RnoINT0131007 @ rn6
Intron Retention
Gene
ENSRNOG00000013987 | Sbno2
Description
strawberry notch homolog 2 [Source:RGD Symbol;Acc:1307194]
Coordinates
chr7:12513948-12514266:+
Coord C1 exon
chr7:12513948-12514040
Coord A exon
chr7:12514041-12514134
Coord C2 exon
chr7:12514135-12514266
Length
94 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGT
5' ss Score
10.47
3' ss Seq
CTCACCACTCTGGCCCTTAGGTA
3' ss Score
7.86
Exon sequences
Seq C1 exon
ATTAGCGTGGACCGCGGTATGAAGTGGGAAGAGGCATTCACTAGGTCGCTGGAGCTAAAAGGCCCCTATGACGGCTTCTACCTCTCCTACAAG
Seq A exon
GTGAGTGAGTAGTCCCACCCCAGACAGCAGGTGCCCTGCCAGCCACCTACCCAGAAATCCCGGTGGCAGTCGACCTCACCACTCTGGCCCTTAG
Seq C2 exon
GTACGAGGCAGCAAAACGAGCTGCCTTCTGGCAGAACAGAATCGAGGCGATTATTTCACCGTGTACAAGCCAAACATTGGCCGGCAGAGCCAGCTGGAGACCCTGGACAACCTGTGCCGGAAGTTCCACCGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000013987:ENSRNOT00000068197:29
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:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGAGGCATTCACTAGGTCGCT
R:
CAGGTTGTCCAGGGTCTCCAG
Band lengths:
178-272
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]