RnoINT0104207 @ rn6
Intron Retention
Gene
ENSRNOG00000025185 | Nup188
Description
nucleoporin 188 [Source:RGD Symbol;Acc:1306022]
Coordinates
chr3:8897973-8898681:+
Coord C1 exon
chr3:8897973-8898040
Coord A exon
chr3:8898041-8898485
Coord C2 exon
chr3:8898486-8898681
Length
445 bp
Sequences
Splice sites
5' ss Seq
TAAGTGAGT
5' ss Score
6.43
3' ss Seq
CTGGTTTGTATGTTGTATAGGGG
3' ss Score
4.8
Exon sequences
Seq C1 exon
CCCAGCATCCTGGAAACCTGTGCCCTCATCATGAAGATAATATGTTTGGAGATCTACTATGTAGTTAA
Seq A exon
GTGAGTCCGTCCCCCTTCCGGGGGTGTTGTTGTTGTTGTTATTTAGTACTAGGGCTCAAACTCTGGGCATTTTCATGCTGAGCAAGTGCTTCACCAATGAGCCATGTCCCTAGCCCCCTCCCATGGGATTTTAACCAAAGATGGGGGGGTGGGAGATGGTGGGGACCTATCACAGAATGCGTGGTCGGTAAGCAGGGCACACAAGAGGATGGTCAGGCCCATTTATGGAGGGTCAGTGTCCTGACCAGGGCACTGGTGGCATTTATGCTGTCAGAAGAGTTGTGCAGTAGGTTTTGGGTTGCTGGGATTTGATGGAGTTAGAGGCTTTTCTGAAAAGGCCTCAGTTTCGCTCGTTCCTTGGGACCTGACCCTAGAGCTGGCTGCCATGTGCCCATCTCAGCTCCATGCACTTCTGAACCCTGACTCTGGTTTGTATGTTGTATAG
Seq C2 exon
GGGTTCATTGGACCAGTCATTAAAAGATACACTCAAGAAGTTTTCCAGTGAGAAACGCTTTGCCTACTGGTCGGGGTACGTCAAGTCTCTGGCAGTTTACATGGCTGAGACAGAGGGCAACAGCTGCACGTCCTTGCTAGAGTATCAGATGCTGGTGTCCGCCTGGAGGACGCTTCTCATCGTTGCTACCAGTCAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000025185:ENSRNOT00000030996:21
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:
PF118943=DUF3414=FE(4.4=100)
A:
NA
C2:
PF118943=DUF3414=PD(2.2=16.7)
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:
CAGCATCCTGGAAACCTGTGC
R:
GTGACTGGTAGCAACGATGAGA
Band lengths:
262-707
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]