DreINT0018599 @ danRer10
Intron Retention
Gene
ENSDARG00000016188 | SBNO2 (1 of 2)
Description
strawberry notch homolog 2 (Drosophila) [Source:HGNC Symbol;Acc:HGNC:29158]
Coordinates
chr22:17689634-17690051:-
Coord C1 exon
chr22:17689905-17690051
Coord A exon
chr22:17689715-17689904
Coord C2 exon
chr22:17689634-17689714
Length
190 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAAG
5' ss Score
4.41
3' ss Seq
TTTTCCTTCTTCCTTCTCAGAGT
3' ss Score
12.21
Exon sequences
Seq C1 exon
GACCTCTCTTGTTTAGACGATCAGCTGATCTTCTCCCCTCAAAATGACTCTTTATCAGAATACGCCAGTACTAACTTCCTCAATGCTGACATGGCGCCCACTGTGCCCACAATATGGGACATCAAAACACCAGCACCAGTCCAAGAG
Seq A exon
GTGAAGCTCACACCTTTAACACACTCACACACTTCTTTTCGGTTTTTGCGTTGAATGTTATTACCAGAAACCACGCCTGTGTGTGGCACGCCTTTAAAAGTCGACCTTTGTTCCTGCTCTGATAGTAAAGCATGTGATCTTTCTGTTGGCTTGAGCTTGTTTTCTTTTTTTTTTCCTTCTTCCTTCTCAG
Seq C2 exon
AGTTCCAACAGGTTTCAGGGTTTGAACTCCTTGGATGACATCTCAGCCATCATTAATACACCACCCATAGGCGGATATCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000016188:ENSDART00000137984:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.224 A=NA C2=0.556
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACCTCTCTTGTTTAGACGATCAGC
R:
CTGATATCCGCCTATGGGTG
Band lengths:
227-417
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]