DreINT0018581 @ danRer10
Intron Retention
Gene
ENSDARG00000016188 | SBNO2 (1 of 2)
Description
strawberry notch homolog 2 (Drosophila) [Source:HGNC Symbol;Acc:HGNC:29158]
Coordinates
chr22:17676258-17676608:-
Coord C1 exon
chr22:17676526-17676608
Coord A exon
chr22:17676441-17676525
Coord C2 exon
chr22:17676258-17676440
Length
85 bp
Sequences
Splice sites
5' ss Seq
AACGTGAGT
5' ss Score
9.54
3' ss Seq
GATTGGACAATCGATTGCAGGTA
3' ss Score
3.44
Exon sequences
Seq C1 exon
GGGTGTTTTTCAGTCTCTGGTCTTCAAACACTTTCCGTCAGAGAAGCAGATGAGAGAAAAAGGAGCGGGGAATAAGAGGAAAC
Seq A exon
GTGAGTAGAGTCACACTGTTGATTCATCGATTATGAATTGTCCATCTTTAAGCCTTTAATCGATTGATTGGACAATCGATTGCAG
Seq C2 exon
GTAAGCCACGGGCCAGGCAATCAAAGCAACCGCGACAAGGCACCGACATAGCAGTGATCAACATCAGTGATGACAGCAGCACTGAGTCAGACGTAATGGACAGCGACTCCAACTCTTCACCTGACTCAATTCAGGACAATAACGATGATGTCATCTTCGTTGATCAAACCAGCTATCAAAAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000016188:ENSDART00000137984:17
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.414 A=NA C2=0.823
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
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:
TCCGTCAGAGAAGCAGATGAGA
R:
GGTGAAGAGTTGGAGTCGCTG
Band lengths:
171-256
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]