GgaINT0036347 @ galGal3
Intron Retention
Gene
ENSGALG00000002725 | UAP1
Description
NA
Coordinates
chr8:3840860-3842753:-
Coord C1 exon
chr8:3842565-3842753
Coord A exon
chr8:3840927-3842564
Coord C2 exon
chr8:3840860-3840926
Length
1638 bp
Sequences
Splice sites
5' ss Seq
CCGGTGAGC
5' ss Score
8.69
3' ss Seq
ACTCTGGGTTCTCTCCGCAGTCT
3' ss Score
10.18
Exon sequences
Seq C1 exon
GAAGTTTGTGGTGTACGAGGTGCTGCGTGAGGATGAGTTCTCTCCTCTGAAGAATGCGGACAGCCAGAACGGCAAGGACAACCCCACCACGGCAAGGCACGCCCTGATGTCCCTGCACCACCGCTGGGTGCTCAACGCAGGGGGGCACTTCGTGGATGAGAATGGCACACGTCTCCCCGCCATCCCCCG
Seq A exon
GTGAGCCGCTGCTTCTTCCCTGGAAGGGCAGAGCCTCCTCCGTCCCCCTGGGCTGGCTGTAGGACGTCGGGCAGCCCCCAGCCTTCCTGGTGCCGGTTCTCCTGCACCCAGCGCTGCCGCCAGCAGATCGCAGCACCCCTCGGCCAAGAGACTGCTGCTGCTGGTTGGAGACGGCACCGAGCGGAGCGAGTCGGGGACGGCTTTCCCATCCTTCTTAACCCTTCTTTATTCCCACGTAGCGTCACAAACGGAAGGTCAGATGCCGCCCCAGCTGATGGCAATGACAAGTAACTATACGTGCCACCGGGCTGCATGGTGGCGGGGCTGGGTGTAGGTACTAACGGGCTGCAGGCGGAGCGAGGTGACCGGGCACTAACAGGGGCTCGGGCGCATGCTGCCTGCAGGCATGTCTCGCTGTAGGAGAGCGGTGGCGCTGCTCCTTCCTGCTGCTCCTTTCCGCAGAGGCTTTGGGAAAAGGTGAAGGGTTCTGTGCTGCTGTGGTGAGCTGGTCCCTGCCCTGCAGGTGGGGAGCAGCCCCAGGACACGGGAGGTGGCTGATGTCTCCCAAGGTCTGCCCGACACCCAGCAGGTCGCTCGCTGGAATGGGATGAAAGGCACTGCACGCCCTGAGCAGGCTTTGATGTAGCACGCGTGGGCCGTAGTGGGGACGGCCAGCTGTGCTCGGGAACTCCAGCTGTTGGGCTCGGGATCCAGGCTGACACCAGCAGAGCCGGTGGCAAAAGGCGCTTATAGATGCCCCATCCCTGGAGGCGTTCAGGGCCAGGCTGGATGTGGCTCTGGGCAGCCTGGTCTGCTGGTTGGCAACTCTGCACGTAGCAGGGGGTTGAAACTAGACGATCACTGTGGTCCTTTTCAACCCAGGCCATTCTATGATTTACAAGCACGGGAAGCGTAGAGGGGCGTTAACATTATTGCTCTAATAATGAGCAGCAGGCTCTGGCAGGCGTGGGGATATCCATGCTCCATGCACTGGGCTTATCTCAGAAGGATGCACCAATGGGTTGGAGGGCACTGCCGCTGGTTGCCTTCCATCCCCTTCAGTAGACACTGCACTGCAGCCTTCTGATGGATGCACCTGGGTTCTTGGTTTCTAATTCAGGACTCTGGCTGCCGCCAGGTTTATAGATGCCATCGTGCAGTTAGAATGTGGGATAACAGCTGCAGGTAGTGGCAGTTCCACGCTTTTGTTCTTCACCGCTGAATGGCTTTTAATGATGTTTAATGATTACCTTGAAAGCAGCCAGAGCCTAAGGAGGACACAGGCGTCAGGACCCCATGCACCACTGTGCTGTCACTGTCCAGGAAGCAGCACCCTGGGGCTGTCCTGCAGGGGCTGGGGGCAGTCCCCATGGCAGCAGGGTGCGGGAAGAGGGAGCATCAGATGCAGCGGGGCCGGGGGCATGGTGCTGCTGTAGTGCACACAGGGATCCTCCTTAAAGCTGTGCCTTGAGCTCTCTCCTCTTCTAGCTGCTACCCCTATCTAAACCACAGCTCACGCCTACCTGGGGAGCACACAGGGCTTTGCTAACCAGGGGGGGCCACGTGCCAGCAGCCTGCCAGCACCAGCCCCCAGCCCCCAGCTGCCTGTGGGGGGCTGACTCTGGGTTCTCTCCGCAG
Seq C2 exon
TCTGAAGGATGCCAGCGACGTGCCCATCCAGTGTGAGATCTCCCCCCTTGTCTCCTACGGCGGGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002725:ENSGALT00000004299:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.375 A=NA C2=0.152
Domain overlap (PFAM):
C1:
PF0170413=UDPGP=FE(16.6=100)
A:
NA
C2:
PF0170413=UDPGP=PD(4.7=78.3)
Main Inclusion Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTTTGTGGTGTACGAGGTGCT
R:
GGGGGAGATCTCACACTGGAT
Band lengths:
232-1870
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]