GgaINT0050743 @ galGal4
Intron Retention
Gene
ENSGALG00000012554 | UPP2
Description
uridine phosphorylase 2 [Source:HGNC Symbol;Acc:HGNC:23061]
Coordinates
chr7:35804359-35805122:+
Coord C1 exon
chr7:35804359-35804448
Coord A exon
chr7:35804449-35805004
Coord C2 exon
chr7:35805005-35805122
Length
556 bp
Sequences
Splice sites
5' ss Seq
GGGGTGAGT
5' ss Score
7.93
3' ss Seq
TTCACCCCGTCTCCCCGCAGCGC
3' ss Score
12.43
Exon sequences
Seq C1 exon
GAGCCGCTGCGGGCGCCGTGACTGCCGCTGGGAATCGCTTCGGGCTGCCTCCGGCGGAGCCGTCATGACCGAAACGACGCGTTACTCGGG
Seq A exon
GTGAGTCGCGGGCGGATCCTGAGCTGGTTTGACTGAGGCGAAAAAAGTTCTCCGGGTTCGTTTCAGCCCTGTTCACGACGTCGATCTCCGCTGTCTGTTGCTTTATCAATGGAGGCACGCGGCAGGCAGGGCAGGCCGACACAGCGGCGCCCGCACAGCCCCGGTTTTTAGTCAGCGCTCGCGTTGCCGGGCGGCTGTTTGGGACCTCGCGAATGTAAGATTCCCGTTAAAAAGCCGTTCCGTGGGACGTGGCACGGTGCGGTGTTACCTGCTGGGTGCTCCTGGCCGAACCCCATCAGCGGAGGAGCTGGGGCGACAAATACTGAGAAATCCCTTCTGCCAAATACGCAGCCAAAAGACACGGAAGGGGTTACCGGCATCGAGAGACGCCACGCGGGAGGCCCCCCGTGTGGCAGCAGGGCTTGGCAGGAGGGGGCTGCCCCGCATTGCCGCCTCGCCCCGTCCCCGGCCGTGCTCCGCATCCCCCCCCCCCCGGGGCCGCCCGCCCTCCCGCTGCCCCGCGCCGCTCCCCCACCTTCACCCCGTCTCCCCGCAG
Seq C2 exon
CGCTGGGCTCGTCCACATCAAAAACCCGCACCTGGAGGCGATGGATGAGGACGTCCTGTATCATTTGGACTTGGGAACGAAGACGCACGACCTGCCGGCTATGTTTGGGGACGTAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000012554:ENSGALT00000020501:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0104815=PNP_UDP_1=PU(0.1=0.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Human
(hg19)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTGACTGCCGCTGGGAATC
R:
TTTACGTCCCCAAACATAGCCG
Band lengths:
190-746
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]