HsaINT0116930 @ hg19
Intron Retention
Gene
ENSG00000095319 | NUP188
Description
nucleoporin 188kDa [Source:HGNC Symbol;Acc:17859]
Coordinates
chr9:131756652-131757202:+
Coord C1 exon
chr9:131756652-131756721
Coord A exon
chr9:131756722-131757134
Coord C2 exon
chr9:131757135-131757202
Length
413 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAGC
5' ss Score
9.85
3' ss Seq
CTGTTCTGCTATCTCCACAGCCC
3' ss Score
11.27
Exon sequences
Seq C1 exon
ACCCAAGTTTTGGGAAAATTTAACCAGTCCGCTGTTTGGAACCCTTTCTCCTCCCTCTGAAACATCAGAG
Seq A exon
GTAAGCTGTGGCAGAGGGCAGGATGGTGGCTACAAGTCCCTTGGAGGAAAGGCTGTGGGCTGTGAGATGGGGCCGTAGACAATGATACCTCCCCTAATTAAACAACAGAATGTTCCCTTCACTAGAAACGTCTTTCTCAGGGAAGTGCCAGCTTTCTGTCCCTTTGATGTCTTGCTTTGGGAAGGAAAGTGGTTTGCGCTACTGTGTGTTGGTGGCTCTGTGGTCTTCTCCATTCAGTTGGAGACGTTGTGGACCTGACGCCTCTGCTCTTGCAAGTCAGGACATTCACATTCAACAGGGGTTGTGCTAACTTGTTCTGCAAGTGTTGGGCCCCTGCTCTGTTCCCTGTTTGATATACTGGGGGAGATCAGTGATCAGAGATGTGATAATTGCCTGTTCTGCTATCTCCACAG
Seq C2 exon
CCCAGCATCCTGGAAACCTGTGCCCTAATCATGAAGATAATTTGCTTGGAGATATACTATGTAGTAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000095319-NUP188:NM_015354:28
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.010 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF118943=DUF3414=FE(4.7=100)
A:
NA
C2:
PF118943=DUF3414=FE(4.5=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
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)