HsaEX0015320 @ hg38
Exon Skipping
Gene
ENSG00000174343 | CHRNA9
Description
cholinergic receptor nicotinic alpha 9 subunit [Source:HGNC Symbol;Acc:HGNC:14079]
Coordinates
chr4:40337210-40349414:+
Coord C1 exon
chr4:40337210-40337364
Coord A exon
chr4:40338052-40338241
Coord C2 exon
chr4:40348882-40349414
Length
190 bp
Sequences
Splice sites
3' ss Seq
TCAATATGTGAATTTTTCAGGGA
3' ss Score
7.76
5' ss Seq
CGGGTAGGT
5' ss Score
8.53
Exon sequences
Seq C1 exon
GATGAAAGAAACCAAATTCTGACTGCTTATTTGTGGATCCGCCAAATCTGGCACGATGCCTATCTCACGTGGGACCGAGATCAGTACGATGGCCTAGACTCCATCAGGATCCCCAGTGACCTCGTGTGGAGGCCAGACATCGTCTTATATAACAA
Seq A exon
GGACACAATTCAACTCTTAACAGTGACACTCACCATCCAAGATCATGTATCAATAATTAATTAAACCGGAATGGGCCATCTAGAAACTGACCTGTGGATTTGGGGCTTTGTGTGGAGTGGAGGATGAACCAGTTTACGGGATACAAAGTGACGTTTTCCCGGTCTCAGAGCAAGGGGCATTGTATAACGG
Seq C2 exon
GGCTGATGATGAATCTTCAGAGCCTGTGAACACCAATGTGGTCCTGCGGTATGATGGGCTGATCACCTGGGATGCACCGGCCATCACCAAAAGCTCCTGTGTGGTGGATGTCACCTACTTCCCTTTTGACAACCAGCAGTGCAACCTGACTTTTGGTTCCTGGACCTACAATGGCAATCAGGTGGACATATTCAACGCCTTGGACAGCGGAGATCTCTCTGACTTCATTGAAGATGTGGAATGGGAGGTCCATGGCATGCCCGCTGTGAAGAATGTGATCTCCTATGGCTGCTGCTCTGAGCCTTACCCGGATGTCACATTCACCCTCCTTCTGAAGAGGAGGTCCTCGTTCTATATCGTCAACCTCCTCATCCCATGCGTCCTCATATCTTTTCTGGCTCCTCTGAGTTTTTATCTCCCAGCAGCCTCCGGAGAAAAGGTCTCCCTGGGAGTGACCATCCTGTTGGCCATGACTGTATTTCAGCTAATGGTGGCAGAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000174343_CASSETTE1
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=0.000 C2=0.000
Domain overlap (PFAM):
C1:
PF0293118=Neur_chan_LBD=FE(24.6=100)
A:
NA
C2:
PF0293118=Neur_chan_LBD=PD(55.6=64.2),PF0293211=Neur_chan_memb=PU(24.1=31.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Mouse
(mm9)
No conservation detected
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGGAGGCCAGACATCGTCTTA
R:
CAGAGAGATCTCCGCTGTCCA
Band lengths:
250-440
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- The Cancer Genome Atlas (TCGA)
- Autistic and control brains
- Pre-implantation embryo development