RnoINT0131935 @ rn6
Intron Retention
Gene
ENSRNOG00000000500 | Scube3
Description
signal peptide, CUB domain and EGF like domain containing 3 [Source:RGD Symbol;Acc:1304880]
Coordinates
chr20:7739211-7739649:+
Coord C1 exon
chr20:7739211-7739315
Coord A exon
chr20:7739316-7739529
Coord C2 exon
chr20:7739530-7739649
Length
214 bp
Sequences
Splice sites
5' ss Seq
ATGGTGAGC
5' ss Score
8.27
3' ss Seq
AACTTCTCTCACCCCTCTAGAGG
3' ss Score
7.76
Exon sequences
Seq C1 exon
AGTCAGAGAACGGATTCACAGTGAGCTGCGGTACCCCGAGCCCTAAAGCTGCTGCAGGTCGAGCCATTCACCCGGGCAACAGCACCATCTCCAACTCCTGCCATG
Seq A exon
GTGAGCATCTACCCAGAAGCCCTCCCACTTCCTGGCCTGCCTTCCCTCTATTTCCTGTGTTACTCTGGCTTCGAAGCCTAGCTCCTTAGCCCTTCCATCAATGCCCTTGGCGTTCATGATCCTGCTTCAGCTAAACCTCATGGCTCAGCTTGCAGCCGCCCTCCCACAGCAGCCTCCCTAGCCCTGGCTGTGCTAACTTCTCTCACCCCTCTAG
Seq C2 exon
AGGCTGCAGTGCTGCCAGTCAAGCAGAGGGCCTCCTTCAAGATCAAGGACGCCAAATGTCGTCTGCATCTGCGAAACAAAGGCAAAGCGGAGGAGGCCAGCGGCAGAACCCCGGGGCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000000500:ENSRNOT00000000593:12
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.111 A=NA C2=0.366
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:
AGTCAGAGAACGGATTCACAGTG
R:
CTGGCCTCCTCCGCTTTG
Band lengths:
205-419
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]