BtaINT0061642 @ bosTau6
Intron Retention
Gene
ENSBTAG00000010515 | FBXW5
Description
F-box and WD repeat domain containing 5 [Source:HGNC Symbol;Acc:HGNC:13613]
Coordinates
chr11:106288303-106288816:+
Coord C1 exon
chr11:106288303-106288518
Coord A exon
chr11:106288519-106288658
Coord C2 exon
chr11:106288659-106288816
Length
140 bp
Sequences
Splice sites
5' ss Seq
CAGGTCAGC
5' ss Score
7.16
3' ss Seq
GACCCCCCCACCCCCGACAGCGG
3' ss Score
6.36
Exon sequences
Seq C1 exon
GGCCGCCGGGGCAGAATGTCACGATGGACGAGGGGGAAACACCCCTGCTTCCAGACAGCCTGGTCTACCAGATCTTCCTGAGCCTGGGCCCGGCCGACGTGCTGGCCGCCGGGCTGGCGTGCCGCCAGTGGCAGGCTGTGTCCAGGGACGAGTGCCTGTGGAGGGAGCAGTTCTACCGCTACTACCAAGTGGCCCGAGATGTGCCCCGGCACCCAG
Seq A exon
GTCAGCACTGGCCCTCACGCTGGCTGGGGACGGCGGGCTGGGCCTGGGAGCAGGCCCGGAGGGTGGGCAGGGCGGCCCCCGGCTGCCAGGGCCTGGGCTTGAGGCCCGCAGCCCCAGCATGACCCCCCCACCCCCGACAG
Seq C2 exon
CGGCCACGTCCTGGTTCGAGGAGTTCCGCCGCCTCTATGACGCAGTGCCCTGCGTGGAGGTGCAGACGCTCCGGGAGCACACCGACCAAGTCCTGCACCTCAGCTTCTCCCACTCAGGCTACCAGTTTGCTTCCTGCTCCAAGGACTGCACAGTGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000010515:ENSBTAT00000013887:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.031 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
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACCAGATCTTCCTGAGCCTGG
R:
GAAGCTGAGGTGCAGGACTTG
Band lengths:
257-397
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development