DreINT0108694 @ danRer10
Intron Retention
Gene
ENSDARG00000004634 | osbp
Description
oxysterol binding protein [Source:ZFIN;Acc:ZDB-GENE-090312-18]
Coordinates
chr1:52046364-52048191:+
Coord C1 exon
chr1:52046364-52046609
Coord A exon
chr1:52046610-52048070
Coord C2 exon
chr1:52048071-52048191
Length
1461 bp
Sequences
Splice sites
5' ss Seq
CAGGTGTGG
5' ss Score
6.34
3' ss Seq
ATCTTTATTTCCTTCTTCAGGTA
3' ss Score
11.59
Exon sequences
Seq C1 exon
GTGAACTTCAACGAGCCGCTCTCCATGCTGCAGCGTCTCTCTGAGGATCTGGAGTACTATGAGCTGCTGGATCGAGGAGCAAAGTGCCAGAGCTCTCTGGAGCAGATGTGTTACGTGGCCGCTTTCACCGTGTCATCGTACTCCACTACAGTTCACCGCACCGGCAAACCCTTCAACCCGCTGCTGGGAGAGACCTTTGAGCTGGACCGCCTGCAGGAGAGCGGGTACAGGTCCCTCTGTGAGCAG
Seq A exon
GTGTGGCCCTACACACTCTTCATCCTGAGACGCAGGAAGAGTGCATTGAAATCAAGCCATCTGCTAATCTCTTCTTCCTTCTTCTTTTTTCTTCTTTCACCTTCTTTTTATTCTCCTCTAATTTTTTTCTTCCTTATCTCCTTTCTTCTACATCTTCTTTTCCTTATTTTTTCTTCTCCGACTCTTTCTTCTTATTATTGTTCTCCTTTGATTTTTTTTTCTTCTCCTTCTTTTTCTTCTTTTCTTCCTCCTTATTTGTCTTCTTCTCCTCCCTTTTCATCTTCTCTTCTTTTTCCTTCATCTATTCCTTCTCCCTTTTGTCCTTATCATTTTCTTTAACTTCTCATTTATCTTCTCCTTCATCACCTTCTTCTCCTCCTCCTTCTCCTCTTTTTTTCATCCTCCTTATTCATCTCCTTCTTTTTCTATCATCTTCTTCTCCTCCTCTATTCGTTTTCTCCTCCTCTTCATTCTTTTTCTCCTTCCCCTCCTTTTCTTCTCTTTCTCCCCCTCCTCCTCTTCTTCTCCTTTTTCTCCTCCTTTTTCTTCTTCTCTTCCTCCTTATTTTTCTTCTCCTCCTCTTCCTCCTCTTCCTTCATCATAATCTCATCCTCCTTGTCCTTCATCATCTTCTCATTTTCTTCATTTATCTTCTTCTCCTCCATCATCTTCTCCTCCTCCTCCTTATTCGTCGTCCTTATTCTTCTTCTCCTCTTCATCCTTTTGTTCTCCTTCTCCTCCTCCTTTTTCTTCTTTTCTTCCTTCTTATTCGTCGTCTTCCCCTTCTTCTCCTCCTTAATCTTCTCCTTCTTGTCCTTCATCATCATCATCTCCTCCTCCTTGTCCTTCATCATCTTCTTCTCCATTTCTTTATTTATCTTCTTCTCCTTCATCATCATCTTCTTCTCCTTCTCCACCTTCTCCTCCTTCTCCTTCTTAATCTTTTTCGCCTCCTATTTGTTCATCATTTCTCCTTGTCCTCTTCCTTATTCATCATCTCCTAATTTTCTTCTCCTGTCCTTATTTATTTTCTCCTTCATCATCTTCTCCTCCTTCTCCTTCATAATCTTCTTCTCCTCCTCCTTTTCTTCTCCTTCTTCTCCTCCTCCTCCTTTTGCTTATTCTCTTCCCCTTTATTTGTTATCTTCTCCTGCTCCCTATTCATCCTCTCCTTCTCCCTTGTCCTTTATCATCTTCTTCTCCTTATTTATCTTCTCCATCATCTCTTTCACTGCCCTTATTTATCTTCACTTTCATCATTTTCCTTTTTCTCCTCTTCTCCTCTTCCTCCTTATTCAACTTCTCCTCCTTCTCCTTCATAATCTTCTCCTCCTCCTCCTCATTTATTTTCTCCTCCTCCTTCTGTTCCTTCATCATCCTCTTCTCCTCCTTATTTATCTTCTTCTTCATCTTCTCCTTCTTATTCCTCTTCTCCTTCATCATCTTTATTTCCTTCTTCAG
Seq C2 exon
GTAAGCCATCATCCTCCAGCTGCTGCCCATCATGCGATCTCTGAGCGAGGCTGGACCCTGAGACAGGAGATCGCGCTGGCCAGCAAGTTCAGGGGCAAATACCTCTCCATTATGCCTCTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000004634:ENSDART00000141530:10
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=0.000
Domain overlap (PFAM):
C1:
PF0123713=Oxysterol_BP=FE(20.0=100)
A:
NA
C2:
PF0123713=Oxysterol_BP=FE(10.5=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:
GAACTTCAACGAGCCGCTCTC
R:
ATTTGCCCCTGAACTTGCTGG
Band lengths:
344-1805
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]