MmuINT0139116 @ mm9
Intron Retention
Gene
ENSMUSG00000035673 | Sbno2
Description
strawberry notch homolog 2 (Drosophila) [Source:MGI Symbol;Acc:MGI:2448490]
Coordinates
chr10:79523534-79523864:-
Coord C1 exon
chr10:79523729-79523864
Coord A exon
chr10:79523647-79523728
Coord C2 exon
chr10:79523534-79523646
Length
82 bp
Sequences
Splice sites
5' ss Seq
TTGGTGAGG
5' ss Score
6.9
3' ss Seq
TACAGCCTTTCTGCCCTCAGGCC
3' ss Score
9.69
Exon sequences
Seq C1 exon
CTCGTGGCTATTATCTCTGAGGCCTCCAGCTCAGGTGTCTCCCTCCAAGCCGACCGTCGAGTCCAGAACCAGCGGCGCCGGGTACACATGACCCTGGAGCTGCCTTGGAGTGCAGACCGTGCCATTCAACAGTTTG
Seq A exon
GTGAGGCCCCCTAGCTCCTGGCCCAGGTTAACCCTTCCTTGTAACCCCTTATCCCAGTCTCTTACAGCCTTTCTGCCCTCAG
Seq C2 exon
GCCGCACCCACAGGTCCAACCAGGTCTCAGCACCCGAGTACGTCTTCCTTATCTCAGAACTGGCAGGGGAGCGCAGGTTTGCCTCCATTGTGGCCAAGCGGCTCGAAAGTCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000035673-Sbno2:NM_183426:21
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.130 A=NA C2=0.079
Domain overlap (PFAM):
C1:
PF138711=Helicase_C_4=FE(16.1=100)
A:
NA
C2:
PF138711=Helicase_C_4=FE(13.3=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:
TATCTCTGAGGCCTCCAGCTC
R:
GAAGACGTACTCGGGTGCTGA
Band lengths:
172-254
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: