DreINT0108875 @ danRer10
Intron Retention
Gene
ENSDARG00000063730 | osbpl6
Description
oxysterol binding protein-like 6 [Source:ZFIN;Acc:ZDB-GENE-070912-206]
Coordinates
chr9:1389247-1390079:-
Coord C1 exon
chr9:1389957-1390079
Coord A exon
chr9:1389356-1389956
Coord C2 exon
chr9:1389247-1389355
Length
601 bp
Sequences
Splice sites
5' ss Seq
CAAGTCAGT
5' ss Score
2.74
3' ss Seq
GTGTTTGCTGTGTGTAACAGGAA
3' ss Score
9.62
Exon sequences
Seq C1 exon
GTTTCTGGAGGAGGGAAACGTCCAGATGGCGACGGCCGAGAAACAGCGAATCGAGGAGCAGCAGAGAAACAGGAGGAAGTGGATGGAGGAGAACAACATCAAACACCAGCCGCGCTTCTTCAA
Seq A exon
GTCAGTGCACTCTTAAAATAACACAGCATTGGGTCAAATATGGACATTAGGTTCATTAAAACAGTTGAGTTACCATTTTTGAGTCCATTCAGCGATCTTCAGGTCTGACAAGAGCACTTTTAGCTTAGCTTAGCATCATTCATTGAATCCGATTAGACCGTTAGCATCTTTAATCAACTGAAAATGAAAAGTTGTTCTCTTTCTAGGCTGATATGGCTAGAACTATACTCTCATTCTGGTGTAGGAACTTTGCTGCTGTATCATGACTGCACCAAGAGCTGTTACTGTTAGATGCTAATGGTCTAATCCGATTCAGTGATCTATGCTAAGCTAAGCTAAAAGTGCTCCTGCCAAACTGAGAGATCAGCTGAATAGGTTTAATAATAGTCAAACTGTTTTACTCGAGGGAAGCTGTAAAGTGAGCATATTTCCTAAATAAGTGGAGTGTTTCTTTAAGCTAAGAGTTGGGTTTGTCTCTATATAACCCAACATTGGGATAAGACAACCCATTATTTTAAGCGTAATGACCTGCTCATACAAATTCCACTGGAATGCTAATAACGTTGAGCTAAACGCAGTGTGTGTTTGCTGTGTGTAACAG
Seq C2 exon
GAAGGTGATGGACAGCAACCAGAGGGAGAGATGGGTGTCCAACAGCATGTACTGGGAGCTGCGCAAGGATCCAGGCTTCCTGAAGCTAGAAAACCCTGAGCTGTGGTAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000063730:ENSDART00000124777:22
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.429 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0123713=Oxysterol_BP=FE(11.7=100)
A:
NA
C2:
PF0123713=Oxysterol_BP=PD(5.7=54.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTTTCTGGAGGAGGGAAACGT
R:
ACCACAGCTCAGGGTTTTCTAG
Band lengths:
230-831
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]