GgaINT0145735 @ galGal4
Intron Retention
Gene
ENSGALG00000002672 | SBNO2
Description
strawberry notch homolog 2 (Drosophila) [Source:HGNC Symbol;Acc:HGNC:29158]
Coordinates
chr28:2865866-2866760:-
Coord C1 exon
chr28:2866625-2866760
Coord A exon
chr28:2865979-2866624
Coord C2 exon
chr28:2865866-2865978
Length
646 bp
Sequences
Splice sites
5' ss Seq
TCGGTGAGG
5' ss Score
8.99
3' ss Seq
CTGTTCTCATGTCCCTGTAGGTC
3' ss Score
12.34
Exon sequences
Seq C1 exon
CTTGTAGCAATAATCTCTGAGGCCTCCAGCTCAGGAATCTCTCTCCAAGCAGACAGACGGGTGAAAAACCAGAAGCGCCGCGTCCACATGACACTGGAGCTGCCCTGGAGTGCAGACCGTGCCATTCAGCAGTTCG
Seq A exon
GTGAGGGCTGAGGGTCTCTGGTCACTGCCCCCTCCCTCTGAGCATGGTGCAGATGGTGAAGCCTCAGGCAGCCCTGAAATGGAAAGGCTTGTGTGGCCTCCTGAGCCAGGCTGGTGCTGCAGTCCTGCAGCTTTCTGAGATGTCACCTTTCAGAGCACAGCACTCCTCTGCTTTGCTTTGGGTGCCAATCCGGACTCAAAGCAGTGGTGTCTGACTGAACTCGTGGGGAGGGTTTGTTTTGACTTCAGAAGTGGTTTGCAGTATGGAAAGGGAGAAGCCTTCCTATCTGTACATGGGGGCAGAAGGCATGCTCGTAAATGTGCTTGAAGGTTTCCGTTCCATCCTGTAGAGGCTCTGTAGGATGAGAAGAGCAAGTTCCTCAATACGTGATCACAAAAGAATTAGTGCACTCCGTAGCTCAAACCCAGAGCGTGAGGGCTATAAACTCAACTCTGACAAGGTCTCAGCAGCAACAGAGCGATGAATGCAGCTGTACCTGTGTCCTTTTCCCCCAAAGGAAAGACCTGATTTGAAACCAGCATGACATGGAAAGTTGTTTTGTGTCTCACCTTGTGCTCAGCTTCTCTTCATTACCAAACAGGCTGTACCAACCTCTCCTTTCCCTTCTGTTCTCATGTCCCTGTAG
Seq C2 exon
GTCGAACGCACCGATCAAACCAAGTTTCTGCTCCAGAGTATGTCTTCCTTATCTCTGAGCTAGCTGGAGAGAGGAGGTTTGCCTCCATCGTGGCAAAACGACTGGAGAGCCTA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002672:ENSGALT00000004211:18
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.109 A=NA C2=0.079
Domain overlap (PFAM):
C1:
PF138711=Helicase_C_4=FE(16.1=100)
A:
NA
C2:
PF138711=Helicase_C_4=FE(13.3=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:
GTAGCAATAATCTCTGAGGCCTCC
R:
TAGGCTCTCCAGTCGTTTTGC
Band lengths:
246-892
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]