DreINT0108815 @ danRer10
Intron Retention
Gene
ENSDARG00000033251 | osbpl3a
Description
oxysterol binding protein-like 3a [Source:ZFIN;Acc:ZDB-GENE-040912-77]
Coordinates
chr19:20428865-20429195:+
Coord C1 exon
chr19:20428865-20428958
Coord A exon
chr19:20428959-20429091
Coord C2 exon
chr19:20429092-20429195
Length
133 bp
Sequences
Splice sites
5' ss Seq
AAGGTAGTT
5' ss Score
6.44
3' ss Seq
AATAGTAACATTTTTGATAGATC
3' ss Score
2.24
Exon sequences
Seq C1 exon
TGTCCCCAGCGTTCTTTTATCTCCATGCAGCCTTCAGCCTTATTGAAGAACAACTGGCGCCAAAACTCACAAGATATGGAGAAATGCTACAAAG
Seq A exon
GTAGTTGCAGAAAACTGCAATGATACATCATTCTGTGCTTCTGTTCTTGGCACAAATGCTACTTATTTCTTAGATAAAGTACATCATTGTAACATTTCAAGTAAAAAAAATGAAATAGTAACATTTTTGATAG
Seq C2 exon
ATCTGTCAGAGTGTGAATCTTCATTGCTGGAATTAAATCTGCTGCTGAAAAATATGGAGGTTCTTCATCGAACATTCTCAGCACCTGCCATTAACTTACTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000033251:ENSDART00000142841:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.219 A=NA C2=0.086
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:
TCCCCAGCGTTCTTTTATCTCC
R:
GCAGTAAGTTAATGGCAGGTGC
Band lengths:
194-327
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]