MmuINT0139106 @ mm9
Intron Retention
Gene
ENSMUSG00000035673 | Sbno2
Description
strawberry notch homolog 2 (Drosophila) [Source:MGI Symbol;Acc:MGI:2448490]
Coordinates
chr10:79529576-79530139:-
Coord C1 exon
chr10:79530022-79530139
Coord A exon
chr10:79529682-79530021
Coord C2 exon
chr10:79529576-79529681
Length
340 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGA
5' ss Score
9.22
3' ss Seq
GTCCTGCTTCCAACCCCTAGGTG
3' ss Score
10.18
Exon sequences
Seq C1 exon
ATTGTGTTTGACGAGTGCCACAAAGCCAAGAACGCCAGTTCCACTAAGATGGGCAAGGCCGTGCTGGACCTGCAGAGCAAACTGCCCCAGGCTAGGGTGGTGTACGCCAGTGCCACAG
Seq A exon
GTGAGATGTGGGGTGACAGCTGAGTGGGATGGGCAAACTGGTCACGTGGATGGCCTCTTAGTGCCGTCACCTACACAGGGATGGGGGGTGTCCTGCCACAGTGGACTGCACAAGATTGGATCTGTGCCCTGTTTTTGCTTGGCACCTGGGGCGGATATGGAGCTTGCTGTGTCTAAGCCTGCCTCCCCTTGGACATCTTCCTCAGCACCTCAGTTCCCCTCCCTTGGCCCCGAGTCTCTGGGACCGCAGCACTGTACCCCACTCTGCCTCCATATGACCCACAGCACTTCCCAGCTGTGTGGTGAGTTGCTGGCCTTAGTGTCCTGCTTCCAACCCCTAG
Seq C2 exon
GTGCCTCTGAGCCCCGCAACATGATATACATGAGCCGGCTGGGCATTTGGGGTGAGGGCACACCCTTCCGGACCTTTGAGGAGTTCCTGCATGCCATTGAGAAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000035673-Sbno2:NM_183426:12
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF138721=AAA_34=FE(13.2=100)
A:
NA
C2:
PF138721=AAA_34=FE(11.9=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:
TTGTGTTTGACGAGTGCCACA
R:
TCTTCTCAATGGCATGCAGGA
Band lengths:
222-562
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: