DreINT0018585 @ danRer10
Intron Retention
Gene
ENSDARG00000016188 | SBNO2 (1 of 2)
Description
strawberry notch homolog 2 (Drosophila) [Source:HGNC Symbol;Acc:HGNC:29158]
Coordinates
chr22:17673411-17673763:-
Coord C1 exon
chr22:17673632-17673763
Coord A exon
chr22:17673547-17673631
Coord C2 exon
chr22:17673411-17673546
Length
85 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGA
5' ss Score
8.68
3' ss Seq
ATTTGCCCTACTCGTTTCAGTTG
3' ss Score
7.78
Exon sequences
Seq C1 exon
ATGACAGGACGGAAAGGCCGAGTGGTACGTCGACCTGATGGCAGTGTCCAATATGAGTCCCGTGCTGAGCAAGGCCACACCATCGACCAAATCAACATCAAAGAGAAAGATCGGTTCATGAATGGCGAGAAG
Seq A exon
GTGAGACTCAATGAAGGAATCTGAAGCTTTTAGGTTCTGATTTCATTGGTGTATCTAGAAACACAATTTGCCCTACTCGTTTCAG
Seq C2 exon
TTGGTAGCTATCATATCTGAAGCAGCCAGTTCAGGGATTTCACTTCAGGCTGACAGAAGAGTTAAGAACCAGTGCCGAAGGGTTCACATGACCCTGGAGTTGCCTTGGAGTGCAGACAGAGCCATCCAGCAGTTTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000016188:ENSDART00000137984:20
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.750 A=NA C2=0.043
Domain overlap (PFAM):
C1:
PF138711=Helicase_C_4=FE(15.5=100)
A:
NA
C2:
PF138711=Helicase_C_4=FE(16.2=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:
GCCACACCATCGACCAAATCA
R:
CTGTCTGCACTCCAAGGCAAC
Band lengths:
178-263
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]