HsaINT0118682 @ hg19
Intron Retention
Gene
ENSG00000079156 | OSBPL6
Description
oxysterol binding protein-like 6 [Source:HGNC Symbol;Acc:16388]
Coordinates
chr2:179247147-179248004:+
Coord C1 exon
chr2:179247147-179247234
Coord A exon
chr2:179247235-179247750
Coord C2 exon
chr2:179247751-179248004
Length
516 bp
Sequences
Splice sites
5' ss Seq
AAAGTATGC
5' ss Score
5.06
3' ss Seq
TGTGACTCTCCTTCTTCCAGTCC
3' ss Score
9.97
Exon sequences
Seq C1 exon
GCTTCAGATGATGAGTCTTACATCAGTGATGTGAGTGATAATATATCTGAAGACAACACCAGTGTTGCAGACAATATTTCTCGGCAAA
Seq A exon
GTATGCATCATTTGAGCTTCCAGGTTGTTCTATCTACATGCCAAATTGCAACACGAAGACTTAATGAACAGGCATTCCCCCTCCCACGCCACCCCCACCCCTGCTAATTGTTCTTTTGGCAGCTGATTGTTCAATACATTCTATTTTGTATGATCTCTTGAGGTAAATGGTTGAAAAAATCTGTTAGGTAAATAGTTAAGAGAAAACGTTTTTCCTCTTTCTCAAACCAACAGCTTGAGTCCTTCTTATTAAATGTATTTAATTTTTTAAAACTTAGCCTGTCTTGTCTTGAATGATATTTGAGTGTATCTAATGCCTTATTTATAAAACTATACACTGTTGTTTTCTGCATTTATTAGCAACCTTGCATTGAAAGAATTCCATTTACTTTTGAAAAGATATAATGAAGACTCATGAAAGGTCTCAAAATCAGATTTATTTGAAAGTTATTTCCCTTCTTGATTTTGTGAAATCAGAACAGCAAAGTGTCCTTCACTGTGACTCTCCTTCTTCCAG
Seq C2 exon
TCCTGAATGGGGAGCTTACAGGAGGGGCCTTCCGAAATGGGCGTCGAGCATGCCTGCCAGCTCCTTGTCCTGACACCAGTAACATTAACCTGTGGAATATCTTGAGGAACAACATTGGTAAAGACCTGTCTAAAGTCTCTATGCCTGTGGAGCTAAACGAGCCGCTCAACACCCTGCAGCACCTCTGTGAGGAAATGGAATACAGCGAGCTCCTGGACAAGGCTTCGGAAACTGATGATCCATATGAGCGCATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000079156-OSBPL6:NM_145739:15
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.687 A=NA C2=0.012
Domain overlap (PFAM):
C1:
PF0022314=PsaA_PsaB=PD(33.1=83.1)
A:
NA
C2:
PF0123713=Oxysterol_BP=PU(15.7=64.7)
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCTTCAGATGATGAGTCTTACATC
R:
CATGCGCTCATATGGATCATCAGT
Band lengths:
342-858
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Genotype-Tissue Expression Project (GTEx)
- Autistic and control brains
- Pre-implantation embryo development
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)