GgaINT0039160 @ galGal4
Intron Retention
Gene
ENSGALG00000008939 | FUBP1
Description
far upstream element-binding protein 1 [Source:RefSeq peptide;Acc:NP_001006535]
Coordinates
chr8:17799347-17799627:+
Coord C1 exon
chr8:17799347-17799449
Coord A exon
chr8:17799450-17799526
Coord C2 exon
chr8:17799527-17799627
Length
77 bp
Sequences
Splice sites
5' ss Seq
CAGGTTGGT
5' ss Score
8.08
3' ss Seq
ATCATTCATTTTTATTCTAGATG
3' ss Score
8.36
Exon sequences
Seq C1 exon
GTTCCAATACCACGGTTTGCTGTAGGTATTGTAATTGGAAGAAATGGGGAGATGATAAAAAAGATACAGAATGATGCTGGTGTTAGGATCCAATTTAAGCCAG
Seq A exon
GTTGGTAATAAATCTGTATGTTTTTGTGAATGAGTTTAATGGATTGCATATACTGGAATCATTCATTTTTATTCTAG
Seq C2 exon
ATGATGGAACAACTCCAGATAGAATAGCCCAGATCACGGGGCCTCCTGACAGATGTCAGCACGCTGCAGAAATTATTACAGATCTCCTTCGAAGTGTTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000008939:ENSGALT00000014525:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.314 A=NA C2=0.824
Domain overlap (PFAM):
C1:
PF0001324=KH_1=FE(54.0=100)
A:
NA
C2:
PF0001324=KH_1=PD(39.7=73.5)
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:
TCCAATACCACGGTTTGCTGT
R:
GCAGCGTGCTGACATCTGTC
Band lengths:
168-245
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]