GgaINT0039166 @ galGal3
Intron Retention
Gene
ENSGALG00000008939 | FUBP1
Description
NA
Coordinates
chr8:19606133-19606990:+
Coord C1 exon
chr8:19606133-19606261
Coord A exon
chr8:19606262-19606915
Coord C2 exon
chr8:19606916-19606990
Length
654 bp
Sequences
Splice sites
5' ss Seq
AAGGTAGCT
5' ss Score
6.77
3' ss Seq
TTTCTTGTTGCTCAATTCAGGAG
3' ss Score
7.28
Exon sequences
Seq C1 exon
GAAAGCCAGGAACAGATCCTAATTCAGCAGCATGGGCAGCTTACTATGCTCACTACTATCAGCAGCAAGCACAGCCACCACCTGCAGCCCCTCCTGGTGGACCAGCTACAACCCAAACCAACGGGCAAG
Seq A exon
GTAGCTGCTTAGTAAAGTGGATAAGTTTCTTATTGCTGTGGTTGTAGATGTGCCATAATTTTCTATTGTCTTTGTATGTTGAATAAACTTACTGTAAGGTGAGTTGTTTTCTTAAAAAATATTGTTTACAGCTTTCAGCGTTGCTGTTTTTTTATTTCAGCATTAATGAAGGTCATCTTCTCTTTGTCTTGTAATGTAACTCCTAACACATAATTTTCCTGCTGCTTAGGCTAGTTTAATTTGCATCTTTTTAGTGTGGTCAGTCAGAAGTAAAAATGGAATGAGCCAGTTAGTTGCCATTTGCTTAAACAGTTGCTTCACTTCCTGTGGTTTCAAGAAAATTACAGCTGTAGTATTAAATTGTGTATCATAATAGTTAGAGGCTTTAATGCATTTTAATTAGCATTTTAAACAGCGAGAGATGTACGCTTTTCTGAATTTTGATTGCATGCTGAATAGTTCACATAATTCTTGGTTTCTTTCAGTAATTGTTTTTGTTTTTAGCAGCTTATTTCACATAGGCTTTTAGTGACAGATTTGAGTAATATTGAGATTATTATTACTTTAAAAGTTCATCTGATTGTTTTTAAATTGTTATATAAAACCATAATTAGTCATTTTATTTAAACCTTTATTTCTTGTTGCTCAATTCAG
Seq C2 exon
GAGATCAGCCAAACCCAGCACCAGCAGGGCAGGTTGACTACACAAAGGCATGGGAGGAATACTACAAAAAAATGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000008939:ENSGALT00000014525:17
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.909 A=NA C2=0.846
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF090055=DUF1897=PU(75.9=84.6)
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:
GGAACAGATCCTAATTCAGCAGCA
R:
TTTTGTAGTATTCCTCCCATGCCT
Band lengths:
190-844
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]