MmuINT0139115 @ mm10
Intron Retention
Gene
ENSMUSG00000035673 | Sbno2
Description
strawberry notch homolog 2 (Drosophila) [Source:MGI Symbol;Acc:MGI:2448490]
Coordinates
chr10:80060984-80061447:-
Coord C1 exon
chr10:80061316-80061447
Coord A exon
chr10:80061120-80061315
Coord C2 exon
chr10:80060984-80061119
Length
196 bp
Sequences
Splice sites
5' ss Seq
AAGGTGGGG
5' ss Score
5.87
3' ss Seq
CCATCTCCCCCCACCTCCAGCTC
3' ss Score
9.19
Exon sequences
Seq C1 exon
ATGACCGGCAGGAAAGGCCGAGTGGTATCGAGGCCTGATGGGACAGTGGTCTTTGAGTCCAGAGCAGAACAGGGCCTGTCCATCGACCATGTGAACCTCAGGGAGAAGCAGCGCTTCATGAGCGGCGAGAAG
Seq A exon
GTGGGGCCTGCGTGGGACAGCTAGGGACAGGGTCAGGGGTTGCTTCCAACACAGCTCTGCCAGTGGATGGCTACTAGGTGGGGAGGGGGGTGTGCCTGCACTCCTGAAGACCTGTTACTTTCTCCCTGGGTACCCAGAGTTGAGCAGTGAGAAGGGCGGCCCCCAAGCACCCTGACCCATCTCCCCCCACCTCCAG
Seq C2 exon
CTCGTGGCTATTATCTCTGAGGCCTCCAGCTCAGGTGTCTCCCTCCAAGCCGACCGTCGAGTCCAGAACCAGCGGCGCCGGGTACACATGACCCTGGAGCTGCCTTGGAGTGCAGACCGTGCCATTCAACAGTTTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000035673:ENSMUST00000219260:21
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.159 A=NA C2=0.130
Domain overlap (PFAM):
C1:
PF138711=Helicase_C_4=FE(15.4=100)
A:
NA
C2:
PF138711=Helicase_C_4=FE(16.1=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:
AGTGGTATCGAGGCCTGATGG
R:
ACTGTTGAATGGCACGGTCTG
Band lengths:
245-441
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