GgaINT0050744 @ galGal4
Intron Retention
Gene
ENSGALG00000012554 | UPP2
Description
uridine phosphorylase 2 [Source:HGNC Symbol;Acc:HGNC:23061]
Coordinates
chr7:35805005-35805862:+
Coord C1 exon
chr7:35805005-35805122
Coord A exon
chr7:35805123-35805703
Coord C2 exon
chr7:35805704-35805862
Length
581 bp
Sequences
Splice sites
5' ss Seq
AAGGTAACC
5' ss Score
9.24
3' ss Seq
AGTCTGCCTTTTACACCCAGTTC
3' ss Score
4.56
Exon sequences
Seq C1 exon
CGCTGGGCTCGTCCACATCAAAAACCCGCACCTGGAGGCGATGGATGAGGACGTCCTGTATCATTTGGACTTGGGAACGAAGACGCACGACCTGCCGGCTATGTTTGGGGACGTAAAG
Seq A exon
GTAACCGGCAGGGGCCGAAGCCGGGCGGCGGGTCGCAGTGCCCTCGTCCCACGGTGCTGCCGTCCCATACTGCGGCCCCCCGGCCGTGTGCGCTCCTGCCGGAGAGCAGCTGCTCTGCAGCCCAGGGCCGGTCCGTTCCGGCATTTGGAAAGCAGTTTTAGCGTGAACGTTGTGAAAATGTGTCCCTTTTCTCCCTGCTTCTGTGGCCTCTGTGTCATCAGCAGCGCTCTCTAATTGCAGTTGATGCTGCTGGTAGAATAAAATAGACAACAAGCTAACGTCTGGCTTGGCTCTGCTGTCAGTAGGCGTACCGGCAGCTTACATGTGCCGCGTGTACGACAGTGGAGTTATTTCAGATTTTCTTGCCCTGGAAGCGATACCCAACCAGGAGCGGCTGCTCGGCTGCTCCAGCCCAGGGCTGCCCGGCCCCGGGGAGCGCAGCCCGGCTCTGCGTGCGGCGCTGCAGTGCCCTGCGCTGCTCCAAGGAGGCAGCATCCCGCTGCCGACCGCGCCGCGCCGAAGGCTGAATCGCGGTACCTGTTGTAGCCAACACCGCCAACCAGTCTGCCTTTTACACCCAG
Seq C2 exon
TTCGTCTGCGTTGGCGGCAGCCCGAACAGGATGAGGTCATTTGCGCAGTTCATGCACAAGGAGCTGGGGCTGGAGGGCGATGGGGAGGACCTGGCCGACATCTGCGCGGGGACGGACCGCTACGCCATGTACCGCGTGGGACCGGTGCTCTCCATCAGC
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000012554:ENSGALT00000020501:2
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(20.7=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGGGCTCGTCCACATCAAAA
R:
CTGATGGAGAGCACCGGTCC
Band lengths:
274-855
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]