MmuINT0139119 @ mm9
Intron Retention
Gene
ENSMUSG00000035673 | Sbno2
Description
strawberry notch homolog 2 (Drosophila) [Source:MGI Symbol;Acc:MGI:2448490]
Coordinates
chr10:79522910-79523247:-
Coord C1 exon
chr10:79523139-79523247
Coord A exon
chr10:79522985-79523138
Coord C2 exon
chr10:79522910-79522984
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-Sbno2:NM_183426:24
Average complexity
IR-S
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
Other Skipping 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
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: