MmuINT0139131 @ mm9
Intron Retention
Gene
ENSMUSG00000035673 | Sbno2
Description
strawberry notch homolog 2 (Drosophila) [Source:MGI Symbol;Acc:MGI:2448490]
Coordinates
chr10:79532027-79532452:-
Coord C1 exon
chr10:79532356-79532452
Coord A exon
chr10:79532182-79532355
Coord C2 exon
chr10:79532027-79532181
Length
174 bp
Sequences
Splice sites
5' ss Seq
AGTGTAAGT
5' ss Score
8.46
3' ss Seq
GCCCTCTGTCCCCTGTCCAGCCA
3' ss Score
7.39
Exon sequences
Seq C1 exon
TCACACAGCCAGCCTGAGGAGGAAGAAGGGGAGGAAGAGGAGGAGACTGAGGAACTGGGCCATGCTGAGACCTATGCTGACTATGTACCATCTAAGT
Seq A exon
GTAAGTGTCTGGGCCAGGGATGGCACGGAGACACCACTAAGAAGACGGGTGGGTTCATCATCCACAGTGTGGGGCGTCAGGAGCAGGTTGTGTGTGCAGTGGATGAATGGCATCCTGCTGGCCACTCTTCCTTTGTCATGTGCCAAGTCTGCCTGCCCTCTGTCCCCTGTCCAG
Seq C2 exon
CCAAGATTGGAAAGCAACACCCAGACCGTGTGGTTGAGACCAGCACACTGTCCAGTGTTCCACCCCCGGACATCACCTACACCCTAGCGCTACCCACCTCAGACAACAGCACCCTGTCTGCCCTACAGCTGGAAGCCATCACCTATGCCTGCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000035673-Sbno2:NM_183426:7
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.909 A=NA C2=0.481
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF138721=AAA_34=PU(16.3=92.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAGCCTGAGGAGGAAGAAGGG
R:
CTGGCAGGCATAGGTGATGG
Band lengths:
243-417
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
Other AS DBs: