HsaINT0063056 @ hg19
Intron Retention
Gene
ENSG00000159069 | FBXW5
Description
F-box and WD repeat domain containing 5 [Source:HGNC Symbol;Acc:13613]
Coordinates
chr9:139837221-139837958:-
Coord C1 exon
chr9:139837801-139837958
Coord A exon
chr9:139837396-139837800
Coord C2 exon
chr9:139837221-139837395
Length
405 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGG
5' ss Score
9.16
3' ss Seq
CAGCCGCCCCTGCCGAACAGATC
3' ss Score
5
Exon sequences
Seq C1 exon
CGGCCATGTCCTGGTACGAGGAGTTCCAGCGGCTGTATGACACGGTGCCCTGCGTGGAGGTGCAGACGCTGCGGGAACACACAGACCAGGTCCTGCACCTCAGCTTCTCCCATTCCGGGTACCAGTTCGCGTCCTGCTCCAAGGACTGCACTGTGAAG
Seq A exon
GTGAGGACGGCCAGGTGTCCTGCACACCCCACCCAGCTCTGCCGCAGCACGGAGGTCCCAGGACCCAGGCGTTCCAACCAGGTGGTGGTGGGGGGGGGGGTGGGTCAGGCCAGAGGTGACAGCAGCCTCCCTGCATCCAGCGGAGGGACCACAGAGGATCAGGAGCGGTGCAGGGTGGCCCTGAGTGCTGAGGAGAGGGTCCCACACACAGCCGCCTGCTTCAGGGGCAGGCTCCTCCGCTCTATACCAATGCCCCCCGAGTGGATGACAGTGGCTGGAAGGGGTCCCTGCTCCCTGGTGGCCTCTGAGTAGGGCTGGCAGAGCTGGGGCCTCATGGCTGTGTAGTAGCAGGCCCCCGCCCCGCGACCTGGCCAGGCGATCACTACAGCCGCCCCTGCCGAACAG
Seq C2 exon
ATCTGGAGCAACGACCTGACCATCTCGCTGCTGCACAGCGCGGACATGCGGCCCTACAACTGGAGCTACACCCAGTTCTCCCAGTTCAACAAGGACGACTCGCTACTGCTGGCCTCGGGGGTGTTCCTGGGGCCGCACAACTCCTCATCCGGCGAGATTGCTGTCATCAGCCTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000159069-FBXW5:NM_018998:3
Average complexity
IR-S
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
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCATGTCCTGGTACGAGGAGT
R:
CTGATGACAGCAATCTCGCCG
Band lengths:
325-730
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)