MmuINT0139118 @ mm10
Intron Retention
Gene
ENSMUSG00000035673 | Sbno2
Description
strawberry notch homolog 2 (Drosophila) [Source:MGI Symbol;Acc:MGI:2448490]
Coordinates
chr10:80060394-80060661:-
Coord C1 exon
chr10:80060590-80060661
Coord A exon
chr10:80060503-80060589
Coord C2 exon
chr10:80060394-80060502
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:ENSMUST00000219260:24
Average complexity
IR
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
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
- 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