RnoALTD0020741-1/2 @ rn6
Alternative 5'ss
Gene
ENSRNOG00000025185 | Nup188
Description
nucleoporin 188 [Source:RGD Symbol;Acc:1306022]
Coordinates
chr3:8890621-8891666:+
Coord C1 exon
chr3:8890621-8890683
Coord A exon
NA
Coord C2 exon
chr3:8891538-8891666
Length
0 bp
Sequences
Splice sites
5' ss Seq
ATAGCAGGT
5' ss Score
-3.68
3' ss Seq
CTGAGACCCCTCTTTTCCAGCCA
3' ss Score
5.07
Exon sequences
Seq C1 exon
GTTGCCTGATTCTGGAGCTGATTCATGCAATACTGAACCTGTGCCAAGAGACAGAGCTGCATA
Seq A exon
NA
Seq C2 exon
CCACACGCCCAGCCTGCCTTCCCTCTGCATCTGCAGCCTGGCTTATACCGAGGCTGGACAGACTGTCATCAGCATCATGGGAATTGGTGTGGACACCATAGACATGGTGATGGCTGCTCAGCCCCGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000025185-27-29,28-29-1/2
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
ORF disruption when splice site is used (sequence exclusion)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.068
Domain overlap (PFAM):
C1:
PF104874=Nup188=FE(3.0=100),PF118943=DUF3414=FE(4.4=100)
A:
NA
C2:
PF104874=Nup188=FE(5.9=100),PF118943=DUF3414=FE(8.6=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGTGCCAAGAGACAGAGCTG
R:
GCTGATGACAGTCTGTCCAGC
Band lengths:
98-102
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]