DreINT0018586 @ danRer10
Intron Retention
Gene
ENSDARG00000016188 | SBNO2 (1 of 2)
Description
strawberry notch homolog 2 (Drosophila) [Source:HGNC Symbol;Acc:HGNC:29158]
Coordinates
chr22:17673038-17673546:-
Coord C1 exon
chr22:17673411-17673546
Coord A exon
chr22:17673151-17673410
Coord C2 exon
chr22:17673038-17673150
Length
260 bp
Sequences
Splice sites
5' ss Seq
TTGGTGAGT
5' ss Score
9.27
3' ss Seq
TAACTCACTCTGTTCCTCAGGGC
3' ss Score
7.68
Exon sequences
Seq C1 exon
TTGGTAGCTATCATATCTGAAGCAGCCAGTTCAGGGATTTCACTTCAGGCTGACAGAAGAGTTAAGAACCAGTGCCGAAGGGTTCACATGACCCTGGAGTTGCCTTGGAGTGCAGACAGAGCCATCCAGCAGTTTG
Seq A exon
GTGAGTAGCATGCATACCTATAAAATTTGTGGCCATGCACCAGTTATTTTGACTACTCTAAGTAGGACAGTCTTTAGATTAGACTGCAATGCTTTGATGCTGTTAAAAGTGTCTACACCCCCTGTCTACACCCCCAGTCCAATGTAGCAACAATAATTCCACCTGCATCAATCAGGCACAACCTCTAACCTTGCCATCAAAGCTCTCTTACTATAATGAGTGTCATCATACCACAAATACTAACTCACTCTGTTCCTCAG
Seq C2 exon
GGCGCACACATCGTTCCAACCAAGTCAATGCACCAGAGTACATCTTCCTTATCTCCGAATTGGCAGGCGAGCGACGTTTTGCATCTATCGTGGCGAAGAGGCTGGAGAGCCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000016188:ENSDART00000137984:21
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.043 A=NA C2=0.079
Domain overlap (PFAM):
C1:
PF138711=Helicase_C_4=FE(16.2=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
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGGTAGCTATCATATCTGAAGCAGC
R:
CTCTCCAGCCTCTTCGCCA
Band lengths:
244-504
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]