RnoINT0060105 @ rn6
Intron Retention
Gene
ENSRNOG00000028674 | Fbxw5
Description
F-box and WD repeat domain containing 5 [Source:RGD Symbol;Acc:1305661]
Coordinates
chr3:2728236-2728867:+
Coord C1 exon
chr3:2728236-2728393
Coord A exon
chr3:2728394-2728692
Coord C2 exon
chr3:2728693-2728867
Length
299 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGG
5' ss Score
9.16
3' ss Seq
CTGCAGCCTCTCTGGTACAGATC
3' ss Score
5.92
Exon sequences
Seq C1 exon
CGGCCACATCCTGGTATGAGGAGTTCCGGCGGCTCTATGACATGGTGCCCTGTGTGGAGGTGCAGACACTGAAGGAGCACACCGACCAGGTCCTGCACCTCAGCTTCTCCCACTCGGGGTACCAGTTTGCCTCCTGCTCCAAGGACTGCACAGTGAAG
Seq A exon
GTGAGGGTGCCTCTCCCATGCAGTAGAACTCAGTGGGAAGAGAAGCCAATGGTGAGAGAAGCAGAAAGGGCCACACAGGGCCTGGAGGCCTGGTCTGGACCACTCAAGACCCAAAGCTAAGAACAGCTCTAACCTCTAGTCAGCTATTGGTTCGATGTCCTAAGAGTGGGTGGTGAAGGCCTAAGCCAAGGTTCTTGCCCATGAGGACCCAGCACCCTCAATGGAGAAGAGTGAGGACTTCTGTGTGTGCTGCCCTGGTGCACTGGCCTGGTAATTACCCTGCAGCCTCTCTGGTACAG
Seq C2 exon
ATCTGGAACAATGACCTGACCATCTCTCTGCTGCACAGTGCAGATATGAGGCCATACAACTGGAGTTACACCCAGTTCTCCCAGTTCAACCAGGATGACTCACTGTTGCTGGCCTCGGGGGTGTTCCTAGGGCCACATAACTCCTCCTCAGGCGAGATAGCTGTCATCAGCTTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000028674:ENSRNOT00000034089:3
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:
PF0040027=WD40=PU(89.7=66.0)
A:
NA
C2:
PF0040027=WD40=PD(5.1=3.4)
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:
GCTCTATGACATGGTGCCCTG
R:
GACAGCTATCTCGCCTGAGGA
Band lengths:
292-591
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]