HsaINT0063055 @ hg19
Intron Retention
Gene
ENSG00000159069 | FBXW5
Description
F-box and WD repeat domain containing 5 [Source:HGNC Symbol;Acc:13613]
Coordinates
chr9:139837801-139838558:-
Coord C1 exon
chr9:139838343-139838558
Coord A exon
chr9:139837959-139838342
Coord C2 exon
chr9:139837801-139837958
Length
384 bp
Sequences
Splice sites
5' ss Seq
CAGGTCAGT
5' ss Score
8.94
3' ss Seq
TGACAACTGCCCACCCGCAGCGG
3' ss Score
7.31
Exon sequences
Seq C1 exon
GGCCGCCTGGGCAGAATGTCACGATGGACGAGGGCGGCACGCCCCTGCTCCCCGACAGCCTGGTCTACCAGATCTTCCTGAGCCTGGGCCCGGCCGACGTGCTGGCCGCCGGGCTGGTGTGCCGCCAATGGCAGGCCGTGTCGCGGGACGAGTTCCTGTGGAGGGAGCAGTTCTACCGCTACTACCAGGTGGCCCGCGACGTGCCCCGACACCCAG
Seq A exon
GTCAGTGGCGTGTGGGGCCCCTACCCACGTTCTGCAGCCAGGGCCCCGGGCCCCTGCGCTTGGGGGTCAGCCTGGCTGGGGGCCCGCCCCGCGGCCCCGCGTGTCCATGCTCACCCCCCCACACCCTGATAGAGGCCTGTCAGGACACAGCGCAGGCGCCCCTCAGAGCTTGGAGGCCAGAGGGTTCATTGGGTCACTTGGGGGGTGGGGGGTACAGGGGTCTCTGTGAGCTACAGGGTTGAATCCCCCAGCCGAGGCCTATGCCATGACTAGTGGGTTCCAGGGGCACCACGGGGCCTGCCAGGACTGCTGGGGCCACACTCGGCTCATGGCCGTGACTGCGAGGAAGGCCCGGGCCCAGGACTGACAACTGCCCACCCGCAG
Seq C2 exon
CGGCCATGTCCTGGTACGAGGAGTTCCAGCGGCTGTATGACACGGTGCCCTGCGTGGAGGTGCAGACGCTGCGGGAACACACAGACCAGGTCCTGCACCTCAGCTTCTCCCATTCCGGGTACCAGTTCGCGTCCTGCTCCAAGGACTGCACTGTGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000159069-FBXW5:NM_018998:2
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.031 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
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAATGTCACGATGGACGAGGG
R:
CAGTGCAGTCCTTGGAGCAG
Band lengths:
356-740
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains
- Pre-implantation embryo development
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)