DreINT0172035 @ danRer10
Intron Retention
Gene
ENSDARG00000040869 | upp1
Description
uridine phosphorylase 1 [Source:ZFIN;Acc:ZDB-GENE-050306-2]
Coordinates
chr16:16302231-16302842:-
Coord C1 exon
chr16:16302728-16302842
Coord A exon
chr16:16302581-16302727
Coord C2 exon
chr16:16302231-16302580
Length
147 bp
Sequences
Splice sites
5' ss Seq
TAGGTAGAC
5' ss Score
3.78
3' ss Seq
TTCTGTCTTTCATGTGTCAGGTT
3' ss Score
8.35
Exon sequences
Seq C1 exon
CATGGCATGGGCATTCCTTCAATCTCTATAATGCTACATGAGCTCATCAAGCTGCTGTATCATGCTCGCTGCACTGATGTCACCGTAGTGCGCATTGGAACTTCAGGTGGAATAG
Seq A exon
GTAGACTGCTTTTACCATTTAACTGCTTAATTAAAAGGGTGTTCCCTAGAATTCCAACAGACCTAACCCTGATGTTGTAAACCTTGGGATTTTTTTCTGAGTCATTTCCTGATTTTTTTTTTTCTTCTTCTGTCTTTCATGTGTCAG
Seq C2 exon
GTTTAAAGCCAGGGACTGTAGTGGTTACCAAACAATCAGTGGATTCTCTGTTCCAGCCTCACCTTGAGCAGACTATTCTGGGTAAACCAGTGGTCAGGAGCACAGAACTCGATAAGGAACTTGCCGAGGAGCTGCTTCAGTGTGGAAAAGAGCTTGGAGAGTTTGAGATCATCATTGGAAACACAATGTGCACTCTTGACTTCTATGAAGGTAGTAATGTCTTTGAAGACAAATGTACAAGAATTGCTGCTTACAGTTTTAAAATCCATGTACTGTGAATGATAATCCAATGAAGAAGAGAAATGCAAAACAAGCAGGCAATAAACAATCAGCTATTTCAAATAAATCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000040869:ENSDART00000059905:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0104815=PNP_UDP_1=FE(21.2=100)
A:
NA
C2:
PF0104815=PNP_UDP_1=PD(48.0=92.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CATGGCATGGGCATTCCTTCA
R:
AGCTCCTCGGCAAGTTCCTTA
Band lengths:
248-395
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]