DreINT0108710 @ danRer10
Intron Retention
Gene
ENSDARG00000053487 | osbp2
Description
oxysterol binding protein 2 [Source:ZFIN;Acc:ZDB-GENE-091113-18]
Coordinates
chr10:7963475-7963876:-
Coord C1 exon
chr10:7963781-7963876
Coord A exon
chr10:7963660-7963780
Coord C2 exon
chr10:7963475-7963659
Length
121 bp
Sequences
Splice sites
5' ss Seq
AAGGTCAGT
5' ss Score
8.68
3' ss Seq
TGTGTTTGTGTGTCCTGCAGGTC
3' ss Score
12.59
Exon sequences
Seq C1 exon
TCTGGAGACATTATAATAGTGAACCACCGGAGCAAGGACACGTGCCACCTCAAATTCTCCCCTTACAGCTATTTTTCCAGAGATGTTCCCCGCAAG
Seq A exon
GTCAGTCTGTGCATAAATCGCCTTCATTCAGTCTGAATATTCCAGCATGTGAAGTGCAGGACTGTGAGCTGCTGCCCCCTGTTGGCCGATACATGGAAGTGTGTGTTTGTGTGTCCTGCAG
Seq C2 exon
GTCACAGGCGTTGTGACGGATGGTGAAGGCAGCGCACACTACATTCTCTCCGGAACGTGGGATGAGAAAATGGAGAGTGCAAAGATCATAGAGAGCAGCCACGCCTGTGGAGGATCTGAAGGCAAACAGAAAACTGTCTATCAGACTCTCCCACCAAAACTACTGTGGAAGAAATACCCTCTCCC
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000053487:ENSDART00000147368:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.076
Domain overlap (PFAM):
C1:
PF0123713=Oxysterol_BP=FE(8.2=100)
A:
NA
C2:
PF0123713=Oxysterol_BP=FE(16.1=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACGTGCCACCTCAAATTCTCC
R:
GGGAGAGGGTATTTCTTCCACA
Band lengths:
242-363
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]