DreINT0018620 @ danRer10
Intron Retention
Gene
ENSDARG00000098801 | SBNO2 (2 of 2)
Description
strawberry notch homolog 2 (Drosophila) [Source:HGNC Symbol;Acc:HGNC:29158]
Coordinates
chr2:57072217-57072580:-
Coord C1 exon
chr2:57072437-57072580
Coord A exon
chr2:57072315-57072436
Coord C2 exon
chr2:57072217-57072314
Length
122 bp
Sequences
Splice sites
5' ss Seq
TGGGTGAGG
5' ss Score
6.74
3' ss Seq
CTGATGTTCTGTGTGTTCAGATC
3' ss Score
8.92
Exon sequences
Seq C1 exon
ACTGCACCCTCACCAAGTTTCTGAACCGTATTTTGGGTCTGGAGGTCCATCACCAGAACTTTCTGTTCCAGTACTTCACAGAAAACTTTGACTACCTGATCGAAAAGGACAAAAAGGAGGGAAAATATGACATGGGGATATTGG
Seq A exon
GTGAGGACTTTTATTTTGTGTGTTTAAAAGAGCTCAATGGTTATTGTGCATAATTGTGCCATTATTTCAATCGCTCTGTAGCTGTAGTGAAGTTGAATGAATCTGATGTTCTGTGTGTTCAG
Seq C2 exon
ATCTCGCTCCTGGTAATGATGAGATTCATGAGGAAACACAGGAGAAGTTTCTGACTCCAGGAAACCCTCAGGAAGGCCAGGTCATCCTCTATAAGGTA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000098801:ENSDART00000159719:25
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.333
Domain overlap (PFAM):
C1:
PF138711=Helicase_C_4=FE(17.3=100)
A:
NA
C2:
PF138711=Helicase_C_4=PD(0.1=0.0)
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:
ACTGCACCCTCACCAAGTTTC
R:
GGATGACCTGGCCTTCCTGAG
Band lengths:
231-353
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]