MmuINT0153342 @ mm10
Intron Retention
Gene
ENSMUSG00000042286 | Stab1
Description
stabilin 1 [Source:MGI Symbol;Acc:MGI:2178742]
Coordinates
chr14:31151169-31151580:-
Coord C1 exon
chr14:31151450-31151580
Coord A exon
chr14:31151281-31151449
Coord C2 exon
chr14:31151169-31151280
Length
169 bp
Sequences
Splice sites
5' ss Seq
CAGGTGGGG
5' ss Score
6.92
3' ss Seq
CCCCCAACTCTTCTCCTTAGGGC
3' ss Score
9.88
Exon sequences
Seq C1 exon
AATTCAAGCATCACTCTTCCTGCCGACAGCAGAGTCACAGCCCTGGTACCCTCTGAGTCCGCCATCCGTAGACTGAGCCTCGAGGACCAGGCCTTCTGGTTGCAGCCAAAGATGCTGCCAGAACTGGCCAG
Seq A exon
GTGGGGACAGCTGGGAAGGGCCATAGGGGGGATTCTGGGTAGGACCTTGGACCCTTCTCAGACAAAGTTAAGAGAATCTGGTTCTTTGTTTACCATGTCTCCACAAAAGTGGGAAAACCCATGCTGAAGGATCTTTGTAGATCCAATGCCCCCCAACTCTTCTCCTTAG
Seq C2 exon
GGCCCATTTTCTCCAGGGTGCCTTCTCAGAGGAGGAGTTGGCCCGGTTAAATGGTCAACAAGTAGCCACACTGAGTGCCACGACACGCTGGCAGATACACAACATCAGTGGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000042286:ENSMUST00000036618:29
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=FE(35.2=100)
A:
NA
C2:
PF0246917=Fasciclin=FE(30.3=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:
ATTCAAGCATCACTCTTCCTGCC
R:
CCCACTGATGTTGTGTATCTGCC
Band lengths:
242-411
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