DreINT0018576 @ danRer10
Intron Retention
Gene
ENSDARG00000016188 | SBNO2 (1 of 2)
Description
strawberry notch homolog 2 (Drosophila) [Source:HGNC Symbol;Acc:HGNC:29158]
Coordinates
chr22:17681627-17681934:-
Coord C1 exon
chr22:17681817-17681934
Coord A exon
chr22:17681733-17681816
Coord C2 exon
chr22:17681627-17681732
Length
84 bp
Sequences
Splice sites
5' ss Seq
CAGGTGCGT
5' ss Score
9.73
3' ss Seq
AAAGACCCTGTGCTCATCAGGTG
3' ss Score
3.95
Exon sequences
Seq C1 exon
ATTATATTTGATGAATGCCACAAAGCCAAAAACGCAACGTCCACAAAGATGGGCAAAGCCGTGCTGGATCTCCAGAACAAGTTGCCATTGGCCAGAGTGGTGTATGCCAGTGCCACAG
Seq A exon
GTGCGTCTCTACCACATTCACTTTAAAAATCCCCATCACTACAGCAAAAAACCAATGCTAAATAAAAGACCCTGTGCTCATCAG
Seq C2 exon
GTGCCTCGGAGCCAAAGAACATGATCTACATGAGCCGTCTGGGGATTTGGGGAGAAGGAACTCCTTTCCGGACCTTCGACGACTTTCTCCACACCATTGAGAAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000016188:ENSDART00000137984:12
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF138721=AAA_34=FE(13.1=100)
A:
NA
C2:
PF138721=AAA_34=FE(11.8=100)
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:
ACGTCCACAAAGATGGGCAAA
R:
GAGAAAGTCGTCGAAGGTCCG
Band lengths:
171-255
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]