GgaINT0145734 @ galGal4
Intron Retention
Gene
ENSGALG00000002672 | SBNO2
Description
strawberry notch homolog 2 (Drosophila) [Source:HGNC Symbol;Acc:HGNC:29158]
Coordinates
chr28:2866625-2867159:-
Coord C1 exon
chr28:2867028-2867159
Coord A exon
chr28:2866761-2867027
Coord C2 exon
chr28:2866625-2866760
Length
267 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGT
5' ss Score
10.47
3' ss Seq
ATGTTCTCTCTCTCTCTCAGCTT
3' ss Score
10.64
Exon sequences
Seq C1 exon
ATGACTGGGCGGAAGGGCCGGGTGGTTTGCAGGCCAGATGGCTCTGTCATGTTTGAGTCTCGTGCAGAGCAAGGCCTCTCTATTGACCACGTCAACCTGAAGGAGAAGGAACGTTTTATGAATGGGGAGAAG
Seq A exon
GTGAGTTAGGTGTGAGCCAAGGAAACCTCCAAACCCCTGCATGGAGTGTGCAGAGAGGTGAAGGAAAGGGAAGGTGTCTGCTTGCTTTTGCCTTGCCAGCCTTAGATCAGCAAAGCTCTGTGCCTTCTGTCTGCCTGTGCCTGTCCTGCTGAGAGGTGACAAGGAGGCCTATGGGCTGCCATTGTCTTTTGGGCTGTTTCTCATAACAGTTTTGCAAATATACAGGGATCTCACACCCCTTTCTCATATGTTCTCTCTCTCTCTCAG
Seq C2 exon
CTTGTAGCAATAATCTCTGAGGCCTCCAGCTCAGGAATCTCTCTCCAAGCAGACAGACGGGTGAAAAACCAGAAGCGCCGCGTCCACATGACACTGGAGCTGCCCTGGAGTGCAGACCGTGCCATTCAGCAGTTCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002672:ENSGALT00000004211:17
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.114 A=NA C2=0.109
Domain overlap (PFAM):
C1:
PF138711=Helicase_C_4=FE(15.4=100)
A:
NA
C2:
PF138711=Helicase_C_4=FE(16.1=100)
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:
ATGACTGGGCGGAAGGGC
R:
CGAACTGCTGAATGGCACGG
Band lengths:
268-535
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]