DreINT0018601 @ danRer10
Intron Retention
Gene
ENSDARG00000016188 | SBNO2 (1 of 2)
Description
strawberry notch homolog 2 (Drosophila) [Source:HGNC Symbol;Acc:HGNC:29158]
Coordinates
chr22:17687805-17688150:-
Coord C1 exon
chr22:17688051-17688150
Coord A exon
chr22:17687966-17688050
Coord C2 exon
chr22:17687805-17687965
Length
85 bp
Sequences
Splice sites
5' ss Seq
AATGTGAGC
5' ss Score
5.2
3' ss Seq
CTCCGTAATTTCCATCTCAGCCA
3' ss Score
4.68
Exon sequences
Seq C1 exon
AGACCCCAAACCCAGCCTGAAGAGGAAGAGGAAGTTGACGTGGAGGAGGCAGAAGAGCTCGGTCATGTTGACACCTATGCAGACTACAAACCCTCCAAAT
Seq A exon
GTGAGCCCTCCGCTTCTTCCCACACACTCTATTATTGTTATTATTATTATTACTAATGTTTTGCTCTCCGTAATTTCCATCTCAG
Seq C2 exon
CCAAAATAGGCATATCTCATCCAGACCGCGTGGTGGAGACCAACACCTTATCCAGCGTTCCTCCTCCAGACATCACCTACACCCTCTCCATCCCAGAAGACACCATAAAAGATGGCCTACTGTCAGCGCTGCAGCTAGAGGCCATCACATACGCCTGTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000016188:ENSDART00000137984:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.735 A=NA C2=0.333
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF138721=AAA_34=PU(16.8=92.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCAGCCTGAAGAGGAAGAGGA
R:
GGGATGGAGAGGGTGTAGGTG
Band lengths:
183-268
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]