GgaINT0145738 @ galGal4
Intron Retention
Gene
ENSGALG00000002672 | SBNO2
Description
strawberry notch homolog 2 (Drosophila) [Source:HGNC Symbol;Acc:HGNC:29158]
Coordinates
chr28:2864122-2864587:-
Coord C1 exon
chr28:2864479-2864587
Coord A exon
chr28:2864197-2864478
Coord C2 exon
chr28:2864122-2864196
Length
282 bp
Sequences
Splice sites
5' ss Seq
AGGGTAAGA
5' ss Score
9.21
3' ss Seq
GCTTCTTTCTCTTTTTCCAGAAA
3' ss Score
10.74
Exon sequences
Seq C1 exon
TATGGGGCTAAAGCACTAGACAGAGTTCTCTCCACTATCCTCAACTACAAGGAGAACAGAGTTCCTGTGCCCAAGAGCTATGAGAGAGGAGAGGCTGCGTTTTTCCAGG
Seq A exon
GTAAGAACATCATCAGCTCCAGGGTTCCTGCTGCATCTTTCTGGCCAGGTTGATCTCAGGGTTGGGATGTCTAAAGAAAGCAAGCAGCAAAAGCTCAGAGGGAGCACTGCCACTGACCTAACAGCTCAGTGCTCATGCAGATGCATGTCGTCCTGCCAAGCAAAGGGGAAAATGGATGTGGGGCAGACTTAGCTGTGAAATAATGGGTACTGATGAAGGGGAAGTGTTACTGTTAGGGGTGGGGTAGCCCTAAAATATTCAAGCTTCTTTCTCTTTTTCCAG
Seq C2 exon
AAATGAAGCAAGGTCTTATCTCTGTGGGGATCTGCTGCAATCAGCTGAAGTATGGCACTGTCTCAGTAGAGAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002672:ENSGALT00000004211:21
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:
PF138711=Helicase_C_4=FE(12.9=100)
A:
NA
C2:
PF138711=Helicase_C_4=FE(9.0=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:
ATGGGGCTAAAGCACTAGACAGA
R:
TCTCTACTGAGACAGTGCCAT
Band lengths:
180-462
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]