HsaINT0118680 @ hg19
Intron Retention
Gene
ENSG00000079156 | OSBPL6
Description
oxysterol binding protein-like 6 [Source:HGNC Symbol;Acc:16388]
Coordinates
chr2:179236853-179238754:+
Coord C1 exon
chr2:179236853-179236960
Coord A exon
chr2:179236961-179238616
Coord C2 exon
chr2:179238617-179238754
Length
1656 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAGA
5' ss Score
10.06
3' ss Seq
TATGCTTCTGTCTTCTGCAGGCT
3' ss Score
11.94
Exon sequences
Seq C1 exon
GCACTCAACCAGAATGCTGAACTAAGGAGTCGGTTGAACAGAATACATTCAGAGTCTATTATTTGTGATCAGGTTGTCAGTGTAAATATTATTCCTAGCCCTGATGAG
Seq A exon
GTAAGACTCATTTTAAATAGATGCAGAGTACCTATTTTTTAGCATCTAAATTTACTGCATATTTTTGTTTATTTATATCCAGTTCTTTCACAGTTAATAAGGTTCCCTCCATAAATATTTGTGTCACTGACAGTTCAGTGTTCTTTGAAGTAAAGGTTATATAAGAGCTTGACATCATTTATACCTGGTGATCAGTGTCTATTTTTATTTATTCCTATGTTCACCTGATGCCACTGAATATTTGATTTATATATCTACTCCAGCTTGTTAATTTTCAATGTCTGTCTCATTCATCATTGGAAGTGTTCATTAGCATCAAATGGCCGGTGAAATGTTGCAAAAAAAAAAAAAAAATTAGCTGAGAAGTTGCCAAGTAAAAATGTTATTAACGTTTGTTTTGAAAGCCCTAAGGACAGAAGTCACCTGACCTTGTTAAGATAATACTAACGGTGCTGCTACAGCTACTACTGCTGCTGCTGCTGCTAATTAATAGCTGACATGTGTCAAGTGAATGCTTACTATGTGCTAGGTATTGTGTTAATGACTTTGCATGTGTTATCTCATTTGACACTCTCAACAACGCTCTGTTAGGTGGTATTATTATTCCATTTTTCAGATTGAAGAAAAGAGAATAGGAGAACATTCAGTATATGGGCTAAACTAAACTTAAGTGTATAATTCTGTTTATGACTCTCCATAAAATTATTACTTTATAGCATGAGAACTTACACTTTTTAACAGTAATGTTAGAGCTTTATATACAGTGGTGATATATGTAACAAGATGAGAGGTTTAACTGATACTAAGGTCATATTTGTACCAAAAACATACATTTTACTAGAAATCTATAGGTACAAGGGTTCTAACCTCTTAGGAAACGTTATCCCAGGACAACTTGTCTTTGACTTAAGTTTTCCACCCTAAATCCATTCACCTCCATGGGCCCTGTGTTCTCAGATAACACTTGTATTCACTCAACTGCCCAGAATCTAGAAGTATTTCTAAAATTTGTCATTCAAAAATAATTTGATAATCTCAGTTGGAATCTTCTTTTCAACCTGAAATGTGCACTAGAATATATATATACATTTCTCTTACATTTTTTATTGAAACTTAAATAGCTTCCTTGAAAACTATTTATCACTTATTGAATAAAAGTATAATTTGAAATAAGGTTCAATATTCCAGTCATGTGTTTTATTGGTTAAAATTCATGATCAAATTGGAAAGTGACGTATATAGTCTGTCTCAAAAATTAGTTTTATAGATTTTCTTAGCATAACTCTAGTAGTTTCTACGAATATTTCTTCATGTTTAATGTACCGTTAGAATATGACAGACCTAAGAATAAGAGAATGAAGTTGTCTCTACAGTCAATCAGGGTATTCATAGCGGCTTAACCTGACTCAGTATCAATCAATCAAAGATTTAAAATCAAGGCACAGTACCAACACCTTTCAACTATTCCTTTTGGGGTCTTTAGACACATTGGAAGGAAACTTATACAGTGATCATTGCTGAATTGCAAGTGAAAATTGCTTGTGGCTGCCACTTTTTAACATACAGTATTAAAGAGTAGAAATCTGGCTAATTTGAAGGAATAGCTATTCTAACAGGGAGAAAAGCAATTACACTGTATGCTTCTGTCTTCTGCAG
Seq C2 exon
GCTGGTGAGCAAATCCATGTCAGTCTCCCCTTATCACAGCAAGTAGCCAATGAGAGCCGCCTCTCCATGTCAGAGTCTGTTTCTGAGTTCTTTGATGCCCAAGAGGTGCTCCTCTCTGCAAGTTCGTCAGAGAATGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000079156-OSBPL6:NM_145739:13
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.028 A=NA C2=0.223
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0022314=PsaA_PsaB=FE(27.6=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCACTCAACCAGAATGCTGAAC
R:
CTCATTCTCTGACGAACTTGCAGA
Band lengths:
246-1902
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- 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)