HsaALTD1018349-2/2 @ hg38
Alternative 5'ss
Gene
ENSG00000129749 | CHRNA10
Description
cholinergic receptor nicotinic alpha 10 subunit [Source:HGNC Symbol;Acc:HGNC:13800]
Coordinates
chr11:3665587-3667764:-
Coord C1 exon
chr11:3667232-3667764
Coord A exon
chr11:3666929-3667231
Coord C2 exon
chr11:3665587-3666564
Length
303 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGC
5' ss Score
9.88
3' ss Seq
GCTTTCTCTCTCTCTTGCAGGGA
3' ss Score
13.54
Exon sequences
Seq C1 exon
CAACGTGGTCCTGCGCCACGATGGCGCCGTGCGCTGGGACGCGCCGGCCATCACGCGCAGCTCGTGCCGCGTGGATGTAGCAGCCTTCCCGTTCGACGCCCAGCACTGCGGCCTGACGTTCGGCTCCTGGACTCACGGCGGGCACCAACTGGATGTGCGGCCGCGCGGCGCTGCAGCCAGCCTGGCGGACTTCGTGGAGAACGTGGAGTGGCGCGTGCTGGGCATGCCGGCGCGGCGGCGCGTGCTCACCTACGGCTGCTGCTCCGAGCCCTACCCCGACGTCACCTTCACGCTGCTGCTGCGCCGCCGCGCCGCCGCCTACGTGTGCAACCTGCTGCTGCCCTGCGTGCTCATCTCGCTGCTTGCGCCGCTCGCCTTCCACCTGCCTGCCGACTCAGGCGAGAAGGTGTCGCTGGGCGTCACCGTGCTGCTGGCGCTCACCGTCTTCCAGTTGCTGCTGGCCGAGAGCATGCCACCGGCCGAGAGCGTGCCGCTCATCG
Seq A exon
GTGAGCAGCGGGGGCGCGGGGGGACCTGACGATGCGCTGGGGTCCCCCCAGGGCGGGGCCGCGACAGGGCCTGGGTCTGCGGAACGGCCCCACTGCAGAAAGTGAGAGGGGGGCGTCCTGGGAACGTGCCCTCATTTTAAGACTGAGGGGAAAGGATTAGCTCCTTCCAGGGAGAACACCCCTCACGACTTGGCCCTTGATGATGGAACATCAGTATCCCCAGATCCTAATGATAGGCAAAATCTGTCGACTGCTTGCTGTGTGCCAGGCACTCCCCTAAGCACTTGACCTTTATTAACTCAG
Seq C2 exon
GGAAGTACTACATGGCCACTATGACCATGGTCACATTCTCAACAGCACTCACCATCCTTATCATGAACCTGCATTACTGTGGTCCCAGTGTCCGCCCAGTGCCAGCCTGGGCTAGGGCCCTCCTGCTGGGACACCTGGCACGGGGCCTGTGCGTGCGGGAAAGAGGGGAGCCCTGTGGGCAGTCCAGGCCACCTGAGTTATCTCCTAGCCCCCAGTCGCCTGAAGGAGGGGCTGGCCCCCCAGCGGGCCCTTGCCACGAGCCACGATGTCTGTGCCGCCAGGAAGCCCTACTGCACCACGTAGCCACCATTGCCAATACCTTCCGCAGCCACCGAGCTGCCCAGCGCTGCCATGAGGACTGGAAGCGCCTGGCCCGTGTGATGGACCGCTTCTTCCTGGCCATCTTCTTCTCCATGGCCCTGGTCATGAGCCTCCTGGTGCTGGTGCAGGCCCTGTGAGGGCTGGGACTAAGTCACAGGGATCTGCTGCAGCCACAGCTC
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000129749-6-6,7-6-2/2
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (No Ref, Alt. Stop)
No structure available
Features
Disorder rate (Iupred):
C1=0.007 A=NA C2=0.136
Domain overlap (PFAM):
C1:
PF0293118=Neur_chan_LBD=PD(55.6=64.2),PF0293211=Neur_chan_memb=PU(36.8=31.3)
A:
NA
C2:
PF0293211=Neur_chan_memb=PD(62.5=62.1),PF0293211=Neur_chan_memb=WD(100=47.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Cow
(bosTau6)
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:
CTCACCGTCTTCCAGTTGCTG
R:
TTCCTGGCGGCACAGACATC
Band lengths:
348-651
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains