RnoINT0104213 @ rn6
Intron Retention
Gene
ENSRNOG00000025185 | Nup188
Description
nucleoporin 188 [Source:RGD Symbol;Acc:1306022]
Coordinates
chr3:8904526-8904944:+
Coord C1 exon
chr3:8904526-8904726
Coord A exon
chr3:8904727-8904851
Coord C2 exon
chr3:8904852-8904944
Length
125 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGGA
5' ss Score
9.79
3' ss Seq
ATGATGGGTTTTTCTGCTAGGGA
3' ss Score
6.65
Exon sequences
Seq C1 exon
GTATGTGTCCTGGGACTGCATCTGGCAAAGGAGCTCTGTGAGGTGGATGAGGATGGGGACTCGTGGCTGCAGGTGACCCGAAGGCTCCCCATTCTGCCCACGCTGCTCACCACCCTGGAGGTGAGCCTCCGCATGAAGCAGAACCTGCATTTTACTGAGGCTGCGCTGCACCTGCTCCTCACCCTGGCTCGCACCCAGCAG
Seq A exon
GTAGGAGGCTGCCTCGGGTGGGAAGACTCTGCTGGTGCTCGGTGGTCCCCATGGTTTGATTCCGATCTCTTCCTGTCCTTGGCAAACCTTCCCGGGCTCCATCTAATGATGGGTTTTTCTGCTAG
Seq C2 exon
GGAGCCACAGCAGTGGCTGGAGCTGGCATCACGCAGAGCATCTGCTTGCCCCTCTTGAGTGTATACCAGCTGAGCAGCAATGGCACAGGACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000025185:ENSRNOT00000030996:27
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:
NO
A:
NA
C2:
NO
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:
ATGTGTCCTGGGACTGCATCT
R:
CTCAAGAGGGGCAAGCAGATG
Band lengths:
258-383
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]