GgaINT0039154 @ galGal4
Intron Retention
Gene
ENSGALG00000008939 | FUBP1
Description
far upstream element-binding protein 1 [Source:RefSeq peptide;Acc:NP_001006535]
Coordinates
chr8:17795115-17795327:+
Coord C1 exon
chr8:17795115-17795164
Coord A exon
chr8:17795165-17795255
Coord C2 exon
chr8:17795256-17795327
Length
91 bp
Sequences
Splice sites
5' ss Seq
TTAGTAAGT
5' ss Score
7.79
3' ss Seq
CTCTATTTTCTTTCTACAAGTCA
3' ss Score
4.08
Exon sequences
Seq C1 exon
GTCTGTGATGACAGAGGAGTACAAAGTTCCAGATGGAATGGTTGGATTTA
Seq A exon
GTAAGTAGTCTGACTGTAGTATTGCATTATAGTGAGGGATTTTAGCAGATGCTGTTAATACAAATATTTTTCTCTATTTTCTTTCTACAAG
Seq C2 exon
TCATCGGCAGAGGCGGAGAGCAGATCTCACGCATACAGCAAGAGTCAGGATGTAAAATACAGATTGCACCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000008939:ENSGALT00000014525:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.133 A=NA C2=0.480
Domain overlap (PFAM):
C1:
PF0001324=KH_1=PU(20.6=86.7)
A:
NA
C2:
PF0001324=KH_1=FE(38.1=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:
TGTGATGACAGAGGAGTACAAAGT
R:
CAGGTGCAATCTGTATTTTACATCCT
Band lengths:
119-210
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]