GgaINT0145744 @ galGal4
Intron Retention
Gene
ENSGALG00000002672 | SBNO2
Description
strawberry notch homolog 2 (Drosophila) [Source:HGNC Symbol;Acc:HGNC:29158]
Coordinates
chr28:2861822-2862264:-
Coord C1 exon
chr28:2862188-2862264
Coord A exon
chr28:2862013-2862187
Coord C2 exon
chr28:2861822-2862012
Length
175 bp
Sequences
Splice sites
5' ss Seq
CTGGTAAGG
5' ss Score
9.68
3' ss Seq
TTGTTTTCTCCCATTTGAAGGAA
3' ss Score
9.84
Exon sequences
Seq C1 exon
GTGACACCTGAGGAAGCCAAGGAGCACTGGGAGAGCTGTTATCACTTCTCCTTGAAAAAGTGCAACCATGCTGTCTG
Seq A exon
GTAAGGGATACACGGCCCAAACCTGCCCAGCTCTCAGGGTGGGGGGCTTGTCCTGTGCTCCCCAACAGAGCTGCTGGGGTCTGGGCTGTGGCAGTGAGTGGGGGACGTGCTACGGAGGCAGTGGGTGTAACAATCTGCCATGCTGATGATTCAGGTTGTTTTCTCCCATTTGAAG
Seq C2 exon
GAACAGGAGCTGCAAGCTGATCCAGGAGGGGAAGGAGTGTTTCCAGGGCATGCGCCTGCGTCACTACTACATGCTGTGTGGAGCCCTGCTGAGGGTGTGGAGCAGGATTGCCAGCATCATGGCAGACATCACAAACACCAGCTACCTGCAGATCGTCCGCCTCAAGACCAAGGAGAAGAAGAAACAAGTTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002672:ENSGALT00000004211:27
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:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTGACACCTGAGGAAGCCAAG
R:
CTTCTCCTTGGTCTTGAGGCG
Band lengths:
255-430
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]