RnoINT0060104 @ rn6
Intron Retention
Gene
ENSRNOG00000028674 | Fbxw5
Description
F-box and WD repeat domain containing 5 [Source:RGD Symbol;Acc:1305661]
Coordinates
chr3:2727827-2728393:+
Coord C1 exon
chr3:2727827-2728042
Coord A exon
chr3:2728043-2728235
Coord C2 exon
chr3:2728236-2728393
Length
193 bp
Sequences
Splice sites
5' ss Seq
CAGGTCAGT
5' ss Score
8.94
3' ss Seq
TGACACTATATTGCCCACAGCGG
3' ss Score
6.98
Exon sequences
Seq C1 exon
GACCGTCTGGGCAGAATGTCACGATGGATGAGGGGGGCATGCCCCTGCTCCCCGACAGCCTGGTCTACCAGATCTTCCTGAGCTTGGGCCCTGCAGATGTGCTGGCTGCTGGGCTGGTGTGCCGCCAGTGGCAGGCTGTCTCCCGGGACGAGTTCCTATGGAGGGAGCAGTTCTACCGCTACTACCAGGTGGCTCGCGATGTGCCCCGCCACCCAG
Seq A exon
GTCAGTACTTACACACCCTAAACCTGCTGGCCTTGGGCAGGGACTCATGGCCCAAGGACCTCACACATTGGTCACACTGGGGGAGAGGGAGTCTCTGTAGTTGAGACCTAATTAGTGAATAGTGAGTTCCAGAGTCCCTACAGAACAGCTCCGAGTAGCCATGCTGTCAGGAGTGACACTATATTGCCCACAG
Seq C2 exon
CGGCCACATCCTGGTATGAGGAGTTCCGGCGGCTCTATGACATGGTGCCCTGTGTGGAGGTGCAGACACTGAAGGAGCACACCGACCAGGTCCTGCACCTCAGCTTCTCCCACTCGGGGTACCAGTTTGCCTCCTGCTCCAAGGACTGCACAGTGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000028674:ENSRNOT00000034089:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF129372=F-box-like=WD(100=72.3)
A:
NA
C2:
PF0040027=WD40=PU(89.7=66.0)
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:
CCGTCTGGGCAGAATGTCAC
R:
CCGGAACTCCTCATACCAGGA
Band lengths:
243-436
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]