RnoINT0131948 @ rn6
Intron Retention
Gene
ENSRNOG00000000500 | Scube3
Description
signal peptide, CUB domain and EGF like domain containing 3 [Source:RGD Symbol;Acc:1304880]
Coordinates
chr20:7731723-7732144:+
Coord C1 exon
chr20:7731723-7731848
Coord A exon
chr20:7731849-7732027
Coord C2 exon
chr20:7732028-7732144
Length
179 bp
Sequences
Splice sites
5' ss Seq
AATGTGAGA
5' ss Score
3.37
3' ss Seq
TGTCTCCTCCCTCTGTGCAGTGA
3' ss Score
9.52
Exon sequences
Seq C1 exon
AAGGAATGAACTGCATGAACAAGAACCACGGCTGTGCCCACATTTGCCGGGAGACTCCGAAGGGGGGCATTGCCTGTGAATGCCGCCCTGGCTTCGAGCTCACCAAGAACCAACGGGACTGTAAAT
Seq A exon
GTGAGACGTGAGGCAGGGGAGTGGGGAACAGGAGGGTGTGGGGTCTCAGTAGCCAGAGGGCAGGGGTGGGAGGAAAGAGGACTGGGAGGGGGCACAGTGAGGAAAGGGGTGGCTTTCTCCCCACGCAGACCTGCTGCATGAGGGACAAGCAGGCCGATATGTCTCCTCCCTCTGTGCAG
Seq C2 exon
TGACCTGCAACTACGGTAACGGTGGCTGCCAGCACACATGCGATGACACAGAGCAGGGTCCTCGGTGCGGCTGCCACGTCAAGTTTGTGCTCCATACGGACGGAAAGACATGCATTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000000500:ENSRNOT00000000593:5
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:
PF146701=FXa_inhibition=WD(100=86.0)
A:
NA
C2:
PF146701=FXa_inhibition=WD(100=90.0)
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:
AGGAATGAACTGCATGAACAAGA
R:
CAATGCATGTCTTTCCGTCCG
Band lengths:
242-421
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]