GgaINT0039166 @ galGal4
Intron Retention
Gene
ENSGALG00000008939 | FUBP1
Description
far upstream element-binding protein 1 [Source:RefSeq peptide;Acc:NP_001006535]
Coordinates
chr8:17805907-17806765:+
Coord C1 exon
chr8:17805907-17806030
Coord A exon
chr8:17806031-17806687
Coord C2 exon
chr8:17806688-17806765
Length
657 bp
Sequences
Splice sites
5' ss Seq
AAGGTAGCT
5' ss Score
6.77
3' ss Seq
CTTGTTGCTCAATTCAGGAGATC
3' ss Score
-13.59
Exon sequences
Seq C1 exon
CCAGGAACAGATCCTAATTCAGCAGCATGGGCAGCTTACTATGCTCACTACTATCAGCAGCAAGCACAGCCACCACCTGCAGCCCCTCCTGGTGGACCAGCTACAACCCAAACCAACGGGCAAG
Seq A exon
GTAGCTGCTTAGTAAAGTGGATAAGTTTCTTATTGCTGTGGTTGTAGATGTGCCATAATTTTCTATTGTCTTTGTATGTTGAATAAACTTACTGTAAGGTGAGTTGTTTTCTTAAAAAATATTGTTTACAGCTTTCAGCGTTGCTGTTTTTTTATTTCAGCATTAATGAAGGTCATCTTCTCTTTGTCTTGTAATGTAACTCCTAACACATAATTTTCCTGCTGCTTAGGCTAGTTTAATTTGCATCTTTTTAGTGTGGTCAGTCAGAAGTAAAAATGGAATGAGCCAGTTAGTTGCCATTTGCTTAAACAGTTGCTTCACTTCCTGTGGTTTCAAGAAAATTACAGCTGTAGTATTAAATTGTGTATCATAATAGTTAGAGGCTTTAATGCATTTTAATTAGCATTTTAAACAGCGAGAGATGTACGCTTTTCTGAATTTTGATTGCATGCTGAATAGTTCACATAATTCTTGGTTTCTTTCAGTAATTGTTTTTGTTTTTAGCAGCTTATTTCACATAGGCTTTTAGTGACAGATTTGAGTAATATTGAGATTATTATTACTTTAAAAGTTCATCTGATTGTTTTTAAATTGTTATATAAAACCATAATTAGTCATTTTATTTAAACCTTTATTTCTTGTTGCTCAATTCAGGAG
Seq C2 exon
ATCAGCCAAACCCAGCACCAGCAGGGCAGGTTGACTACACAAAGGCATGGGAGGAATACTACAAAAAAATGGGTATGT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000008939:ENSGALT00000014525:18
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.690 A=NA C2=0.481
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF090055=DUF1897=PU(88.9=88.9)
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:
GGAACAGATCCTAATTCAGCAGCA
R:
TGTAGTATTCCTCCCATGCCT
Band lengths:
184-841
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]