GgaINT0036344 @ galGal4
Intron Retention
Gene
ENSGALG00000002725 | UAP1
Description
UDP-N-acetylglucosamine pyrophosphorylase 1 [Source:HGNC Symbol;Acc:HGNC:12457]
Coordinates
chr8:3805987-3806676:-
Coord C1 exon
chr8:3806504-3806676
Coord A exon
chr8:3806181-3806503
Coord C2 exon
chr8:3805987-3806180
Length
323 bp
Sequences
Splice sites
5' ss Seq
AAGGTATGG
5' ss Score
9.26
3' ss Seq
AGATGCCCTTCCCTGGGCAGGTG
3' ss Score
9.63
Exon sequences
Seq C1 exon
ATGGCAATGGGGGTCTGTACCGGGCACTGGGGGTGCACGGCATCGTGGATGACATGGAGCGGAGGGGCGTGCAGAGCGTCCACGTCTACTGTGTGGACAACATCCTGGTGAAGGTGGCTGACCCCAGGTTCATCGGGTTCTGCCTGGAGAAGGGAGCGGACTGCGGGGCCAAG
Seq A exon
GTATGGTTCTCAGGCTGCCCCCACCCTGGCTTCCCCAGCCCCTTTCCAGCTGTGACATCCTGGACACCCGTGCAGTGGGTGCAGCTGACACACCCAGCGCTGCTCCACGTGTCAGCTGTGCGATGTTGCACACCCGAAGCTTTGCTCAAAGGCCGGATTAAGAGCAAAAGGTCCTGAGCGTTTGTGTTTGCTTTGGGCTCGGCTCTGGCAAACAGGCAGTAGATCTCACTGACCTTGGTGCTGCTGGAGCTGGGAAGGGAAAGCGGTCCCTCCCTCTGGCTGGCAGGAGGAGAAAGTAAACCAAGATGCCCTTCCCTGGGCAG
Seq C2 exon
GTGGTGGAGAAGACCAACCCCACGGAGCCAGTCGGCGTGGTGTGCCGCGTGGACGGTGTCTACCAGGTGGTGGAGTACAGCGAGATCTCCCTGGACACGGCGCAGAAGCGGGGCCCAGATGGGCGGCTGCTTTTCAACGCCGGCAACATCGCCAACCACTACTTCACCACCTCCTTCCTGAAAGATGTCGTCAA
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=0.000 A=NA C2=0.015
Domain overlap (PFAM):
C1:
PF0170413=UDPGP=FE(14.0=100)
A:
NA
C2:
PF0170413=UDPGP=FE(15.7=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:
ATGGCAATGGGGGTCTGTACC
R:
GGTGGTGAAGTAGTGGTTGGC
Band lengths:
344-667
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]