DreINT0108878 @ danRer10
Intron Retention
Gene
ENSDARG00000063730 | osbpl6
Description
oxysterol binding protein-like 6 [Source:ZFIN;Acc:ZDB-GENE-070912-206]
Coordinates
chr9:1424765-1426709:-
Coord C1 exon
chr9:1426596-1426709
Coord A exon
chr9:1424936-1426595
Coord C2 exon
chr9:1424765-1424935
Length
1660 bp
Sequences
Splice sites
5' ss Seq
AAGGTGTGT
5' ss Score
6.64
3' ss Seq
TGTGTGTGTGTCTCCTGAAGGTG
3' ss Score
9.82
Exon sequences
Seq C1 exon
ATTCAGAAAGGAAAGCTTCATGGCAGTATAGATGTGGGTCTGTCTGTGATGTCCATCAAGAAACGAGCTCGCCGCATCGACCTGGACACAGAGGAGCACATTTACCATCTGAAG
Seq A exon
GTGTGTGTGTGTGTGTGTGTGTGTGTGAGGCCGCGAAGGATCAACCGATTATGTCCTTCATTACTTGGGAAACGAAGGATGCATTTAGAGGCTGTGTTTGAAGGAACCTTCAAATTTTTTTGAAATGAGACAGCCTTCGTCGCGCTACAATGACAGCGCACTTCAAATGCATCCTTTGGAGGATGCAGCCTCTGAAATGAGACACAGCTGTAGACTGTGCTATGACTCAGTACACCTTAGCAGTCACTCAAAACACCCTAGCGACTACTTAATAACACCTTGCTCAGAACAGATATCATGTTATAGTTAAACACCGTTAGGTGATTCACTGAGGAATTCTGCGCTCACTGCCTGTAACGTTAACTTAGGCCGTACTCGCACTATGTACAGTTGCCTTGAACCATGCCAAAGCACGCTTGCCCCCCTCCCGTCTCCCCTGACGACCCGCACTCACATACAATTGGCCCTGGGCACGCTTACGTCATCGCTGCTGCGCTGTTCAGTGAGAAGCGCTCTCTCACTCAGCAGCACAGTGGAGATTTCTCTAGTTATATCCTTTCAGTTGTTTGATATGCAGTCAAATATTTCGCCAAACAGTCCTTCGGGATGCGGTGACACGCAGTCAGATATTTTACCAAATAGATCCGCCACTTTAAGCGCTCATAAACAATCATAAAGCTCTCGTGCTGCAGGGATGAGGAGGTCTGCTGAAGTCGCGCAGCTGTGGTGCAGTGAGGGGTTTGTGTATTAAATAAACTACGGCAGTTTGCGTTCACTGAACAGTAAGAATGATTAATAAATCCATATGAAACGGTTTCTTAAAGTCACGTCTCGCTTTCAGTTTCGGGCGTTTTGCACTCACACACAAGCGTACCGTGCCAAAGCCGAAAGTGAACCGCGCTCAGGCACATCTCTTCAACCGGGCCAGGGCCGGCCAAGTGAACCGTGCTTGAGCCTGATTCAGCGCACTCACACTTCTCAAACGGGAAACGGGCCTGGGCACGGTACGGATGGCATAGAGTGAGTAGGCCCTTACATTATGCTCACTATCCTCGGCCCGTTCTTAATTTTGATTCTGTAAGATGTCCAAGAAACCCTTATTAAGTCTGCACCTTTATTACAGCTCCAGACGGACATTTCTCAAAGAGGGAATAACAAAAGTCTTACCTGAGCCGGTGTGTGGGAGCTCGAGTGCCCATCAAGCACACTGTTGTGATCGGTAGCTCTCGATTGTTTATTAATGGCTGTGGCAGCGTTGACGTAATTTTGACAGAGTGTCGCTGTTTGATTCATACTCGTAATCAGGTCTTTGTGTCCGCGGTGAAACTGTATTTCGTGTTTGTAAAGTACACCCATCGTAAATTTATCAGTCCTTTACAAAAAGACAAAGAAAATGTTGCATCTGTGTCTGTTCTAATTGCAGATTTTGGAATTGTACTCTCGTAAAATTACGAGTACGCTCCATTTTCCTTTACGATTTTATAATTACAGATGCGTGAAATTTATTTACGCACAAAATATTTATGACAGCAGTTTTATTCCATTTGATGGTTTTGTCTAATAGCCGTGTGTAGCGTCAGTGGAATGATTGTGTTCATGTTATTGTGTCTGTCTCTGATTTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTCTCCTGAAG
Seq C2 exon
GTGAAGTCTCCAGATGTGTTTGACCTCTGGGTGTGTAAGCTGCGTCACCATCGTCTGTTCCGGCAGAATGAGATCGTTCGCTCTCCTCGGGACGCTACGCTACGAACCTTCCCTCCGTCTGCTGGTGCCGAGTCTCCCCAGAACACCCCGTCCAGCACACACCCTAAGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000063730:ENSDART00000124777:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.039 A=NA C2=0.465
Domain overlap (PFAM):
C1:
PF154091=PH_8=FE(41.1=100)
A:
NA
C2:
PF154091=PH_8=PD(18.9=29.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGAAAGGAAAGCTTCATGGCAGT
R:
TCTTAGGGTGTGTGCTGGACG
Band lengths:
279-1939
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]