
chr14:89332477-89333063:+
Coord C1 exon
chr14:89332477-89332686
Coord A exon
chr14:89332687-89332916
Coord C2 exon
chr14:89332917-89333063
Length
230 bp
Sequences
Splice sites
5' ss Seq
AGGGTGAGA
5' ss Score
6.65
3' ss Seq
GTTCTCTTCATGCGCTACAGGGC
3' ss Score
6.67
Exon sequences
Seq C1 exon
GTCTGGAGCCTGGCTCTGTCGTCATCACTCAGCAGGCAGTGGATGAGTGCTTCAAACCAGAGTTTGAGCAGATTGTGCTGGGAAAGCGGGTGACTCGAAACACCAGCCTGGACGCGCAGCTGGTACAGGAGTTGATGCAGTGCTCCTCAGACCTGAACGAGTTCCCCACTGTTGTGGGTAACACCATGTGCACCTTGGACTTCTATGAGG
Seq A exon
GTGAGAGGAAGTGAGGGCGTGTCTGGTCTAGGGATTCCTCGCCTACCCCAAGCCTGCTGTGTGATGGTGTGGCTACCTCTGCTGGGGCATCTGCCTCTTCATAGTATTTCTGTGATGGCTGTAACAGCAGTTGGGTCCTCTCAGCCCCATGCCTTAATGGCATGTATAGCATGGTGCCCAAGTGTAGTAGGCTTTAACTATGTTCTTGTGGTTCTCTTCATGCGCTACAG
Seq C2 exon
GGCAAGGCCGCCTGGATGGTGCCCTCTGCTCCTACACAGAGAAGGACAAACAGGCCTATCTGCGTGCAGCCCATGCCGCAGGTGTCCGAAATATCGAGATGGAATCTTCAGTGTTTGCCACCATGTGCAGTGCCTGTGGCCTGAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000004972:ENSRNOT00000006765:7
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
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCTCTGTCGTCATCACTCAGC
R:
CGATATTTCGGACACCTGCGG
Band lengths:
294-524
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]