RnoINT0160923 @ rn6
Intron Retention
Gene
ENSRNOG00000004972 | Upp1
Description
uridine phosphorylase 1 [Source:RGD Symbol;Acc:1305566]
Coordinates
chr14:89332917-89334276:+
Coord C1 exon
chr14:89332917-89333063
Coord A exon
chr14:89333064-89333850
Coord C2 exon
chr14:89333851-89334276
Length
787 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGC
5' ss Score
10.22
3' ss Seq
AAGGCCTTCTTTCTTTGCAGCGG
3' ss Score
9.08
Exon sequences
Seq C1 exon
GGCAAGGCCGCCTGGATGGTGCCCTCTGCTCCTACACAGAGAAGGACAAACAGGCCTATCTGCGTGCAGCCCATGCCGCAGGTGTCCGAAATATCGAGATGGAATCTTCAGTGTTTGCCACCATGTGCAGTGCCTGTGGCCTGAAAG
Seq A exon
GTAAGCCGATGTGGCCTTTCTCTTTCTCTTTTGCTGGCCCATCGTGGATGGGTCCTCCTGAGAGTACCCCAGTGTTGAATTCTCACTTTTTTTTTTCTTTTCTTTTTTTTGGAGCTGGGGACTGAACCCAGGGCCTTGCGCTTGCTAGGCAAGCGCTCTACCACTGAGCTAAATCCCCAACCCCGAATTCTCACTTTTTTGTCTCCCTTGGCCAGCTTCTGACCAAGGTCTCATCCCTGTAGTCCTGGTACACATAAAATGTCTTCATTATCCCCCTGCAAACACAGGACAGGATCCTCAGTGTTCTTGCAGATTCCACTGAGAGGGGTTAGAAAGATGGCGATGGGATTTTCTGCTGCCCAGGAAGGTGTTCTAGTTATTTCAACGGACTTGGCTTTCTAGAGGGCTAATCCACGCTGTTGTCTAGTCCCGAACATCCTTCCAATTCAGCGTTACCTCTCATTACTGCCTGTGCTCCATGGTCTGGGACAACATATGCCCTCAGAGCTGCACAAAGCAGCCAGGTGCCAGCCCTGGAACCAACTGGATATTTTTTGAGTCCCAAAGGCAAAGGCATAATTGATAGAGTTGGGCACTGCCGGAGTTGCTAGAAGGTATGTTTCTAAGCCACTCCAGTCCATCCACACAGCCCTGTCCCTAGACTACACACTCCTGGTTTCCTGAGGTATACAACAGGCTGATCCTCAGCCCCCAGGCCCTGGCCTTCCTCCTTGGTGAACTAAGGAAGGTGTCCATTGTGTGTTGATAAGGCCTTCTTTCTTTGCAG
Seq C2 exon
CGGCTGTGGTGTGTGTCACTCTTCTGGACCGTCTGCAAGGGGATCAGATCAACACTCCCCATAATGTGCTTGTGGAATACCAGCAAAGGCCGCAGCGGCTGGTGGGCCATTTCATCAAGAAGCGCCTAGGGAGGGCCTGAGACCCGTGCCTTTCTGCTCGGGAGACGTTTCTGCAACTCCTGGGCAATAAATCTATTTTTTCATAATGCACCGTGTGACTGACTTGGAGCATGCACTTTGTGGTATGCAACTGGGCTTTGTTTGCCGGTAAGAAATCTGATTAGACATAACAGATGATTCTCTTAGACATCATCGGAACATTTTCAGACCATTTAAACCTAATGGGGGTGGCTCTTCAGGACCATTTTAAATAAAGGAAAACTTTCAGCCTTTTATTTCATAGGTGGTCATTAAAGTAAGACATTT
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000004972:ENSRNOT00000006765:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.022
Domain overlap (PFAM):
C1:
PF0104815=PNP_UDP_1=FE(19.5=100)
A:
NA
C2:
PF0104815=PNP_UDP_1=PD(15.5=83.0)
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:
GACAAACAGGCCTATCTGCGT
R:
ACCACAAAGTGCATGCTCCAA
Band lengths:
347-1134
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]