HsaINT0063044 @ hg19
Intron Retention
Gene
ENSG00000119402 | FBXW2
Description
F-box and WD repeat domain containing 2 [Source:HGNC Symbol;Acc:13608]
Coordinates
chr9:123533626-123535118:-
Coord C1 exon
chr9:123535032-123535118
Coord A exon
chr9:123533796-123535031
Coord C2 exon
chr9:123533626-123533795
Length
1236 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGT
5' ss Score
10.47
3' ss Seq
TCATTTTCTTTTTTCTGTAGATT
3' ss Score
10.82
Exon sequences
Seq C1 exon
GTAGTTTTGCAGAAGTGCAAAGTCAAGTCTCTCTTGCACAGTCCTGGAGACTACATCCTCTTAAGTGCAGACAAATATGAGATTAAG
Seq A exon
GTGAGTTTTTTTCTCCATTAATTTGCTTCATTAAAGAAAAACTGGAAAACATAAGAAAATGAAAGTGGTATGGCAAAGGGTGAACATTCTAGGAAGAGGAGGGGGAGTGTCTTAGTCCAAGCCATTTTAAACCCACCGGAAGAAGAGATGATTTGCTAGCTCTATGTCCTGTGTAGTTTCTTAACTTGGATTTGTAAATGAAAAAGAAATTCACATAAATTTATGTTCAGCTTATTCTTAATTTTTGTTGTTGGTTTTTTTTTGAGACAGTCTCGCTCTGTTGCCCAGGTTGGAGTGCAGTGGCACAATATTGGCTCACTGCAACCTCCGCCCCCTGGGTTCAAGTGATTCTCCTGCCTCAGCCTACCGAGTAGCTGGGACTACAGGCGCCTGCTACCAGGCCCAGCTAATTTTTGTATTTTTAGTAGAGATGGGAGTTCACCATATTGGCCAGGCTGGTCTCGAACTCCTGACCTTGTGATCCGCCTGCCTTGACCTCCCAAAATGCTGGAATTACAGGCATGAGCCACCACGCCCGGCCCATTCTTAATACTTTTTTACATATCTCCTACCGTCCTTAATTCTTAGATCTGAACTATGAAAACATAAATATTTATTGTAATGAATTGCAAAGAGTTCACAAAGTACTCTCACATTCTTACTGCATCTCTTTTTTTTTTTTTTTTTTTTTTTCTGAGACAGGGTCTCACTCTGTCACCCAGGCTGGAGTGCAGTGGTAGAATCTTTGCTTACTGCAACCTCTGCCTCCCAGGTTCAAGTGATGCTCGTGCTTCAGCCTCCCAAGTAGCTGGGATTACAGGCGTGTGCTATCACGCCTGGCTAATTTTTGTATTTTTAGTAGAGACAGGGTTTCACCATGTTGGCCAGGCTGGTCTTGAACTCCTGACCTCAGGTGATCCACCTGCCTAGGCCTCCCAAAGTGCTGGGATTACAGGCGCGAGCCACCGTGCCTGGCCCATTATTGGATCTTTTATACTGTCCCGTGTGATAGGCATTATCTTCATTGCAGGAGCTGGAGTTAAGAGAGATTAAATAATTTACCCAAGATTGCACAGGAGAATTAAGACTTGAACCTGTGATTCTTGGCTATAAAACCTGGGGTCTTTCCAGTATACTTCACTTTCTATCTGACTTCACAAATGCAGACCATTTTAAGGACAAGCTTTTCTGTAGTGATGTGATCTCTCATCTTTCCTCATTTTCTTTTTTCTGTAG
Seq C2 exon
ATTTGGCCAATTGGGAGAGAAATCAACTGTAAGTGCTTAAAGACATTGTCTGTCTCTGAGGATAGAAGTATCTGCCTGCAGCCAAGACTTCATTTTGATGGCAAATACATTGTCTGTAGTTCAGCACTTGGTCTCTACCAGTGGGACTTTGCCAGTTATGATATTCTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000119402-FBXW2:NM_012164:6
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=FE(59.6=100)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAGAAGTGCAAAGTCAAGTCTCTCT
R:
GAGAATATCATAACTGGCAAAGTCCC
Band lengths:
246-1482
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)