HsaINT0035185 @ hg38
Intron Retention
Gene
ENSG00000080644 | CHRNA3
Description
cholinergic receptor nicotinic alpha 3 subunit [Source:HGNC Symbol;Acc:HGNC:1957]
Coordinates
chr15:78617024-78618661:-
Coord C1 exon
chr15:78618617-78618661
Coord A exon
chr15:78617134-78618616
Coord C2 exon
chr15:78617024-78617133
Length
1483 bp
Sequences
Splice sites
5' ss Seq
CAAGTAAGT
5' ss Score
10.08
3' ss Seq
TCCCTGCTTCCTTCCCCGAGATC
3' ss Score
1.69
Exon sequences
Seq C1 exon
GATGAAGTAAACCAGATCATGGAGACCAACCTGTGGCTCAAGCAA
Seq A exon
GTAAGTGACCAGACCCTAGGCACTGCTGCCCCCTGGTGGTGACTGTTTTATTTGCTTTAGGTGAACCAAGAAAGGCCTAAAGACCAGGCTTCATTTACTTCTGTGGAACCCAGATTGGGGTCCACTGACTGGCAGATATATCTCTTCTAAGGCTTGAGGTCACATGCACTGCCCTACAGTCCCCCTGGAAGGACTGTAGGGCCCAACCCCTCAAGTCCCAGATGGACAGGTTGCAGCCTGGAGAAAGACATTCTCCATGTTCACACAACAGAAGAGTACGAACCTGAGATTGAAGCCCTGCCCCCAAACCCTGGGGTGGTGCCTGAGACACCTCCTTCTCTCCCTCTTGCTAAAAACTCAGTTTTTTTTCCAGACGGGATCTCGCTCTGTCACCCAGGCCGGAGTGCTGTGGCGTGATCTCGGCTCACTGCAATCTCCACCAGCAGGGTTCAAGCAGTTCTCCTGCCTCAGCCTCCCAAGTAGCTGGGACCACAGCTGTGCACCACCACGTCTGGCTAATTTTTGGATTTGTTATAGAGACAGGGTTTCGCCATGTTGCCCAGGCTGGTCTCGAACGCCTGATCTCAAGCAAACCACACACCTCAGCCTCCCAAAGTGCTGGGGTTACAGGCAGAAGCCACTGTGCACAGCCCCTATACTCATTCTTAAGTCAGAATAAGATGCTGCTGTTGTTGGTAGCGTGGGAGTAGATTTTCCTGTTCAGATCGAGGCCAAGAAATTGCCTTCCACATGTCCTCCCCAGGGAGGCTTTGTCCAGACTTGCCAGGAGACATAATGGCCCATTGGCCTGCGGGTGACCCTTCTGCCAGCCTGGCCAGCTGAGCACTCAGCACACACAGCCTTCATCCCCAGGAGGTTGGAAAGCCAGATGGGCACAGTGCCCCACCCAGTACTTGATGCACACGTTCCCTCTGTGGCCGCAGCCTCACCCCTCTCTCCTCTGGTGCTCAGGACTCAGACCTCCCAGCCTCTGGACCCAGACACTTCCTGGGCCCTGCAGGGGTCATGGATTCTTCCCCCGGAATCTTTCAGAGTCCAGTCTTGCTTAACCTTGGGGTGAAAGAGTGTCTATGTTGGAAAACACCCCTGGAGAGCCATTCAGGGGCTGTAAACAGGCACATGGACCTGGACATGATGCATGAAGTCCAGGAGTCTCCACCTGGCACTAGAAGTGACCAGAGAAAGCACGAGTAGGCCCTGTTTGGTTGATGAGGGGCTGGGCTTGCTCATGGTTATGGGGGCAGTGGCTTCCCTAGTGCCAGGAGGTGGCCCGCAGAGCCAGCCGTGTGCTCTCTCCTGCACTACACCCACAGGAGAAGTTGGACTATGTGATCATGGCATGGATGTGGTTCGGTCACATGCAGCAGGGGTGGGGAGTCACCAAGATGGGTGGTGCCACGGGAAGTAAAACCAGGCTGATTCTTTTACCGTCTCCTTCTCCCTCCCTGCTTCCTTCCCCGAG
Seq C2 exon
ATCTGGAATGACTACAAGCTGAAATGGAACCCCTCTGACTATGGTGGGGCAGAGTTCATGCGTGTCCCTGCACAGAAGATCTGGAAGCCAGACATTGTGCTGTATAACAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000080644:ENST00000326828:3
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=0.000
Domain overlap (PFAM):
C1:
PF0293118=Neur_chan_LBD=FE(6.8=100)
A:
NA
C2:
PF0293118=Neur_chan_LBD=FE(17.4=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
- Genotype-Tissue Expression Project (GTEx)
- Autistic and control brains
- Pre-implantation embryo development