DreINT0108839 @ danRer10
Intron Retention
Gene
ENSDARG00000040482 | osbpl3b
Description
oxysterol binding protein-like 3b [Source:ZFIN;Acc:ZDB-GENE-090109-1]
Coordinates
chr16:21537998-21539762:+
Coord C1 exon
chr16:21537998-21538090
Coord A exon
chr16:21538091-21539602
Coord C2 exon
chr16:21539603-21539762
Length
1512 bp
Sequences
Splice sites
5' ss Seq
CAGGTGATG
5' ss Score
5.99
3' ss Seq
TTCTACTGTGATGTTGGTAGGTA
3' ss Score
5.74
Exon sequences
Seq C1 exon
GCTTCAACATATGACAGCCCAAAAAAAGAGAAGAGACATCCCAGAAAATGGCGCCCTAAGAATTATGGGAAAGACAACAAAACAACCCTGCAG
Seq A exon
GTGATGTGTGACCTTCTGCATTCAGACCTGATATTAATCCATAAACAACTTTGAATAGCTTAAAAGGCACTTATAACTACAGTATAAATAATACAAAAATAAATAATACATAAATATGTTATATTAGAAATCATGCATTTTTAATGTTAATGTTGTTTTAATGAGCTGATTATCGGATGTGTTGCATGTATAAATATTGTGATAACAATGAAAGTCACTCTCATTCACACAGCACCACACACCCCATTGTGGGTTTATTTAAGCATCACACAAAGGAAAATTAAGTAATACTGCAAACACAAAGGGCCCTATCATACACCCGGCGCAGTGTGGCGCAAGACGCGGCGCAATAGTCTTTTGGTAGTTTCAGCTTGGCGCAAGAGTCGTTTGTGGCGTTGCGCTACGCTGTTTAAATAGCAAATGCATTAGCGCTCATATGTGCGTCCATAGGCGTTCTGGTCTAAAAAGGAAGGCGTTCTGAGGCGGACCGCTGGCGCGTTGCTATTTTACGAAACTATAATGGATTTTTCATTAGACCAAAACAAACCCGGTCTAAACTCCGGCGCAGAGTTGCGCCTCGCTTACGCACTGCTTAATACGCACAAGAGAGCAATAGGCAAATATCTTTACATATGAAAAAATTTCAATATTAAGGATATATAGGATATAATAAGAATAGATATATGATATAAATATAAAGGATTAAAATATTATTAAACATACTATTTTCTAGCCTACATAATTATGAAAAATCACTGCTTTTACGTCTTCTTCATTCATAACAATTTGCTTTTGTATAATATTATTATTATTAGCAGTATTATTTAATATATCCATATTTATATTTGTTTTATTAAAAACAAGCTTAGATTTGCCCACCTGTCAGGTTTTAGACCATATGGGGCATGGCAGGTATATTTAGAAATAACTCAGTATTTTGAACACACTTGGTAATTATTGTTCATTTATTCGTTTGCTAGAAATTAGAACTGAATTTAGAAATAGATTTGAAACAAATCTTTGCGCTTAACAAACGAAATTAATTATTTATAGGCTAATTGATGTCTGTGCGTAAAGATTTTCCTATTCAAGAGCGAATGTGAAAGTGATAAATTATCTCTCATTCTCACGCAGTAGATGCTCTGTTTAACAGTTTTCTGTTAAAAAACTGTCAACTGTTAACTGTTTGCTTGTGAAATGCTCATTTTTTCCACTTAGACTTACTTTGCGTCCTGTAAATAGCGAATGCGCTCTTGGCGCGACACAGCTGGGTCTTAAAGGGAATGGGAGATGAGACTCTAATTGGTTTATTCTCAAAACACACCTATAACTCATTAAGAAAATAAACTCAACCCTTTTAGCCCATGCGTCTTGCGCTTTGCGCATGGACCGTCAAAATAGAGCCCAAAAAGTCATCACTCATCATTTTACTCATATTGTTCACTGTGCAACAATGAACAGCACCATTACTGACTTTCACCCTGGTGTTTTTTTCTACTGTGATGTTGGTAG
Seq C2 exon
GTACCAAGCTGTATCTCGGCAGGCTCTGTACGTCTCCATGCATCCAATCCCAACCTCTCTTCAGTAGACCTGACCACTGAGAAGACCTATCATGAACCTCTGGACTCTCCTATAGACGTATCCAAACTGCAGGAAGACTTCTGCCGAGTCGCAAACAACC
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000040482:ENSDART00000145886:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.742 A=NA C2=0.389
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:
GCTTCAACATATGACAGCCCA
R:
TTGTTTGCGACTCGGCAGAAG
Band lengths:
251-1763
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]