MmuINT0113728 @ mm10
Intron Retention
Gene
ENSMUSG00000042359 | Osbpl6
Description
oxysterol binding protein-like 6 [Source:MGI Symbol;Acc:MGI:2139014]
Coordinates
chr2:76549440-76549831:+
Coord C1 exon
chr2:76549440-76549553
Coord A exon
chr2:76549554-76549660
Coord C2 exon
chr2:76549661-76549831
Length
107 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAAA
5' ss Score
4.51
3' ss Seq
TTCGTTTTTCCCTGTTCCAGGTG
3' ss Score
11.84
Exon sequences
Seq C1 exon
ATCCAAAAAGGAAAAGTGCACGGGAGCATAGATGTCGGACTGTCTGTCATGTCGATTAAAAAGAAAGCTCGGAGGATAGACCTTGACACGGAAGAGCACATCTATCATTTGAAG
Seq A exon
GTGAAATTGCTTTCAGCATCTGGTGTTAGCGGGGGATGTGATTTTCCCACACCAGTGGCAGCAAAGAGACTGTTTTCACAGCTGTCTTTCGTTTTTCCCTGTTCCAG
Seq C2 exon
GTGAAATCCCAGGACTGGTTTGACGCTTGGGTCTCCAAACTGCGCCATCACAGGTTGTACCGTCAGAATGAAATTGTGAGGTCGCCGAGAGATGCCAGTTTCCACATATTTCCTGCAACTTCGACAGCTGAGTCCTCCCCGGCTGCTAATGTCTCTGTTGTGGATGGAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000042359:ENSMUST00000111929:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.142
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
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AAAGGAAAAGTGCACGGGAGC
R:
GACTCAGCTGTCGAAGTTGCA
Band lengths:
242-349
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