GgaINT0145724 @ galGal4
Intron Retention
Gene
ENSGALG00000002672 | SBNO2
Description
strawberry notch homolog 2 (Drosophila) [Source:HGNC Symbol;Acc:HGNC:29158]
Coordinates
chr28:2873824-2875380:-
Coord C1 exon
chr28:2875290-2875380
Coord A exon
chr28:2873968-2875289
Coord C2 exon
chr28:2873824-2873967
Length
1322 bp
Sequences
Splice sites
5' ss Seq
AAGGTAGAG
5' ss Score
6.38
3' ss Seq
TTTTCTTCCTCTTTCTGCAGATT
3' ss Score
13.17
Exon sequences
Seq C1 exon
GTTCAGCGTCTCCAATGATCTCAAGTATGATGCTGAGAGAGACCTGAAGGACATTGAAGCCTCCCACATTCCTGTGCATGCTTTGAATAAG
Seq A exon
GTAGAGGAGAGAAGTAATGCTGTTCTAGAAAATCAACCTGTGGTAGCACTTAGATGGATCTGCTGCAGAGTGCAGAGCAGCAGTCACTTCTGCCTCTGCATAGCAGTAGCAGGCAGTGAGCTGCTTGCTGTTTCCTTCTCTCAGCATGCTCTTCCCACTCTGGACTCTTGCTATTTTTACACACTCTCCAGAGCTGCTCTGTGAGTACAGAGCTATTTCCTGCAGGGAGCACAGTGTGTCTCCATACAAGTGCAAAGTTCTACAGGGCTCGAATGCTCTTCCCCATTTCAGAAGAGTGCTGCTGAGGGAACGGCCCCTGTGCTGTGCTCACATGGGTTAGTTTTTCCTAGCTCTGGTTTCAGGCAGCCTGTTTTCTGAACATGCAAGTAAAGGGAGAGCATACAAACGGGCATATCTGTGCCTGCCAGGAGACTGCAGCACAGTGCTGTGCACACGGGCATTTCCTCTGAGCTGGGTGAATCAGAGAGTTTTCAAACTTCCTTCCAGTCACCAGTGGTGAGGATTCATTATTTTTCAATAGAAATGACCGGCAGCTGTGTAGTGGTTGTTCGTGGAGCTCTGCTCAGCTTGTGTTTCAGCCTCTTGTCCAGGGCTGTGTTTGCCACGCTGCTGGCCAGCCTGCTGAAGCTCTCTCCTCTGTTTTTTAACAGCATTGAACAACCAGCTCTTGCAAAGTCAATGGAAACCACATGTGTTCAACACCTCTGAGTGCAGTCCATGAGGAGACTGAAAGAGATATTTGTTTTCAGATGAAAAGGCTTTAAATACCGTTATCTTCAGATCAGGACCCCCTTTTGTTTTGTTTTCCTTCATACGTTTCATTTTGTTGTAGGTGGGATCCATGACAGCAAGGCACTGATCTCACTTGGCCAAAGAGAAAATTATTTTCTGGAAGTAATTAAAATAGATAGGAGGGATTAAAAAATAATTAAACATTCCAAACTGTTGCTTAAAAAAGGAAGCAAATTCAGCTGGCCGGAAAATTGAAGGCCTGGTGTGGTCTCCACATTTCTCTACATGCATCCAGATGTGCTGACACATTGGCAAGGGAACTTAGCCAGGCATTTAAGATCCCTGTCATCACTGTGTGTCAGTGCCAAGGAGAAGTGCTAAAGATGTCAGCTGCTAGTGGTCTTTTGTCTGTTCTGCTGTCATATTGGGTTTTGTTCTTGAAGGCAGGAGCATGAGCCCTCCACAGCCACAGCAGAATCCGTGGTACAGGCTGTGGGCTTAGAATGGGTGCAGTGCACTGTGGACAATTGTCATGAGCCCCTCTGCTCTTTTTCTTCCTCTTTCTGCAG
Seq C2 exon
ATTAGATATGGAGACACAGCTACCTCAGAAGGAGTCCTCTTTGCCACTTACTCTGCTCTGATTGGTGAAAGCCAGGCAGGCGGGCAGCATAGGACACGCTTAAAACAGATTTTGGATTGGTGCAGGGAAAATTTTGATGGAGTT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002672:ENSGALT00000004211:7
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:
PF138721=AAA_34=FE(10.1=100)
A:
NA
C2:
PF138721=AAA_34=FE(15.8=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:
GTTCAGCGTCTCCAATGATCTCA
R:
CCATCAAAATTTTCCCTGCACCA
Band lengths:
231-1553
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]