HsaINT0118538 @ hg19
Intron Retention
Gene
ENSG00000110048 | OSBP
Description
oxysterol binding protein [Source:HGNC Symbol;Acc:8503]
Coordinates
chr11:59344278-59345803:-
Coord C1 exon
chr11:59345622-59345803
Coord A exon
chr11:59344499-59345621
Coord C2 exon
chr11:59344278-59344498
Length
1123 bp
Sequences
Splice sites
5' ss Seq
ACCGTGAGT
5' ss Score
9.4
3' ss Seq
TTCTTGTCTTCTACTTTTAGGAA
3' ss Score
11.15
Exon sequences
Seq C1 exon
GTGACGGGGGAAGTGACAGATCCATCAGGAAAAGTCCACTTTGCTCTTCTGGGGACGTGGGATGAGAAAATGGAATGTTTCAAAGTACAGCCAGTCATTGGGGAAAATGGGGGTGATGCTCGACAGAGAGGCCATGAAGCAGAGGAAAGCAGGGTCATGCTGTGGAAAAGGAATCCTTTACC
Seq A exon
GTGAGTATCAGCATGCATGCTGCCCAGATACCACTTTGACCTTGACTGTGGAGCAATATTGAAGGCATTTCTGCCTGCCCTCTCACTTAATTATGTGGGGAATTGAGCAAGGGAAATTGAGACTTTTGGAGAGATTAACAGAAGGTTGTCATTGTATGATTTGACTTGTAGCATGCTTATTTCAAGGAAGTTCAAACCAAACTACATCTGACAAAAAATACTTTGTGCTTTCTAAAGGTCCTTTGGATTGTGATTCAGAAGGGTATTTTTCTACTATTTAGAGCAAAACTGTTCAAAAGTGGCTAGAGGAGGAAGGTGCCTACCACCTGTTAACAATTTAGCCTAAAGGCCCATCAGCAGCCAGGTGCGGTGGCTCACGCCTGCAATCCCAGCACTTTGGGAGGCCAGGGCAGGTGGATCACTTGTGATTAGGAGTTCAAGACCAGCCTGGCCAACATGGCGAAACCGTCTCTACTAAAAATACAAAAATTAGCCACATATGGTGGTGTGCACCCATAATCCCAGCTACTTGGGAGGCTGAGGCATGAGGATGACTTGAGCCCAGAAGTTTGAGGTTGCAGTGAGCTGAGGTCATGCCACTGCACTCCAGCCTAGGCGACAGAGTGAGACTGTCTAAATAAATAAATAAATAAGAAAAAGAAAAAAAAGCCCAGCAGAAAAGAAAGATCCCTGAGACAATGTACAGGACTTTGGAAACAAGATGGAGGTCACTTATTTCCTGTCGTCATCTAATACAGTCAGTTTGTAGTGATAGCCAAGATTATCCCAGAGAGAGTTAAAAAGAAAACTAAGGAAACAGGAGTGAGGAATTTTCATTCAGTAGAATGTTTCCTTCTTTCTAATGAACGTAGATAATTTCAGCTGGGCACCACACAACACCAGAAGACTATGGAACTGAGTGATGCCAGGGAGCGGATGGGGAGGGATCCAATTTGTCTCCTTTAGTTAGGGCAATGTGACATGGTCCTAGATCCTTTTCACAGATCCTGTTTTTGTAGAACAGCCTTGGTGATGTGGCCTTGGCAGTGTACTTAGTTGTTGCTCTTTAAATAGGGTCTGGGCTCTGGGATTACCATTTCTTTTTCTTGTCTTCTACTTTTAG
Seq C2 exon
GAAGAATGCAGAAAACATGTACTACTTCTCAGAGCTTGCTCTGACTCTCAATGCTTGGGAAAGTGGCACTGCCCCCACAGACAGCCGGTTACGACCTGACCAGAGACTGATGGAAAATGGACGCTGGGATGAAGCAAATGCGGAGAAGCAGCGCCTGGAGGAAAAACAAAGACTTTCCAGAAAGAAGAGAGAAGCGGAAGCTATGAAAGCCACAGAGGATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000110048-OSBP:NM_002556:12
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.328 A=NA C2=0.680
Domain overlap (PFAM):
C1:
PF0123713=Oxysterol_BP=FE(15.9=100)
A:
NA
C2:
PF0123713=Oxysterol_BP=FE(19.6=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGACGGGGGAAGTGACAGATC
R:
TTTGTTTTTCCTCCAGGCGCT
Band lengths:
351-1474
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)