BtaINT0061643 @ bosTau6
Intron Retention
Gene
ENSBTAG00000010515 | FBXW5
Description
F-box and WD repeat domain containing 5 [Source:HGNC Symbol;Acc:HGNC:13613]
Coordinates
chr11:106288659-106289262:+
Coord C1 exon
chr11:106288659-106288816
Coord A exon
chr11:106288817-106289087
Coord C2 exon
chr11:106289088-106289262
Length
271 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGG
5' ss Score
9.16
3' ss Seq
GCTGGGCGCCCCACACGCAGATT
3' ss Score
4.66
Exon sequences
Seq C1 exon
CGGCCACGTCCTGGTTCGAGGAGTTCCGCCGCCTCTATGACGCAGTGCCCTGCGTGGAGGTGCAGACGCTCCGGGAGCACACCGACCAAGTCCTGCACCTCAGCTTCTCCCACTCAGGCTACCAGTTTGCTTCCTGCTCCAAGGACTGCACAGTGAAG
Seq A exon
GTGAGGGCGGCGGCCCCGGGGGGAGAGGGTCAGGGCTGACAGCCCACGGCGAGGGTCGGAACCTGGACGACCGCCCGGGCTGGGAGGCCGGGGCTGGGCGGCCCTAACTGCCTGCAGATGAGCAGGGGCCCTGCGTGCAGCTAGGCCAGAGCTCGCCGGAGCACTACGTACTCACAGGCCTCGGGTGGTCTGAAGGCCAGAGACAAGGGACCCCCACCCGATGGCGGTTTCCGGGCTCACCAGGCGTGCCTGCTGGGCGCCCCACACGCAG
Seq C2 exon
ATTTGGAACAACGACCCGACCATCTCGCTACTGCACAGCGCGGACATGCGGCCCTACAACTGGAGCTACACCCAGTTCTCCCAGTTTAACCAGGACGACTCGCTGCTGCTGGCGTCTGGGGTGTTCCTAGGGCCCCACAACTCCTCCTCAGGCGAGATCGCGGTCATCAGCCTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000010515:ENSBTAT00000013887:3
Average complexity
IR
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
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCCTGGTTCGAGGAGTTCCG
R:
ATCTCGCCTGAGGAGGAGTTG
Band lengths:
308-579
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development