HsaINT0116947 @ hg38
Intron Retention
Gene
ENSG00000095319 | NUP188
Description
nucleoporin 188 [Source:HGNC Symbol;Acc:HGNC:17859]
Coordinates
chr9:129006239-129007096:+
Coord C1 exon
chr9:129006239-129006368
Coord A exon
chr9:129006369-129006501
Coord C2 exon
chr9:129006502-129007096
Length
133 bp
Sequences
Splice sites
5' ss Seq
TTGGTACGG
5' ss Score
6.56
3' ss Seq
AGCCACTTTTTTTCTTGTAGAGC
3' ss Score
7.23
Exon sequences
Seq C1 exon
GTCCCTCCTGATGTTTACCATGGAAAACTGCTTCTACCTGCTCATCTCTCAGGCGATGCGGTACCTTAGGGACCCGGCTGTGCACCCCCGGGACAAACAGCGGATGAAGCAGGAGCTCAGCTCTGAGTTG
Seq A exon
GTACGGATGGATAGGGATACGGAGGGCTGGACCAATAGGGCCAGAGCCCTGTGGGGTCCTGCCTGGCAACCCCCAAGGGTCAGAACAGTAGCCAGATGTGCTGAGCCTCACCAAGCCACTTTTTTTCTTGTAG
Seq C2 exon
AGCACGCTGCTGTCCAGCCTCTCGCGCTACTTCCGCCGGGGAGCCCCCAGCTCCCCTGCCACTGGTGTCCTCCCCTCGCCGCAGGGCAAGTCCACCTCTCTCTCCAAAGCCAGCCCTGAGAGTCAGGAGCCTCTGATCCAGTTGGTGCAGGCGTTTGTCCGGCATATGCAAAGATAGGGCAGTGCTGTTCTGCCCACCTACCCCTCTCCACCAGCCTACACTGCACCCTGGCTGGCAGGGGTGCTGCTGGCTGCTAGGGCCTATACAATGGAGGGCACCTCCTGTCACCCCCCTCCCGGAGTAGCCACGACTCCAGCCACCACCCACTGACGTTATTTTTATACTAGATGAAGAGGTCAACAGCAGGCATGGGGAGCCGAGTCTTCTGTGCTCAGGTCCTCACGCTGCAGACGCCCCCTAGAGGAACTTTCCTTCCTTTCCAGCATTCCCCACAGCACTGCCGGCCAGGGGAGAGGCGGCAGCCCAGCAGAGGGCTCTATGCACGGGTTTCAAACCTGTTTTCCACACTCTGTCTTTGCAGTTTTGGTAATTCTGTGGTCTATTTATACAGATATTAAAATCTTGTTTATAGACA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000095319:ENST00000372577:43
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.295 A=NA C2=0.414
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:
TACCTGCTCATCTCTCAGGCG
R:
CTGCACCAACTGGATCAGAGG
Band lengths:
246-379
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