GgaINT1020410 @ galGal4
Intron Retention
Gene
ENSGALG00000007758 | OSBP2
Description
oxysterol binding protein 2 [Source:HGNC Symbol;Acc:HGNC:8504]
Coordinates
chr15:10708494-10708847:-
Coord C1 exon
chr15:10708781-10708847
Coord A exon
chr15:10708659-10708780
Coord C2 exon
chr15:10708494-10708658
Length
122 bp
Sequences
Splice sites
5' ss Seq
AGCGTGAGT
5' ss Score
8.2
3' ss Seq
TCCTCCTCTTGCTTTTGCAGGTA
3' ss Score
12.83
Exon sequences
Seq C1 exon
GCGTTCGGGCAGTAACCTGAGTGGGGCCAGCGAGGGCCACCCTGAGGACTGGAACCTGGAGGACAGC
Seq A exon
GTGAGTTGGGCAGAGTGGGTGGGATGTCCAGTGAGATGAAATGGCTCTGGGACACCACCTGGGTCCCTGGCCGTGCTGGGTGAGTGCTGCTCAGACCCGTGCTCCTCCTCTTGCTTTTGCAG
Seq C2 exon
GTATTTGAAAGCTCGAATCAAAGCAGCTATAATGAGTCCTGCAAAGATCTCCTGCCAAAGAAAAGGAGACGGAGCCGCATCCCTGACAAACCCAACTACAGCCTTAACCTCTGGAGCATCATGAAGAACTGCATTGGCAAAGAGCTCTCCAAGATCCCCATGCCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000007758:ENSGALT00000012578:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=0.200
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0123713=Oxysterol_BP=PU(5.0=34.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTTCGGGCAGTAACCTGAGTG
R:
AGGCATGGGGATCTTGGAGAG
Band lengths:
230-352
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]