RnoINT0104220 @ rn6
Intron Retention
Gene
ENSRNOG00000025185 | Nup188
Description
nucleoporin 188 [Source:RGD Symbol;Acc:1306022]
Coordinates
chr3:8907325-8907724:+
Coord C1 exon
chr3:8907325-8907456
Coord A exon
chr3:8907457-8907650
Coord C2 exon
chr3:8907651-8907724
Length
194 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAGC
5' ss Score
9.85
3' ss Seq
TCTTATATTGCTTCCTCTAGCTG
3' ss Score
8.23
Exon sequences
Seq C1 exon
TCCCTGGATCTTGCTGAGTACAACTTTCTATTTGCCCTGAGTTTCACCACTCCCACTTTTGACTCTGAAGTAGCCCCCTCCTTCGGAACCCTCTTGGCCACAGTGAATGTGGCCCTCAACATGCTTGGAGAG
Seq A exon
GTAAGCTGGTGAGGTAGGCCCCACACAACTTTCCACTTGTTTTGGAACTACGGAACACATCCAGCCTCTGGAGCCTAGGCCTCTTCCTTCAGGGGCACGCTGGAGTTCCCATGAGTACCAGGGGATAACTGGTATACAAGTTCTCTAACTGGTCACTCTTACTGCCAACTTGATTCTTATATTGCTTCCTCTAG
Seq C2 exon
CTGGACAAGAAAAAGGAATCCCTCACCCAGGCGGTGGGCCTCAGCACACAAGCAGAAGGGACCCGGACATTAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000025185:ENSRNOT00000030996:33
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=0.080
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:
TCCCTGGATCTTGCTGAGTACA
R:
TAATGTCCGGGTCCCTTCTGC
Band lengths:
204-398
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]