MmuINT0113714 @ mm10
Intron Retention
Gene
ENSMUSG00000042359 | Osbpl6
Description
oxysterol binding protein-like 6 [Source:MGI Symbol;Acc:MGI:2139014]
Coordinates
chr2:76584461-76585269:+
Coord C1 exon
chr2:76584461-76584548
Coord A exon
chr2:76584549-76585015
Coord C2 exon
chr2:76585016-76585269
Length
467 bp
Sequences
Splice sites
5' ss Seq
AAAGTAAGC
5' ss Score
7.31
3' ss Seq
TGCCCTTCTTCCCCTCCCAGTCC
3' ss Score
10.72
Exon sequences
Seq C1 exon
GCTTCTGATGATGAGTCCTACATCAGCGACGTGAGTGACAACATATCTGAGGACAACACCAGTGTCGCCGACAACATTTCTCGGCAAA
Seq A exon
GTAAGCATCGTTTGAGTGTCCGAGTTGTTCTATCTACAGGTCACATTCTAACCGTGGCGAGTCGGTAGCCAGCCATTCCCTCCTTTCCCTCACTTTGGTATTCATAGCTTCTCTTTTGCATAATCTATCCAGGTGGCAATTATGAAATCTATTGGGTATGTGGTTAAGTAGAGAAGGTTTACTTCTAGTTATAAGAAATCCCTCCTGTTAAAATATGCGCGCATGCGCACACACAGACAACTTTGCTTTTTAAAAAAATATTTGAGTATATTTAAAACTTTGCTTAAAATCCTACCCTGATGTTTTGAGCACTTGTTCTCAAATTTATATAGAAACCATCCTATTGGATTAAGGCGCTTAGATGTATTACAGTCAGAATTCCAAGAAAGGGTTTTCTCTCTTCCACTCTGATATTATGAAGCCAGAGCGGGGAAGCATCACTCTCTCTGCCCTTCTTCCCCTCCCAG
Seq C2 exon
TCCTGAATGGGGAGCTCACAGGAGGCGCCTTCCGCAATGGCCGTCGCACCTGCCTGCCTGCTCCTTGCCCGGACACCAGTAACATTAACCTGTGGAATATCTTGAGGAACAACATTGGCAAAGACCTGTCGAAGGTCTCCATGCCCGTGGAACTCAACGAGCCCCTCAACACCCTGCAGCACCTCTGTGAGGAAATGGAATACAGTGAGCTCCTGGACAAGGCCTCAGAGACCGACGACCCCTACGAGAGGATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000042359:ENSMUST00000111929:18
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.800 A=NA C2=0.012
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0123713=Oxysterol_BP=PU(15.7=64.7)
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:
GCTTCTGATGATGAGTCCTACA
R:
CATCCTCTCGTAGGGGTCGTC
Band lengths:
342-809
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Ribosome-engaged transcriptomes of neuronal types
- Neural differentiation time course
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types