DreINT0108822 @ danRer10
Intron Retention
Gene
ENSDARG00000040482 | osbpl3b
Description
oxysterol binding protein-like 3b [Source:ZFIN;Acc:ZDB-GENE-090109-1]
Coordinates
chr16:21558649-21559584:+
Coord C1 exon
chr16:21558649-21558786
Coord A exon
chr16:21558787-21559490
Coord C2 exon
chr16:21559491-21559584
Length
704 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGC
5' ss Score
8.7
3' ss Seq
GATGTGTGGTTTTCTCCTAGGCT
3' ss Score
8.19
Exon sequences
Seq C1 exon
AAGCAAGACTCCAGTGATTGTTCCCGCCCCCTTGTTCACCAGGCATCCAATGAGAGCAGAGCTTCCATTTCAGAGTCACTGTCAGAGTTCTTTGATGCACAGGAAGTGCTGCTGTCAGCGAGTTCTTCAGAAAATGAG
Seq A exon
GTGAGCATGAAGTCCCCTCTCTTCAATTCTCCCACAAATGTGCAACCGTAAGTATCATCACAGTTTTGGGCACCACAACCAAAATGAATCATATGCTGGAGGTGTTCATCTGCAACACACTTTATAGACTATAGTATAGTGTAATGTTTTTTAAATTGCTTCAAGGACTGAGATATTATGGCCTGCTCCTACCTAAATAGTTCAGTAGTTTACTGCACTTCCTCAAGAGACTAACTGCCTCAGCTCCTTCCTTTACCTCAGGCAGACAATGAACTGGACACCCCATTAGGAGAAACAGAAGGAACTAATTATATTTAACATGTAATAAGTGCTACGGATGACATTCCACAGTTAGAGGAACTAGCCTGCCTAACATCTCTTCTTTCTCTCTTTAACTTCATCTCTGCCTCAAATTGAGGCCGACCTGCTGAAGCATCTCCTGTAGCAGAAGTAATAGGAAAATTGAGATAATTGCTTTCTTCTAAAAATTCTTCATAAAGAGTTTTAGTGAGAATTAGTACATCCACGCTATTAGAGCATCAGACACGCAAACACACTTAAGATGTATTTTCACCGTTACTTATGGTGCACAGAGATCCATACTGTATGTTAATGCCTCTCAGCTTCTAGATGGTGAGACTATGATACATGTATGCTGTCAAAGAGCCAAACACCTGTAATGATGATGTGTGGTTTTCTCCTAG
Seq C2 exon
GCTTCAGAAGATGACTCATATATCAGTGACATCAGTGACAACGTGTCCATGGATAACTTCAGCAACGAGGCAGAGAATGAGAGACTCAATACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000040482:ENSDART00000145886:13
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.522 A=NA C2=0.594
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
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:
AGCAAGACTCCAGTGATTGTTCC
R:
TGTATTGAGTCTCTCATTCTCTGCC
Band lengths:
230-934
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]