RnoINT0130988 @ rn6
Intron Retention
Gene
ENSRNOG00000013987 | Sbno2
Description
strawberry notch homolog 2 [Source:RGD Symbol;Acc:1307194]
Coordinates
chr7:12505587-12505923:+
Coord C1 exon
chr7:12505587-12505677
Coord A exon
chr7:12505678-12505779
Coord C2 exon
chr7:12505780-12505923
Length
102 bp
Sequences
Splice sites
5' ss Seq
AAGGTGGGC
5' ss Score
7.93
3' ss Seq
GTCTGAACCTGTGTCCACAGATC
3' ss Score
9.07
Exon sequences
Seq C1 exon
GTTCAGTGCCTCCAATGACCTCAAGTATGATGCAGAACGGGACCTGAGAGACATCGAGGCCCCCGGCATTGCGGTGCATGCACTAAGCAAG
Seq A exon
GTGGGCTGGGCACAGGGGGCTGAATCCAGACCCCTGAGCAAGGAAGGAACTGAGGCAGGGGCATCCCTGAACACATCCCCGTGTCTGAACCTGTGTCCACAG
Seq C2 exon
ATCAAGTACGGTGACAACACTACCTCAGAGGGTGTCCTCTTTGCCACCTACTCTGCCCTGATTGGAGAAAGCCAGGCGGGTGGGCAGCATCGCACACGTCTACGCCAGATCCTGCAGTGGTGTGGAGAGGCCTTTGATGGTGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000013987:ENSRNOT00000068197:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF138721=AAA_34=FE(10.2=100)
A:
NA
C2:
PF138721=AAA_34=FE(15.9=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTTCAGTGCCTCCAATGACCT
R:
CACACCATCAAAGGCCTCTCC
Band lengths:
235-337
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]