HsaINT0116942 @ hg38
Intron Retention
Gene
ENSG00000095319 | NUP188
Description
nucleoporin 188 [Source:HGNC Symbol;Acc:HGNC:17859]
Coordinates
chr9:129005147-129005530:+
Coord C1 exon
chr9:129005147-129005221
Coord A exon
chr9:129005222-129005302
Coord C2 exon
chr9:129005303-129005530
Length
81 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGC
5' ss Score
9.88
3' ss Seq
CATTTCTTGACTCTCCTTAGAAC
3' ss Score
7.98
Exon sequences
Seq C1 exon
GTCAACCTGGGTTACTTGTGCCAGGCATGTACCTCTCTCCTGCACAGTCGAAAGATGCTGCAGCATTACTTACAG
Seq A exon
GTAAGCGTCCTATGCCATGAGGTCCTGGAATACCTCACGCTAGCTTCCCAAGCTCCACCTTCATTTCTTGACTCTCCTTAG
Seq C2 exon
AACAAAAATGGGGATGGCCTCCCCTCAGCTGTTGCCCAGCGAGTCCAGAGGCCACCGTCTGCTGCTTCTGCTGCCCCCTCCTCCTCAAAGCAGCCCGCTGCTGACACAGAGGCATCAGAGCAGCAGGCCTTGCACACAGTCCAGTATGGCCTTCTCAAGATCCTCAGCAAGACGCTGGCAGCCCTGCGCCACTTCACCCCAGATGTCTGCCAGATTCTGCTGGATCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000095319:ENST00000372577:39
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=0.368
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTTGTGCCAGGCATGTACCTC
R:
CTGATGCCTCTGTGTCAGCAG
Band lengths:
179-260
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Genotype-Tissue Expression Project (GTEx)
- Autistic and control brains
- Pre-implantation embryo development