RnoINT0131933 @ rn6
Intron Retention
Gene
ENSRNOG00000000500 | Scube3
Description
signal peptide, CUB domain and EGF like domain containing 3 [Source:RGD Symbol;Acc:1304880]
Coordinates
chr20:7738591-7739077:+
Coord C1 exon
chr20:7738591-7738716
Coord A exon
chr20:7738717-7738960
Coord C2 exon
chr20:7738961-7739077
Length
244 bp
Sequences
Splice sites
5' ss Seq
CAGGTGTGT
5' ss Score
6.99
3' ss Seq
GACCTTGCTTCCCTTCCTAGAGC
3' ss Score
9.88
Exon sequences
Seq C1 exon
ATGTGGATGAATGCAGCATCAATAAGGGGGGCTGCCGCTTTGGCTGCATCAACACCCCAGGCAGCTATCAGTGTACCTGCCCGGCAGGCCAGGGCCGCCTCCACTGGAACGGAAAGGATTGCACAG
Seq A exon
GTGTGTGGCGCCCTCTGCTGGACAGACCTGGCAATGCTATTTCAGGGGAAGGTTGGGGTCTGGTGGGAAGGTGTGAGGGGAGAGGGGTGGGGGAACATAGCCAGCTGGGTTAGACAAGACATTTCTGGTTTAAAATGTGCCGTGTCTCCTTGGGCATGTAGACAGTCTTTTTCCGCATTAGCCGTCTGAGGGAGCAGGTAGACGAGGGATGTTCCACATTCTCAGACCTTGCTTCCCTTCCTAG
Seq C2 exon
AGCCAGTGAAGTGCCAGAGCAGTTCTGGAGCCTCAAAAGCCATGCTCAGCTGCAGTCGCTCGGGCAAGAAGGATACCTGTGCCCTGACCTGCCCCTCCCGCGCCCGGTTCTTACCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000000500:ENSRNOT00000000593:10
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:
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:
ATGTGGATGAATGCAGCATCA
R:
GGGCAGGTCAGGGCACAG
Band lengths:
220-464
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]