MmuINT0139119 @ mm10
Intron Retention
Gene
ENSMUSG00000035673 | Sbno2
Description
strawberry notch homolog 2 (Drosophila) [Source:MGI Symbol;Acc:MGI:2448490]
Coordinates
chr10:80060165-80060502:-
Coord C1 exon
chr10:80060394-80060502
Coord A exon
chr10:80060240-80060393
Coord C2 exon
chr10:80060165-80060239
Length
154 bp
Sequences
Splice sites
5' ss Seq
GGGGTGAGC
5' ss Score
5.97
3' ss Seq
CATAAGGTTTTCCCTCGCAGACA
3' ss Score
7.67
Exon sequences
Seq C1 exon
TATGGCGCCCGTGCGCTCAGCCGCGTCCTTGCTACAATCATGGGCCAGACGGACAACAGGGTGCCCCTGCCCCAGGGCTATCCAGGAGGGGATACCGCCTTCTTTCGGG
Seq A exon
GTGAGCCAGGGCTCCTGAGTGTGCCTGGGAATTGTGTGGACTACAGTGGGGCTGGTTCCATCAGGATTTGGGGACTGGGTGTGGGTGGAATTCTAGGGAGAGCAGGGCAAAGTGCCCTAGGATCCCAGGGTAAGCATAAGGTTTTCCCTCGCAG
Seq C2 exon
ACATGAAGCAGGGCCTGCTGTCTGTGGGCATCGGCAGCCGGGAGTCACGCTCGGGCTGCTTGGATGTGGAGAAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000035673:ENSMUST00000219260:25
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.108 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF138711=Helicase_C_4=FE(12.9=100)
A:
NA
C2:
PF138711=Helicase_C_4=FE(9.0=100)
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:
CCGCGTCCTTGCTACAATCAT
R:
CTTCTCCACATCCAAGCAGCC
Band lengths:
163-317
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