DreINT0108816 @ danRer10
Intron Retention
Gene
ENSDARG00000033251 | osbpl3a
Description
oxysterol binding protein-like 3a [Source:ZFIN;Acc:ZDB-GENE-040912-77]
Coordinates
chr19:20429092-20429594:+
Coord C1 exon
chr19:20429092-20429195
Coord A exon
chr19:20429196-20429510
Coord C2 exon
chr19:20429511-20429594
Length
315 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAAT
5' ss Score
8.76
3' ss Seq
TTTTGTAACTTTGACCACAGAGC
3' ss Score
6.18
Exon sequences
Seq C1 exon
ATCTGTCAGAGTGTGAATCTTCATTGCTGGAATTAAATCTGCTGCTGAAAAATATGGAGGTTCTTCATCGAACATTCTCAGCACCTGCCATTAACTTACTGCAG
Seq A exon
GTAAATAGCATTTGCATGTTGTATGTATTTTTATAATTTTTTGTCAAAATGTTTAGTTTATATCTGATGGTTAATCAATCTACTGAGATATGAACTGTAGTTTTTAATTCTAAAAATAAAAAAGTGCATTTTGTTCAAGTTTGATCTTTATATAATTTTTTGCTTGAGATAATTTAGGATTCCAATTTTAAATAAAAATGAGAAATGTTGAAATAAAACAAACTTAAATTTGTTTTATTTCATTTAATGTTCTTTTTTAAAAGGAAGTAATACAAATATTTGTCATTTGGTTTAATTTTGTAACTTTGACCACAG
Seq C2 exon
AGCGAAGGTTCCAAAAAAGAGAAACGAGGACACAAAAAATGGAAATCAAAGAATTATAGCAAGGAAAATAAAAATGCTCTACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000033251:ENSDART00000142841:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.086 A=NA C2=1.000
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:
CAGAGTGTGAATCTTCATTGCTGG
R:
CTGTAGAGCATTTTTATTTTCCTTGC
Band lengths:
182-497
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]