GgaINT0145729 @ galGal4
Intron Retention
Gene
ENSGALG00000002672 | SBNO2
Description
strawberry notch homolog 2 (Drosophila) [Source:HGNC Symbol;Acc:HGNC:29158]
Coordinates
chr28:2871314-2872091:-
Coord C1 exon
chr28:2871915-2872091
Coord A exon
chr28:2871412-2871914
Coord C2 exon
chr28:2871314-2871411
Length
503 bp
Sequences
Splice sites
5' ss Seq
AAGGTGTGG
5' ss Score
5.28
3' ss Seq
ATCCTTGTGTTTCCCTGTAGTGC
3' ss Score
9.17
Exon sequences
Seq C1 exon
TGGGCAGAGGCCTTGATGGTGTTCCAGCAGGCAGCTGACCTGATCGGCTTGGAGTCTCGGAAATCCCTGTGGGGTCAGTTCTGGTCAGCTCACCAGCGCTTCTTCAAGTATCTCTGCATTGCTGCTAAAGTCCGGCGCCTCGTTGAGCTTGCCAAGGAGGAGCTGGCAAAGGACAAG
Seq A exon
GTGTGGTATTGGAGGGTGGCTGTGTGCACAGCAGCTGTCAGTCTTAGATTCCAAGGGAAGTTTTGTTGTCTGTAACCAAAGGGAGTTAATTGTTTCTGGGAACGTTCGCAGTAATCTATACTGGGGAGTTAATGTCACCTTTTCTTCTGAGGCTGTTTGCTTCTGGTCGAACGTAGGCAAGCTGATTTGAAACAGCATTTTGGGCCATGTTCAAGCTAGAAGTGGTTCCAGGTGTTTCACCTTTAGCACAGCCCTATCCTTACATTTATCAGGATGTGATTTAGAAATTCCAGACAGAAACTACTTAGCAAAACCAGCTTCATAAAGCAAGTCATCCCCTCAGTGGTGTAGAGAGGTTTGAAAGATGGTTCTTGATCAGCAGCCTTGCTACAGCCTTTGGATAGGGCTGAAGGAAGATGTGCCTGGAACCATGAGGTGCAATCTCTTCAGTCTGTAGGTGCTTGCCCTGACCCCAGCTGTGCCATCCTTGTGTTTCCCTGTAG
Seq C2 exon
TGCATCGTCATCGGCCTGCAGTCCACTGGGGAGGCACGCACCCGAGAAGTCCTGGATGAGAATGATGGGCATCTCAACTGTTTTGTTTCTGCTGCAGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002672:ENSGALT00000004211:12
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:
CAGAGGCCTTGATGGTGTTCC
R:
TCTGCAGCAGAAACAAAACAGT
Band lengths:
271-774
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]