RnoINT0104214 @ rn6
Intron Retention
Gene
ENSRNOG00000025185 | Nup188
Description
nucleoporin 188 [Source:RGD Symbol;Acc:1306022]
Coordinates
chr3:8904852-8905760:+
Coord C1 exon
chr3:8904852-8904944
Coord A exon
chr3:8904945-8905601
Coord C2 exon
chr3:8905602-8905760
Length
657 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGT
5' ss Score
10.67
3' ss Seq
CTTTGTGCCATTTGCCATAGACA
3' ss Score
7.64
Exon sequences
Seq C1 exon
GGAGCCACAGCAGTGGCTGGAGCTGGCATCACGCAGAGCATCTGCTTGCCCCTCTTGAGTGTATACCAGCTGAGCAGCAATGGCACAGGACAG
Seq A exon
GTGAGTTCGTGCCCAGGCTCTGGCCCCCTGTAGCTCTCAGGTGACAGGTGCCCACCTTGCTGTTCTTCCTGTTTCATCCCAGTTCCCTGGTGGCATGGGGCTTCCTGCCCTTGACTCATGGCTAATGAGAGGAATGTAGCTGCCAGAAAGCCCCTGAGTATGTGCTTAGCGTGGGTCTGGCTCCAGTCTGATCCAAACAACATCAGTGCCACCAGGGCCAGGCTATTAGCCTGGACGCTGTCATCCCCTCAGAAGGCAGTTTGTACTTGCATCCATCATGTCTTCTCTTCCCCAAGCCTGAGGGCCGGCAGCAGGTGTGTCTTAGTGTGAACCATCGCACAGCACCTCTTATTGGACACGCCATGCCTGTTAAGTCTTCATCTAGCTGAACCTCTCTCAATTTAGCAGGAACATGTAGAGGGCCAGAGGAGGGCAGGGGTATGGCCAGTGGACAGTCTGACTAATGGCGGACTGGGTTTGGAACCTGGTGCTCTTGCTGAGTCTGGTAGCCTTGCCCCTCCTAGCTCTCGTCATACCTAGTGGCAAGTGTCCACTCGAAGAGACTTTTCTTTCCAGCAACTGGGCCACAAAGAGGCTCTGCTGCTCTGAGTGCGTTCCTGTCGCAGCCATCCTGAGTCTTTGTGCCATTTGCCATAG
Seq C2 exon
ACACCCAGCACCTCTCGAAAGTCCCTGGATGCCCCGTCCTGGCCAGGAGTTTACCGCCTCTCCATGTCCTTGATGGAGCGGTTGCTCAAGACTCTACGCTACAATTTCCTGACTGAGGCCCTAGACTTTGTGGGTGTCCATCAGGAGCGGACCTTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000025185:ENSRNOT00000030996:28
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=0.132
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:
AGTGGCTGGAGCTGGCAT
R:
CAAGGTCCGCTCCTGATGGA
Band lengths:
238-895
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]