DreINT0172034 @ danRer10
Intron Retention
Gene
ENSDARG00000040869 | upp1
Description
uridine phosphorylase 1 [Source:ZFIN;Acc:ZDB-GENE-050306-2]
Coordinates
chr16:16302728-16303711:-
Coord C1 exon
chr16:16303553-16303711
Coord A exon
chr16:16302843-16303552
Coord C2 exon
chr16:16302728-16302842
Length
710 bp
Sequences
Splice sites
5' ss Seq
AGTGTGAGT
5' ss Score
6.96
3' ss Seq
GAATTTTCTTTGTGTTCTAGCAT
3' ss Score
8.25
Exon sequences
Seq C1 exon
TTTGTGTGTGTAGGGGGAAGTCCATGGAGGATGAAATCTTTCACTGAATACATTGCCAAAGAACTGGGACTGGTGGACCCCAATGCAGAATACCCAAATATATGTGCAGGAACTGATCGTTATGCCATGTACAAAGTGGGACCTGTGTTGTCTGTCAGT
Seq A exon
GTGAGTGAACTCTCCACATGCACATTTACCATACATTTGGAGTTACAAATGCTTTTTATTTAGAAATGGATTAAGCCGTTTTATTTGTATTAAAATATTGTTCCTTTTGAACTTCGTAGTAATCAAAACATACTAAAGAAGTTTGTCATTATTATAAAAACTAATATAAGAGGTGTATAATGCTTAAAATAAATGTTTATGAAGCAGCAAATCAGCAGATTAGAATGATTAATGAAGGATCACTGTCTCTAGGTTTGTTTACATATGTTAATTTTCCTCAGCTGGAATGGGTTAAATCAGAATTCAGGTTCAGAAGTTTATATATTAAAACAGAAACAATTACCATTCAAATATGTTTTTTTATGAGTGAACAAATCCTTTATCATAACAAATTTAAACCATTTTAATAAAAGTAATAAAGTCTTCCTTCTAAAAAAGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTAAAAAGATTCCTTTTTCCTAAAAAGATTTGGGTTCCTTTGTAAAAGAAAAGGAATGTGGCATTTTAATACTAATTTTAAAGTGATTTCAAGCCAAAATAAAACTTAAGCATAATTCTTTTTAACAGCTTTTGCAATTGACCCTTTGCTGCAGTTTGATTGACAGACCATACTACGATGACAGCCAGTGTTTTTTGAATATTTACATTGAATTTTCTTTGTGTTCTAG
Seq C2 exon
CATGGCATGGGCATTCCTTCAATCTCTATAATGCTACATGAGCTCATCAAGCTGCTGTATCATGCTCGCTGCACTGATGTCACCGTAGTGCGCATTGGAACTTCAGGTGGAATAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000040869:ENSDART00000059905:4
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(29.1=100)
A:
NA
C2:
PF0104815=PNP_UDP_1=FE(21.2=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:
TTTGTGTGTGTAGGGGGAAGTC
R:
TCCACCTGAAGTTCCAATGCG
Band lengths:
270-980
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]