DreINT0018593 @ danRer10
Intron Retention
Gene
ENSDARG00000016188 | SBNO2 (1 of 2)
Description
strawberry notch homolog 2 (Drosophila) [Source:HGNC Symbol;Acc:HGNC:29158]
Coordinates
chr22:17671307-17671733:-
Coord C1 exon
chr22:17671641-17671733
Coord A exon
chr22:17671439-17671640
Coord C2 exon
chr22:17671307-17671438
Length
202 bp
Sequences
Splice sites
5' ss Seq
AGAGTGAGT
5' ss Score
7.36
3' ss Seq
GTTGGTGCCTGTCTTTACAGTTG
3' ss Score
7.44
Exon sequences
Seq C1 exon
ATAAGTGTTGATAGAGGCATGCCTTGGTCAGAGGCTCTCGAAAAGTTTGAAACCCTCACCAAACCTGATGAAGGCTTCTACATGTCCTATAGA
Seq A exon
GTGAGTATTTGGATGAAAGGGAAAGAATTATCTCATCTTTTCAAAATTTGCATGTAGTTTCCTTTTACTAATAAGGGAAAGATGCTTCCTTGGAAGAACCTTCCTGTTCAGGGGTGAAGCAGGGTTCATGTGTCATTAGAGTTCTTTCATATTTGTCTGATGTTGACTCTGGTGATGAACATGTTGGTGCCTGTCTTTACAG
Seq C2 exon
TTGAGAAGTAACCACCCATGTGTGCTGCTAGCCGTGCAGGGCAAGGAACGCAACATGATCCTCTACAAACCAAACATTGGCAAGCAACTCCAACCAGAAAGCATTGATAAACTCCAACAAAAATACCGGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000016188:ENSDART00000137984:28
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:
PF059856=EutC=PU(7.1=12.9)
A:
NA
C2:
PF059856=EutC=FE(76.8=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AAGTGTTGATAGAGGCATGCC
R:
CTTCCGGTATTTTTGTTGGAGTT
Band lengths:
223-425
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]