HsaINT0035258 @ hg38
Intron Retention
Gene
ENSG00000108556 | CHRNE
Description
cholinergic receptor nicotinic epsilon subunit [Source:HGNC Symbol;Acc:HGNC:1966]
Coordinates
chr17:4899198-4899582:-
Coord C1 exon
chr17:4899468-4899582
Coord A exon
chr17:4899385-4899467
Coord C2 exon
chr17:4899198-4899384
Length
83 bp
Sequences
Splice sites
5' ss Seq
CACGTAAGC
5' ss Score
6.58
3' ss Seq
AAGCCCCGCCCCTGCCCCAGGTT
3' ss Score
4.69
Exon sequences
Seq C1 exon
GTTCCTTATTTTCGTCATGGTGGTCGCCACGCTCATTGTCATGAATTGCGTCATCGTGCTCAACGTGTCCCAGCGGACGCCCACCACCCACGCCATGTCCCCGCGGCTGCGCCAC
Seq A exon
GTAAGCGCGGAGGGGGCGGTGCAGCCCGGGTCGGGGTGGGGCTTCGTACTAACCTCGTCCCCTAAGCCCCGCCCCTGCCCCAG
Seq C2 exon
GTTCTCCTGGAGCTGCTGCCGCGCCTCCTGGGCTCCCCGCCGCCGCCCGAGGCCCCCCGGGCCGCCTCGCCCCCAAGGCGGGCGTCGTCGGTGGGCTTATTGCTCCGCGCGGAGGAGCTGATACTGAAAAAGCCACGGAGCGAGCTCGTGTTTGAGGGGCAGAGGCACCGGCAGGGGACCTGGACGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000108556:ENST00000293780:9
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=0.175
Domain overlap (PFAM):
C1:
PF0293211=Neur_chan_memb=FE(16.7=100)
A:
NA
C2:
PF0293211=Neur_chan_memb=FE(27.2=100)
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:
TGAATTGCGTCATCGTGCTCA
R:
CAATAAGCCCACCGACGACG
Band lengths:
176-259
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