GgaINT0145721 @ galGal4
Intron Retention
Gene
ENSGALG00000002672 | SBNO2
Description
strawberry notch homolog 2 (Drosophila) [Source:HGNC Symbol;Acc:HGNC:29158]
Coordinates
chr28:2876288-2876944:-
Coord C1 exon
chr28:2876848-2876944
Coord A exon
chr28:2876449-2876847
Coord C2 exon
chr28:2876288-2876448
Length
399 bp
Sequences
Splice sites
5' ss Seq
AGTGTGAGT
5' ss Score
6.96
3' ss Seq
TGTTTGTGTGTGTCATTTAGCCA
3' ss Score
6.11
Exon sequences
Seq C1 exon
TCTCAAGCTCCTGCAGAGGAGGAGGATGAAGGTGATGAGGAAGAAACAGAAGAGTTAGGGCAAACGGAGACCTATGCAGAATACATACCTTCAAAGT
Seq A exon
GTGAGTGCTATGCTATTGCATGGATATGAGAAATGCTTCAGCTCTGCTGTGGACCAACTAAACTAATTCCTTCCTTATCTCTATGGAGACAGGATGTGGTGTTTGCCAAGGCACATCCCAAGCTTGTGACTTTGTGGGATAACTTCACTGATCCTTAGTTGGTGCTACACTAATTTCACGGGACACTTTCTGTTGTCTGCTTTTAGGGGAGGCTTGGCTTGTTTTTGGCAGTCTGAAATGTCATTGAAATCAAAGACAGTGAAGAGCAAGCACTGAGTTTATGTCTTCTGTAGTCTGAGGCTACAGAGTAGATAAGGAGGTCTGCAATCCTTTGTGAGGTGCTCCATGAGAATGGAGAAGTTGAATTCTCTCTCTTATGTGTTTGTGTGTGTCATTTAG
Seq C2 exon
CCAAGATTGGGAAGCACCACCCTGACCTTGTGGTTGAAACAAGCACTCTGTCCAGCGTTCCCCCACCCGACATCACCTACAGCCTTTCTCTGCCGAGCTCTGTTGCTGACAAAGGGTCACTCTCTGCACTACAGCTGGAAGCAATCATTTATGCCTGCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002672:ENSGALT00000004211:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.848 A=NA C2=0.148
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF138721=AAA_34=PU(16.8=92.6)
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:
TCTCAAGCTCCTGCAGAGG
R:
GGCAGGCATAAATGATTGCTTCC
Band lengths:
256-655
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]