HsaINT0117086 @ hg19
Intron Retention
Gene
ENSG00000126883 | NUP214
Description
nucleoporin 214kDa [Source:HGNC Symbol;Acc:8064]
Coordinates
chr9:134039257-134039531:+
Coord C1 exon
chr9:134039257-134039342
Coord A exon
chr9:134039343-134039447
Coord C2 exon
chr9:134039448-134039531
Length
105 bp
Sequences
Splice sites
5' ss Seq
CAGGTAATT
5' ss Score
8.55
3' ss Seq
GGTTTATGGATTTCTTGCAGCCA
3' ss Score
6.47
Exon sequences
Seq C1 exon
TTTTGACAGTGACCTGGAAAGCCTGTGCAATGCTTTGTTGAAAACCACCATAGAATCTCACACCAAATCCTTGCCCAAAGTACCAG
Seq A exon
GTAATTGCATCCTTCCCAGTCTTTTAACTCCCTTTATTCTCTTCCAAGTACTGATATCTTAAAAACTGAGTCTTAATCATTTATGGGTTTATGGATTTCTTGCAG
Seq C2 exon
CCAAACTGTCCCCCATGAAACAGGCACAACTGAGAAACTTCTTGGCCAAGAGGAAGACCCCACCAGTGAGATCCACTGCTCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000126883-NUP214:NM_005085:20
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.257 A=NA C2=0.709
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTTTGACAGTGACCTGGAAAGCC
R:
CTGGAGCAGTGGATCTCAC
Band lengths:
170-275
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains
- Pre-implantation embryo development
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)