RnoINT0104211 @ rn6
Intron Retention
Gene
ENSRNOG00000025185 | Nup188
Description
nucleoporin 188 [Source:RGD Symbol;Acc:1306022]
Coordinates
chr3:8902075-8902638:+
Coord C1 exon
chr3:8902075-8902220
Coord A exon
chr3:8902221-8902456
Coord C2 exon
chr3:8902457-8902638
Length
236 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGC
5' ss Score
8.7
3' ss Seq
CCTTCCCGTCTGTTCTGCAGTAA
3' ss Score
7.52
Exon sequences
Seq C1 exon
AGAGCTGGGTGCTGTGGATAAAATCCTTGGGCCCTTGACAGAGGTCCTGGAAGGGGTGCTCCAGGCAGACCAGCAGCTCATGGAGAAGACCAAGGCCAAGGTGTTCTCTGCATTCATCACAGTGTTACAGATGAAGGAGCTTCGAG
Seq A exon
GTGAGCACCAGCGCCTAACACGGGCCACACGCACTTGCTGTGAGACTTGAGATTTCAGTGTTGGGATTTCTACCCCAGGATACTTTCTTTCCCACCATCCCTTCCCCTCCCAGTAGTGTGGCGCCCTTCCTCTTGGTACACAACTGCCTTTCCAGCCCCTGCCTAGGAAGAAAGCCTTGGTGTGCGGTCAGAATGGCCTTCCTTGTGTGCCAGCACCCTTCCCGTCTGTTCTGCAG
Seq C2 exon
TAAGCGAAATCCCCCAGTACTCCCAGCTGGTGCTGAATGTCTGCGAGACCCTCCAGGAAGAGGTGATTGCACTCTTTGACCAGACCCGCCACAGCCTGGCATCAGGCAGTGCTGCCGAAGACAAAGACAGCATGGAAACAGATGACTGCCCTCGGCCCCGGCACAAGGACCAGCGTGACGGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000025185:ENSRNOT00000030996:25
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=0.328
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:
GCTGGGTGCTGTGGATAAAATC
R:
CGAGGGCAGTCATCTGTTTCC
Band lengths:
297-533
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]