GgaALTD1016229-3/3 @ galGal4
Alternative 5'ss
Gene
ENSGALG00000004548 | NUP188
Description
nucleoporin NUP188 homolog [Source:RefSeq peptide;Acc:NP_001025861]
Coordinates
chr17:5404315-5406254:+
Coord C1 exon
chr17:5404315-5404415
Coord A exon
chr17:5404416-5404714
Coord C2 exon
chr17:5406200-5406254
Length
299 bp
Sequences
Splice sites
5' ss Seq
TCGGTTCGT
5' ss Score
4.07
3' ss Seq
CATTTTCCCTTTGTTTACAGGAG
3' ss Score
9.66
Exon sequences
Seq C1 exon
CGGAGCGGCCGCACCACGTGACGCCGGCGGGGCGCTGCGCTCGGCGCCGCGGGTCACGTGAGAGGGGCAGCGAAGATGGCGGCGGGCGGGCTGTGCGCGAG
Seq A exon
GTGCGGGGATGCGGCGGCGGTTGCTGCGGCGGGAACGGAGAGCGGGGGCGGGGGGCGCCGTCCCTCGTTGTGAGCGCGCTCCCGCCGCGGGGCACGGGCGACAAGGAGACCGGCGGAGAGGGGCTGTGGGGGGTGGGGGGGGCGGACAGGGGAGAGTTAACGGCCGCGGGGCCCGCGCCGCTCTGACCCCGCCTCCCGCGCTCGGCCTGGCCCCGCCCCGTCCTTCGGTTGAGGGGCCCTGAGGGACCCGCAGCTCCGTGTGACTCCTGCGGGATGCCTCCGGCCCACGGGGCGCCTCG
Seq C2 exon
GAGCAGCAGAGAATTGTGGACAATTCTCCTGGGCAGATCAGCTTTAAGAGAACCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004548-1-0,2-0,3-0-3/3
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
ORF disruption when splice site is used (sequence inclusion)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF104874=Nup188=PU(0.2=10.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm10)
No conservation detected
Mouse
(mm9)
No conservation detected
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]