RnoINT0131936 @ rn6
Intron Retention
Gene
ENSRNOG00000000500 | Scube3
Description
signal peptide, CUB domain and EGF like domain containing 3 [Source:RGD Symbol;Acc:1304880]
Coordinates
chr20:7739530-7740055:+
Coord C1 exon
chr20:7739530-7739649
Coord A exon
chr20:7739650-7739896
Coord C2 exon
chr20:7739897-7740055
Length
247 bp
Sequences
Splice sites
5' ss Seq
CAGGTCTGA
5' ss Score
5.06
3' ss Seq
GACAAGGCCTCTGTTTCTAGGTG
3' ss Score
7.1
Exon sequences
Seq C1 exon
AGGCTGCAGTGCTGCCAGTCAAGCAGAGGGCCTCCTTCAAGATCAAGGACGCCAAATGTCGTCTGCATCTGCGAAACAAAGGCAAAGCGGAGGAGGCCAGCGGCAGAACCCCGGGGCCAG
Seq A exon
GTCTGAACCTTCCTCCCATGGCTTCCACCAAATCATACCCCCCCCCCCATCTCTTGGCCCCTCTGTCAGTGATTCATTCACCTGTGCCCTGAGCTGTGGGCAGAAATGGGAGAGGCCCAGGAGAGGTTGGAGCCCTGAGAGGTGGGCTCAGGGCTGACTGGAGTGGACGGAGGAATGAGAGCCAGGAGGGAGAATTCTGTCTACAGTAGGAGCTACAGTTTGGGGCTGACAAGGCCTCTGTTTCTAG
Seq C2 exon
GTGGTGCCTCCTGCTCTGACTGCCAGGTCACCTTTATCCATCTTAAGTGTGACTCTTCTCGGAAGGGCAAGGGCAGACGGGCCCGGACCCCTCCAGGCAAGGAGGTTACCCGACTCACCCTGGAATTAGAAGCTGAGGTCAGAGCAGAAGAAACGACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000000500:ENSRNOT00000000593:13
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.366 A=NA C2=0.426
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
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:
CAGTGCTGCCAGTCAAGCA
R:
TGTCGTTTCTTCTGCTCTGACC
Band lengths:
272-519
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]