RnoINT0104222 @ rn6
Intron Retention
Gene
ENSRNOG00000025185 | Nup188
Description
nucleoporin 188 [Source:RGD Symbol;Acc:1306022]
Coordinates
chr3:8907823-8908438:+
Coord C1 exon
chr3:8907823-8907952
Coord A exon
chr3:8907953-8908064
Coord C2 exon
chr3:8908065-8908438
Length
112 bp
Sequences
Splice sites
5' ss Seq
CTGGTATGG
5' ss Score
7.13
3' ss Seq
ATCTGATGCTTTTCTTGCAGAGC
3' ss Score
8.84
Exon sequences
Seq C1 exon
GTCCCTCCTGATGTTCACCATGGAGAACTGCTTCTATCTGCTCATCTCCCAAGCAGTACGCTACCTCAGGGACCCGGCTGTGCACCCCCGGGACAAGCAGCGGATGAAGCAGGAGCTGAGCTCAGAGCTG
Seq A exon
GTATGGATGTAGGGCTGGCCAGCGGGGAAGGCTGTGTGGATGCCACCTGTCTTGTCATTTGGGGTCAGCAACAGTGGCCCGGGATCTCATTAATCTGATGCTTTTCTTGCAG
Seq C2 exon
AGCACATTGCTTTCCAGCCTCTCACGTTACTTCAGAAGGGGAGCCCCCAGCTCCCCTGCTGCTGGAGTCCTGCCCTCACCACAGGGCAAAGCCACCTCTCTATCCAAAGCTAGCCCAGAGTCTCAGGAGCCTCTGATCCAACTTGTGCAAGCCTTTGTCCGGCACGTGCAGAGATAGGGCAAAGGAGGGCTGTCTACTTGCTGCTCCCTCCCAGCCTGCACTGCAGCCTGGGCAGAGGCTGCTGCCACTGAGCAAGCCACTCCCTTCGTCCTCCTCACGCCCGCCCGCTGACATTATTTTTATATAGCTGAAGAGGTCAACAGCACGGGCAGAGGACAAAGGGTCTGGGTGCTCAGACTGACAGCACCCTAAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000025185:ENSRNOT00000030996:35
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.250 A=NA C2=0.362
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:
CCCTCCTGATGTTCACCATGG
R:
CCTGAGACTCTGGGCTAGCTT
Band lengths:
255-367
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]