MmuINT0063573 @ mm9
Intron Retention
Gene
ENSMUSG00000015095 | Fbxw5
Description
F-box and WD-40 domain protein 5 [Source:MGI Symbol;Acc:MGI:1354731]
Coordinates
chr2:25357456-25358078:+
Coord C1 exon
chr2:25357456-25357671
Coord A exon
chr2:25357672-25357920
Coord C2 exon
chr2:25357921-25358078
Length
249 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
GACCGTCTGGGCAGAATGTCACGATGGATGAGGGGGGCCTGCCCCTGCTCCCCGACAGCCTTGTCTACCAGATCTTCCTGAGTTTGGGCCCTGCAGATGTGCTGGCTGCTGGGCTGGTATGCCGCCAATGGCAGGCTGTGTCCCGGGATGAGTTCTTATGGAAGGAGCAATTCTACCGCTACTACCAGGTGGCTCGAGATGTGCCCCGCCACCCAG
Seq A exon
GTCAGTACACACACCCCTAAACCTGCTGGCTCAGGGCAGGGGCTCATGGCCCAAGGACACACGGGCCATATTGGGGAAGAGGGAGTCTCTGTGAGCAGAAGGGTGCCCCCTGTGGCTGAGACCTAATTAGTGAGTCGTGAGTTCCAGAGTCCCTACAAAACATCTCCCAGTAGCCATGCTGTCTGTCGGCTCTCAATCTTGACTAGTGAGGGAGCCTTGCATGCAGGAGTGACACTATATTGCCCACAG
Seq C2 exon
CGGCCACATCCTGGTATGAGGAGTTCCGGCGGCTCTATGACATGGTACCCTGTGTGGAGGTGCAGACACTGAAGGAGCACACTGACCAGGTCCTGCACCTCAGCTTCTCCCACTCGGGGTACCAGTTTGCCTCCTGCTCCAAGGACTGCACGGTGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000015095-Fbxw5:NM_013908:2
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=0.010 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:
CTGGGCAGAATGTCACGATGG
R:
GGTCAGTGTGCTCCTTCAGTG
Band lengths:
297-546
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: