RnoINT0104370 @ rn6
Intron Retention
Gene
ENSRNOG00000023393 | Nup214
Description
nucleoporin 214 [Source:RGD Symbol;Acc:1304977]
Coordinates
chr3:11001334-11002278:+
Coord C1 exon
chr3:11001334-11001460
Coord A exon
chr3:11001461-11002116
Coord C2 exon
chr3:11002117-11002278
Length
656 bp
Sequences
Splice sites
5' ss Seq
TCAGTGAGT
5' ss Score
7.68
3' ss Seq
CTCTGTTCTCTTTTTCACAGATG
3' ss Score
11.57
Exon sequences
Seq C1 exon
ACTAATTGGGAATCTTGGGTACTGGAAGACTCTAGTCGAGCTGAACTGCCTGTGACAGACAAGAGCGATGACTCCTTGCCCGTGGGTGTTGCCATAGATTACACCAATGAAGTAGAAGTTGCCATCA
Seq A exon
GTGAGTACCACCTAGTGTGTGCTGTAGAAATGGCTCCGCTGCGATGGTTGACACTTAGAAGCCATTAGCACATTTCTACCCGCAGGGTGGTGGGAGGTGCGTTGTGACAGTGCAGAGCCACCCAGAGATAAAGACGGCCGTTCACTGATGACACCGGGAGTGCCACTGTCAGCTGGAGTGCACCCAGCACGGTTAAGGGAAAGATGAGGGGCTGGTACACGGGGCCTGGGTTTGTTCTGAGTATGCCTTTCCCCTGTGGAGGTCAGCAGTGTAACCACAGTGGCAGATGGCATGAGGCAGCTGAAGACCATCTACCTGCTTGAGCTTCACTCTGCAGAGCTGTCCTGCTCAGGCACCAGTGAGCTTGTCCCTTCCTCGCTTTGAGGCTCGCATTTGATGAGCTTATAGTCTTTTTCTCTCACATACTTATGATTCGACTGGGAATGAGTATAAAGTAGTTAACTCGCTGTCCCAGGGGCCCAGCAGGATGTGGTGACCTAATAGTGACAGGAGCTCTTGATGCAGCCGCTGCGTGGTCACATCTGAGTGAACTGCTGTTGAGAGAAGTACGTCAGTCATGCAGGGCAGCCTGCCCTCCAGACCCGGGCCTGGAAACTGATGTGGCTCTTTTATCAACTCTGTTCTCTTTTTCACAG
Seq C2 exon
ATGAAGAAAAGACTCTTCCTCCTGCTCCGGTTCTCCTGTTACTTTCAACAGATGGTGTACTTTGTCCATTTTATATGATCAATCAAAATCCCGGGGTTAGGTCCCTAATCAAGACCTTAGAGCTGATCTCAGCAGAGGGAGAGCGCCAGCCTAAGTCCTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000023393:ENSRNOT00000037164:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.256 A=NA C2=0.327
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:
AATTGGGAATCTTGGGTACTGGA
R:
CTGAGGACTTAGGCTGGCGC
Band lengths:
286-942
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]