HsaINT0117088 @ hg19
Intron Retention
Gene
ENSG00000126883 | NUP214
Description
nucleoporin 214kDa [Source:HGNC Symbol;Acc:8064]
Coordinates
chr9:134049442-134051008:+
Coord C1 exon
chr9:134049442-134049705
Coord A exon
chr9:134049706-134050846
Coord C2 exon
chr9:134050847-134051008
Length
1141 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGT
5' ss Score
10.86
3' ss Seq
AATTTTTCTTTTCCTCTTAGTGG
3' ss Score
7.52
Exon sequences
Seq C1 exon
CCAGCCTGTCTCGATCAGCCTTTCTGTCTCAGAGATATTATGAAGACTTGGATGAAGTCAGCTCAACGTCATCTGTCTCCCAGTCTCTGGAGAGTGAAGATGCACGGACGTCCTGTAAAGATGACGAGGCAGTGGTTCAGGCCCCTCGGCACGCCCCCGTGGTTCGCACTCCTTCCATCCAGCCCAGTCTCTTGCCCCATGCAGCACCTTTTGCTAAATCTCACCTGGTTCATGGTTCTTCACCTGGTGTGATGGGAACTTCAG
Seq A exon
GTAAGTAAACAGTGGGAAAGGAAACTGTTTTTCCCTATGATGTTTCTAACTAATGACGGAATTGTAACTGGGTCTTATACTGTCACACCAATATGGTGGTTGGCTCCAGCCCACTTTTTTTTTTTTTTCTTTTTTTCTTTTTTTTTTTGAGGTGGAGTCTCACTCTGTTGCCCAGGCTGGAGTGTAATGGCGCGATCTAGGCTCACTGCAACATCCACCTCCTGGGTTCAAATGATTCTCCTGCCTCACCCTCCCAAGTAGCTGGGATTACAGGCGTGCACCACCACGCCTGGCTAATTTTTGTATTTTTAGTGGAGACGGGGTTTCACCATGTTGTGTTGGCCAGGCTGGTCTCAAACTCCTGACCTCAGGTGATCCACCTGCCTTGGCCTCCCAGAGTGGTAGGATTACAGGCATGAGCCACTGCACCTGGCTGCTCAACTCACTTCTGCTTATATTCTAGAAATTAGAAGACTGATTGAAAAGATGTGTGTTCCCCTTGAAAGCAGTTGCTAGGCCATTGTGAGGAAGGAGATGGCTCTCCAAGTTTATGCGCTATAACAGTTTTTCTGCTGAGCCAGCTTGTTTTTTAAAACAGATCTTTTTCAGAAGTAAAAGGGGGCTGTTTGCTTCAGTTATAAAGCAACATCCACACTCATATCTTTTAAATCCTGGCTCATTTCAGCCTGACTTGTGGCATATTCTGCCTCAGAACTCACCAGCTCTGATGCTTGTGGTCAGTATTGGCTCACTGTACTGACAGGTGTTGTGCCCCCACACTTTCAGTACAGTGTCAGGGCTTTGCATCAAAGTGACTTCCAGCAGAGAAAAATACCAGTGTTAGGTACTAGAATGAAGAGAATTTGTGAGAGGGGATCAGGGAATTGGTCTATGTTGGTATAAAAGTTGTATCTCAATCAGTATCAGGAAATGATGATGTATCTTAGTAGAGGTGGGTAGGCAAATTTCATGCGATAACTGAAAGATATAGATGCCAGCCTGTTAGTTTACTGGTACTTTTCTATGTTAACGCTAATTTTAGCATTTTCCCTGCAGTCGAACATAAAGAATTTACCAATTTAACCTTTTGTATTTTCCTGTTCTCTCACCCACTCACACTTAATTTTTCTTTTCCTCTTAG
Seq C2 exon
TGGCTACATCTGCTAGCAAAATTATTCCTCAAGGGGCCGATAGCACAATGCTTGCCACGAAAACCGTGAAACATGGTGCACCTAGTCCTTCCCACCCCATCTCAGCCCCGCAGGCAGCTGCCGCAGCAGCACTCAGGCGGCAGATGGCCAGTCAGGCACCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000126883-NUP214:NM_005085:22
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.738 A=NA C2=0.988
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCCTGTCTCGATCAGCCTTTC
R:
TAGGTGCACCATGTTTCACGG
Band lengths:
345-1486
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)