DreINT0172033 @ danRer10
Intron Retention
Gene
ENSDARG00000040869 | upp1
Description
uridine phosphorylase 1 [Source:ZFIN;Acc:ZDB-GENE-050306-2]
Coordinates
chr16:16303553-16303912:-
Coord C1 exon
chr16:16303801-16303912
Coord A exon
chr16:16303712-16303800
Coord C2 exon
chr16:16303553-16303711
Length
89 bp
Sequences
Splice sites
5' ss Seq
AAAGTAAGT
5' ss Score
9.72
3' ss Seq
GGATGTACGTTTTGTCTCAGTTT
3' ss Score
3.85
Exon sequences
Seq C1 exon
GTCAATATATGTAAACAATCCACACTTGGACTCTATGACAGATGACATTCTTTACCATTTTAACTTGGGAACATCCACTCATGATTTGCCAAAGATGTTTGGGGATGTCAAA
Seq A exon
GTAAGTTTCACTTCCTTTTCATGCTCTGTAATCCTGAAATGTGTCTCATCAAGAGTCTCTGTTTAACTTGGATGTACGTTTTGTCTCAG
Seq C2 exon
TTTGTGTGTGTAGGGGGAAGTCCATGGAGGATGAAATCTTTCACTGAATACATTGCCAAAGAACTGGGACTGGTGGACCCCAATGCAGAATACCCAAATATATGTGCAGGAACTGATCGTTATGCCATGTACAAAGTGGGACCTGTGTTGTCTGTCAGT
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000040869:ENSDART00000059905:3
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=PU(0.1=0.0)
A:
NA
C2:
PF0104815=PNP_UDP_1=FE(29.1=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACTTGGGAACATCCACTCATGA
R:
GGCATAACGATCAGTTCCTGCA
Band lengths:
176-265
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]