MmuINT0153341 @ mm10
Intron Retention
Gene
ENSMUSG00000042286 | Stab1
Description
stabilin 1 [Source:MGI Symbol;Acc:MGI:2178742]
Coordinates
chr14:31151450-31151731:-
Coord C1 exon
chr14:31151684-31151731
Coord A exon
chr14:31151581-31151683
Coord C2 exon
chr14:31151450-31151580
Length
103 bp
Sequences
Splice sites
5' ss Seq
AAGGTAGGG
5' ss Score
8.76
3' ss Seq
CTCCCACTCACTGTGTGCAGAAT
3' ss Score
7.7
Exon sequences
Seq C1 exon
GAACTGGAGGCAAATGCCCATTTCTCTGCCTTCTCCCAGTGGTTCAAG
Seq A exon
GTAGGGTCAGGGCAGAATGCTAGGGTTGGGCTCCTGTCTACAAGGCCTTCCTGGATACAGAAATGTCCATCTTTATCTCCCTGCTCCCACTCACTGTGTGCAG
Seq C2 exon
AATTCAAGCATCACTCTTCCTGCCGACAGCAGAGTCACAGCCCTGGTACCCTCTGAGTCCGCCATCCGTAGACTGAGCCTCGAGGACCAGGCCTTCTGGTTGCAGCCAAAGATGCTGCCAGAACTGGCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000042286:ENSMUST00000036618:28
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=0.000
Domain overlap (PFAM):
C1:
PF0246917=Fasciclin=PU(8.2=62.5)
A:
NA
C2:
PF0246917=Fasciclin=FE(35.2=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:
GCAAATGCCCATTTCTCTGCC
R:
TTCTGGCAGCATCTTTGGCTG
Band lengths:
162-265
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