GgaINT0125791 @ galGal3
Intron Retention
Gene
ENSGALG00000008966 | FBXW5
Description
NA
Coordinates
chr17:900115-901046:+
Coord C1 exon
chr17:900115-900272
Coord A exon
chr17:900273-900871
Coord C2 exon
chr17:900872-901046
Length
599 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGG
5' ss Score
10.51
3' ss Seq
GTTTGTTCATCTGCCTGTAGATC
3' ss Score
8.47
Exon sequences
Seq C1 exon
CTGCTGTCTCCTGGTATGATGAGTTCCAGAGGCTCTACGACACCATCCCTTGCATTGAAGTGCAGGCCCTGAAGGAGCACAATGACCAGGTGTTGCACCTCAGCTTCTCTCACTCGGGCTGTTTGTTTGCATCGTGCTCCAAAGACTGTACTGTTAAG
Seq A exon
GTAAGGTGGTAGCATTCCCTGCACAAAACTTTCAGCTTTGATTTTATAAGGCTCAGCTGTGATTCAGGAAACCCGTGGAGAGGTGAGGCTTGACCAGGTGGCTCTGGGCTTTTCGTTTGTAGCTGCTGAGTTGTTCTCAAAGCCACAGAACTACTGCCTTTTGCCACTGCAACCTTGAGAGCAGCAGATTTCAGCTTCGGCCCATCTGAAGGTAGAGGTGCCTACCTGGCTCTGGCTGCTTTCCAGGTGCAAGCCAGTCCTTCATTATAACTAACAGTGATAATGACCTGCTGCAGAAAATGTCTTGCGTGGGTGGTTGTCTTGGGAGAAATCTCTGTCAACATGCTTAAAAATCCAACTGTGTTGCTAACTTTCACTGCCTGGCCGATGGAGAAGTTTGGAGAAGCACAGTGTTTAGCTCCAGAGCTGTGGCTGTTCCCTGTCAGTGGAGCTCACAGGGAATTTGGGTCTTGAAGGTATTTAAATAGGGTTTTCAGTAACTTTTTTTGCTTTGACTGGTGAGTGCTGACAGGGCAGGTGAAGTGGGACAGCCTTCAGGCTTCTTACAGCTTCCTAACTGTTTGTTCATCTGCCTGTAG
Seq C2 exon
ATCTGGAGCAATGAGTTGGACATCTCCCTGCAGCACAGCTCCAACATGAGGCCGTACAACTGGAGCTACACACAGTTCTCCCAGTTCAACTCCGATGACTCCCTCCTTCTGGTATCAGGTGTCTTTGTGGGGCCTCACAACTCCTCATCAGGAGAGATTGCCGTAATCAGCATGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000008966:ENSGALT00000014582:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
No protein impact description available
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
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGCTGTCTCCTGGTATGATGAGT
R:
GCTGATTACGGCAATCTCTCCT
Band lengths:
328-927
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]