MmuINT0139118 @ mm9
Intron Retention
Gene
ENSMUSG00000035673 | Sbno2
Description
strawberry notch homolog 2 (Drosophila) [Source:MGI Symbol;Acc:MGI:2448490]
Coordinates
chr10:79523139-79523406:-
Coord C1 exon
chr10:79523335-79523406
Coord A exon
chr10:79523248-79523334
Coord C2 exon
chr10:79523139-79523247
Length
87 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGT
5' ss Score
11
3' ss Seq
TCACCTGGTCTGCCCCACAGTAT
3' ss Score
7.76
Exon sequences
Seq C1 exon
GGTGCCCTCACCCATGGAGATCGCCGCGCCACTGAGTCCCGAGACCTGAGCAAGTACAACTTTGAGAACAAG
Seq A exon
GTAAGTCAAGGGTAGTGGGGAGGCTGCCATGTGTGTGTGCAAAGGCCTCCCTCTACCCGGGCCTCACTCACCTGGTCTGCCCCACAG
Seq C2 exon
TATGGCGCCCGTGCGCTCAGCCGCGTCCTTGCTACAATCATGGGCCAGACGGACAACAGGGTGCCCCTGCCCCAGGGCTATCCAGGAGGGGATACCGCCTTCTTTCGGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000035673-Sbno2:NM_183426:23
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.167 A=NA C2=0.108
Domain overlap (PFAM):
C1:
PF138711=Helicase_C_4=FE(8.2=100)
A:
NA
C2:
PF138711=Helicase_C_4=FE(12.9=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:
TGCCCTCACCCATGGAGATC
R:
GCGGTATCCCCTCCTGGATAG
Band lengths:
168-255
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: