HsaINT0035194 @ hg38
Intron Retention
Gene
ENSG00000169684 | CHRNA5
Description
cholinergic receptor nicotinic alpha 5 subunit [Source:HGNC Symbol;Acc:HGNC:1959]
Coordinates
chr15:78586645-78588423:+
Coord C1 exon
chr15:78586645-78586689
Coord A exon
chr15:78586690-78588313
Coord C2 exon
chr15:78588314-78588423
Length
1624 bp
Sequences
Splice sites
5' ss Seq
CAGGTATGT
5' ss Score
9.8
3' ss Seq
CAGATTTCTTTGTTTTAAAGGAA
3' ss Score
6.91
Exon sequences
Seq C1 exon
GATGAGAAAAATCAGTTAATGACAACAAACGTCTGGTTGAAACAG
Seq A exon
GTATGTGTGTAAAATTCAAACGGGCACCCAATTAGTGACTGGGACACCTATTTTTATTATATGTATTGTAGCAGAAATACAAGAGTATGTATATTTGTGAATACAAATGAATACGTGACTATATGGCCTTGGTGGATTGGCAGGACACAGAAAGATGAGGGTAGATGGAGTTCTTGTATTTATTCAGCTAGTATTTTTGGAGTGCCTATTGTGTGCCAGACACTGTTATGGGGAAACAGCAGTGAACAAAACAGACAAAAAACCCTGTAGTATTAGTCCGTTCTCACACTGCTATAAGGACATACCCAAGGCTGGGTAATTTATAAAGGGAAGAGGTTTAATGGATTCACAGTTCAGCATGACTGGGGAGGCTTCACAATGATGGTGGAAAGTGAAGGAGAGGCAAAGGCATGTCTTACATGGCAGCAGGCAAGAGAGCATGTTCAGGGGAACTGCCCTTTATAAAACCATCAATTCAAGATGAGATTTGGGTGGGGACACAGCCAAACCACATCACCTGCCCTCATGGAACTTCATTCTAGTGGGGGAAAAATAAACAAGTTGTATAGTACCTTAGAAGCTGATAAGCTTGGGGAAAAACACACTGGAAAAGAAGATAGGGAGTATTGGGGTCGGGGGTGTACTTATAAAAATGGTGGTCAGAGAAAACAGCATTGAGAAGATAATGTCTGAACAAAGTCTTGGTGGAGAGGAAGCAAGCCATGTGTATATCTGGGGAGGAGCGTTCCAGGCAGCAGGACCTACAAGTGCAAAGGTTTCTGAGCTGGTGTGTGCCTAGTGTGTTTAAGCAGTTGCAAGGAGGCCAGTGTGGCTAGCAGTGAGAGAACCATTGGGGAGAGGGGGTGTAGGAGATGGCATCAGATAAGCAAGAAGAGGCTGGTGGAGTAGCAGCTGCTTATAGGCCACTGCAAGGATTCTGACTCTCTAAGGTGGAAATGGGCAAGAATGAAATGAATTTTTTTTTAATAGATAGTCCCTTTTATATAAAGGACTTTTGTTTTTTTCTGGGCCACCATACATATGTCCTAACTGCTGTTGAGCGCTTCCTTTTGTTTTTATCATCCCTAATTTTTATACCTACTATTTGTTTTCTAACCCCGAACTCCTGAAAGGCATATATGCTTTTCTCAGGGTGCAGCTCCTAACTTGATCACAGAATTGTAACTGCATGGAGGTAGGGTAAGGTGTTGAAATACGCAGAATGTGCAATAAATCCAACTCCCTTTTGCATGGACCAGAACAGCCAAATTGGGTGACAATACATCTGGAAAAAAGAATGTTTCCCTTGAACCTGGATATTAAGTGCCTGTGGCTTCAAGTCCTGGATATAGTCAGTCAGTTGATGGGAGAAGAGTTGCCGAGCAGAGCCATGAACACATCTAGCTCTGGTTCTCACCTGTGTCTCACAGGGACCATGGTGAGAACCACTACACAAGGGGACAGGGTTATCTGGTGCCCATAATAAGAAAGACAGGGAGGTGTTCTCTATTGGGGGTAGAGATGATCTCATGTCTAAAATTTCTGGTGTGACAAAAAAGTATGGTATTCACTGTTTTTGACTATTAGTTTTATTGAAATTGAGGCAGATTTCTTTGTTTTAAAG
Seq C2 exon
GAATGGATAGATGTAAAATTAAGATGGAACCCTGATGACTATGGTGGAATAAAAGTTATACGTGTTCCTTCAGACTCTGTCTGGACACCAGACATCGTTTTGTTTGATAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000169684:ENST00000299565:3
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(12.4=100)
A:
NA
C2:
PF0293118=Neur_chan_LBD=FE(17.6=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