RnoINT0131937 @ rn6
Intron Retention
Gene
ENSRNOG00000000500 | Scube3
Description
signal peptide, CUB domain and EGF like domain containing 3 [Source:RGD Symbol;Acc:1304880]
Coordinates
chr20:7739897-7740475:+
Coord C1 exon
chr20:7739897-7740055
Coord A exon
chr20:7740056-7740259
Coord C2 exon
chr20:7740260-7740475
Length
204 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGGC
5' ss Score
9.88
3' ss Seq
ATCCATCCATCCATCACTAGCTG
3' ss Score
4.99
Exon sequences
Seq C1 exon
GTGGTGCCTCCTGCTCTGACTGCCAGGTCACCTTTATCCATCTTAAGTGTGACTCTTCTCGGAAGGGCAAGGGCAGACGGGCCCGGACCCCTCCAGGCAAGGAGGTTACCCGACTCACCCTGGAATTAGAAGCTGAGGTCAGAGCAGAAGAAACGACAG
Seq A exon
GTAGGCCAAGGGACATTGTTGGGTGGAGGGCCAAAGAGGAGGGGACACAGCCTGGATCCAAGAGAGAGAGAAAAGCCAAGGGGAGGGAGCATCTGAACTCTGAGCCTGTGTAACAGGAAGTAGCAAGCTCCAGGGCTGCCCTGTCCGCTGCCCTCTGCTCTGAGCGCTCTTTCCTCGTCCATCCATCCATCCATCCATCACTAG
Seq C2 exon
CTGGCTGTGGGCTGACTTGCCTCCGACAGCGGATGGAACGAAGGCTGAAAGGGTCCCTGAAGATGCTCAGAAAGTCCATCAACCAGGACCGGTTCCTGCTGCGTCTGGCCGGCCTTGACTATGAGCTAGCCCACAAGCCAGGCCTGGCAGCTGGGGACCGAGCAGAGCTAGTGGAGGTCTGCCGACCCGGGCAGCACCGAGCAGGCACCAAGTGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000000500:ENSRNOT00000000593:14
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.426 A=NA C2=0.041
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:
GTGACTCTTCTCGGAAGGGCA
R:
CAGACCTCCACTAGCTCTGCT
Band lengths:
292-496
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]