GgaINT0036345 @ galGal3
Intron Retention
Gene
ENSGALG00000002725 | UAP1
Description
NA
Coordinates
chr8:3842847-3843292:-
Coord C1 exon
chr8:3843099-3843292
Coord A exon
chr8:3842991-3843098
Coord C2 exon
chr8:3842847-3842990
Length
108 bp
Sequences
Splice sites
5' ss Seq
CAAGTACGG
5' ss Score
5.98
3' ss Seq
GCTCTCTTGGCCCCTCGCAGCAC
3' ss Score
6.09
Exon sequences
Seq C1 exon
GTGGTGGAGAAGACCAACCCCACGGAGCCAGTCGGCGTGGTGTGCCGCGTGGACGGTGTCTACCAGGTGGTGGAGTACAGCGAGATCTCCCTGGACACGGCGCAGAAGCGGGGCCCAGATGGGCGGCTGCTTTTCAACGCCGGCAACATCGCCAACCACTACTTCACCACCTCCTTCCTGAAAGATGTCGTCAA
Seq A exon
GTACGGGCTCGGCTCCATATCCTGGACCCGGTCCTCTGGATGAGATGAGCCGTGGCCGGCGTGGTGTCCCTGTGCCTGCCTTAGGCTCGCTCTCTTGGCCCCTCGCAG
Seq C2 exon
CACCTACGAGCCGCAGCTGCAGCACCACGTTGCCGAGAAGAAGATCCCCCACGTGGATATTGAGACGGGGCAGCTGGTCCAGCCTGAGAAGCCCAACGGGATCAAGATGGAGAAGTTTGTCTTTGACATCTTCCAGTTCTCCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002725:ENSGALT00000004299:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.015 A=NA C2=0.184
Domain overlap (PFAM):
C1:
PF0170413=UDPGP=FE(16.9=100)
A:
NA
C2:
PF0170413=UDPGP=FE(12.7=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAGAAGACCAACCCCACGGAG
R:
ATCCACGTGGGGGATCTTCTT
Band lengths:
246-354
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]