MmuINT0139111 @ mm10
Intron Retention
Gene
ENSMUSG00000035673 | Sbno2
Description
strawberry notch homolog 2 (Drosophila) [Source:MGI Symbol;Acc:MGI:2448490]
Coordinates
chr10:80062568-80063728:-
Coord C1 exon
chr10:80063649-80063728
Coord A exon
chr10:80062760-80063648
Coord C2 exon
chr10:80062568-80062759
Length
889 bp
Sequences
Splice sites
5' ss Seq
AACGTAAAT
5' ss Score
0.44
3' ss Seq
CCCGTGACTTCTTCCTGCAGGGC
3' ss Score
11.24
Exon sequences
Seq C1 exon
AGGTGTCTTCCTGTCCCTGATCCAGAAGCACTTCCCTTCCACCAGGCGGAGGCGTGACCGCGGAGGAGGAAAGAGGAAAC
Seq A exon
GTAAATGCCCTCCCATCCTCCTCTGCTTTACCTTCCCTACCCTCCCCCACACCCACCTGGGGTCTGTCTCCACTGTGTGCCCTGCACCAACCAGCTGAGAGTTTTCACATGGGCACTGCAGGCAGTGCGAGCATGTAGAGCTGACCATTTCCCTGCACAGTGCTCAGAGAAGCAAAGATCTGGGGCAAAACCCTGGCAGACTCCAACCTCAGGCTGCCTCTCCATCCAGCATGCACTGCCCAAGGCTCTGGGGACCCCAGCAGGCTGGCAAGATCCCAACTCCAGCCCCACTGGTTGGCAGGCAGGCAGGCAGGCCTCTGGGGGCTGCACCGCCTGTACTGCTCAGCTGTGCACATGCTGACCACAAGCACTGCAAGTGCCCAAAACACGCAGCCATGCAGCCTCCTACCTTCCAGTTCCCAGACTTGCCAAGCCAGGCTCAGAGAAGCCAGATGCCTCCCCTGCAGACACACTGCCAGTGAAGGGCGGCAGGACGGCGTAGGCTCCTCCACCCCAGACTCCCCAAGACAATCAGGCCCCTCACTCTCCACACACCATGCTGTCTGGAAACCGACAGCAATGTCAGATGAGGTGACTGGGCTTGTCCTTTGACATTTCCAATCATGAAGCCATCAGGGCTGGAGATGTGGACATGGTACCCCAGGTGGAACTGCCTGCCCGAAGAGGGGCTGAAGGGCTTCCTGGAGGGAATACAAGACACATCCAAACCAAACAGAGGAAGCCGGCCAGGCCAACCTTAGACGGTGCCTGGGTCCCTCCATCCCCAGAGTTAAGCCTCAGCACCTCCTGCTCTCTACCCTGCCACCCCAGCGTCACCCACTAATGCAGCCTCCACCTCTGAACGCTAACCCGTGACTTCTTCCTGCAG
Seq C2 exon
GGCGGCCTCGGGGTCGTGGCCCCAAGGCTTCCAGACTGTCACTGGAGGCAGCAGGAGTTATCCGTATTAGTGATGGCAGCAGCACAGAGTCAGATGCTGGCCTGGATAGCGACTTCAATTCATCCCCAGAATCCCTGGTAGACGATGATGTGGTCATTGTAGACGCCCCCACACACCCCACAGATGACCGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000035673:ENSMUST00000219260:18
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.464 A=NA C2=0.588
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
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:
AGGTGTCTTCCTGTCCCTGAT
R:
CTCGGTCATCTGTGGGGTGT
Band lengths:
272-1161
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