GgaINT1013535 @ galGal4
Intron Retention
Gene
ENSGALG00000003941 | FUBP3
Description
far upstream element-binding protein 3 [Source:RefSeq peptide;Acc:NP_001006199]
Coordinates
chr17:5934152-5934732:+
Coord C1 exon
chr17:5934152-5934256
Coord A exon
chr17:5934257-5934629
Coord C2 exon
chr17:5934630-5934732
Length
373 bp
Sequences
Splice sites
5' ss Seq
GAGGTATGT
5' ss Score
9.81
3' ss Seq
TGCTTTGCCTTTCCCATCAGGTC
3' ss Score
11.14
Exon sequences
Seq C1 exon
CAAGCAAGGGAAATGGTACTGGAGATCATCCGAGAGAAAGATCAGGCAGACTTCCGAGGCGTACGCAATGATTTCAGTTCTAGAATGGGAGGAGGCAGCATAGAG
Seq A exon
GTATGTTTTCTTCACAAGTACTCTGCTAACCTCCCTGTGGGACGGGCAGTGGGTGGAAGTCCTCAAGTTTCATGTATAACCTGTAAGTTTTTTTTTTTTTAATGCATTGTTTTCTGTTGCCAGAAAAGTGAGTCTGGCTGCAAAGGGGAGTTCTCATGGACTCCCAGATGGCACTTTCCTAATTGTCTTTTGAAGTTGCATTCTTGTAGCGCAGAGTTCATTTAGTGGGGAAGGAATTTGTGGCCACATGTTTGTTTTTCTTACAGAATATCTTTGTGTAGCCTGGAGCTGCTTAACGTGGCCCATCTCCTTGTTAAATCAGAGTAACTCAGTCTAGTTCTGAGCTTTCATACTGCTTTGCCTTTCCCATCAG
Seq C2 exon
GTCTCTGTGCCCAGGTTTGCTGTTGGAATTGTGATAGGAAGAAATGGAGAAATGATCAAAAAGATTCAGAATGATGCTGGAGTTAGGATTCAATTTAAACCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000003941:ENSGALT00000039554:10
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.086 A=NA C2=0.171
Domain overlap (PFAM):
C1:
PF0001324=KH_1=PD(7.7=14.3),PF0001324=KH_1=PU(3.2=5.7)
A:
NA
C2:
PF0001324=KH_1=FE(54.0=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAAGCAAGGGAAATGGTACTGGA
R:
GGTTTAAATTGAATCCTAACTCCAGC
Band lengths:
206-579
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]