GgaINT0050748 @ galGal4
Intron Retention
Gene
ENSGALG00000012554 | UPP2
Description
uridine phosphorylase 2 [Source:HGNC Symbol;Acc:HGNC:23061]
Coordinates
chr7:35808921-35810329:+
Coord C1 exon
chr7:35808921-35809067
Coord A exon
chr7:35809068-35809433
Coord C2 exon
chr7:35809434-35810329
Length
366 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGT
5' ss Score
10.03
3' ss Seq
GCACTGGGGCCTTCTTGCAGCTG
3' ss Score
7.34
Exon sequences
Seq C1 exon
GTCAAGGGAGGTTAGATGGAGCTCTGTGCTCTTTCTCCAATGAAAAGAAGTTGCAGTACTTAAAGCGAGCTCATGATGCCGGCGTGAGAAATATTGAAATGGAGTCAACGGCGTTCGCTGCGCTGTGCGGGCTGTGCGGGCTGCGAG
Seq A exon
GTGAGTGCTGCCCCGGGCTGCCCAGCTCCTCCCTGTGGGGCACGGGGCTTTGTGGTTACCAGAGCTGATGTGAAGGCCAGAAACGCATTCCTAGCATTTCCATTAGAAAAAGCACGCTAAAGCCAATGTCACAGCTCGATTCAAAAGGCCTGAGTACCTGTTGGATAGAGCAGGAAGTAACGCCTCACTCCTCTCGTGGCGTGGGTGCACCTCTCAGCTGCGGCGATGCAGCCACGTCCCATCTCACCGGCCTCGTGCCCACCCCACACCTTCTGCTGCCGCCCCTCAGGCAGCCCCCGGCAGCTGCCAGCACAGCCCGGTGGGGTTCAGCCACCCCTGCAGTGCAGCACTGGGGCCTTCTTGCAG
Seq C2 exon
CTGCTGTGGTCTGCGTAACGCTCCTGGACCGCCTGGAGGGGGACCAGATCCGGGCGTCCCACGAGGTGCTGCAGGAATACCAGCAGCGGCCGCAGCGCCTGGTGGCGGCCTTCATCCGGAGACGCCTGGGGCTGCGCGCTGCTGCAGGGAACACACGGCCTTCCAGCGACTGAGGGCACTGCCATCCCCCACACCACCATGGGACTAATCCACACCACAGGCAAGTGGGCTTGGAAAGCAGGAAAGATGGACCGGGGTTGGGGGCATGCGTCCCCAGGGCTGCAGAGGCACTGCGGCCTCCGAGCAGGGAGTTGTAACTGCAAACACTGCTGTGCTGGCGTGGTGTGTCTCAAACAGCTGGAATTGCATCAGTACTGCTCAGGAAATAAGAGCGTGCCCCACTGGCTCCTGCCCTGTGAATGGAAGGACTGTCCTGCAGGGTGCCCTTGCCCCATGTCCCTCATCAGGGGAACACGTTGCTCCGGGCGCAGTGCTGATAGCCGAGCAAATGGCACACGCAGCTCATCTGCTCTGTGAGCGCCGCTGCTCCTCACTGCGGTCAGGAAAGGCTCTCAGACTCATGCAGCCTGATGAGCTCTGTGGGGCCACAGCCCGGCCCAGGCACCCAGTGGGCAGGGAGCACCTCTGCCACCAACAGACGGGGATGCAGGCGGGGTCTGTGAGTACTGCCCCATGCTGTAAAAAGGCCGGTCTGCTGGTGGGTGGGGGCGGAGGGCGCGCACAGGGGTTATGCACAGCCCAGCCAATTTAGCACTGAAACCACTTCCAGTTTTGAAGGCTCACTCACAAGGTTGCTTGCAAATGAATTTTGGCATTTTTAGAACAGTGACTTACAGGATTCAAGAGTTCAGATAAATAAAAGTGGTATGTATCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000012554:ENSGALT00000020501:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.123
Domain overlap (PFAM):
C1:
PF0104815=PNP_UDP_1=FE(19.5=100)
A:
NA
C2:
PF0104815=PNP_UDP_1=PD(15.5=67.2)
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:
TAAAGCGAGCTCATGATGCCG
R:
CCGGTCCATCTTTCCTGCTTT
Band lengths:
342-708
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]