HsaALTD0001435-1/2 @ hg19
Alternative 5'ss
Gene
ENSG00000169684 | CHRNA5
Description
cholinergic receptor, nicotinic, alpha 5 (neuronal) [Source:HGNC Symbol;Acc:1959]
Coordinates
chr15:78882152-78887611:+
Coord C1 exon
chr15:78882152-78882191
Coord A exon
NA
Coord C2 exon
chr15:78885434-78887611
Length
0 bp
Sequences
Splice sites
5' ss Seq
CAGGTACAA
5' ss Score
7.09
3' ss Seq
TTTTATTTTTTTCCTAACAGGTT
3' ss Score
12.17
Exon sequences
Seq C1 exon
ATGGACGTTTTGAAGGGACCAGTACGAAAACAGTCATCAG
Seq A exon
NA
Seq C2 exon
GTTGTTGAAGATTGGAAATTCATAGCCCAGGTTCTTGATCGGATGTTTCTGTGGACTTTTCTTTTCGTTTCAATTGTTGGATCTCTTGGGCTTTTTGTTCCTGTTATTTATAAATGGGCAAATATATTAATACCAGTTCATATTGGAAATGCAAATAAGTGAAGCCTCCCAAGGGACTGAAGTATACATTTAGTTAACACACATATATCTGATGGCACCTATAAAATTATGAAAATGTAAGTTATGTGTTAAATTTAGTGCAAGCTTTAACAGACTAAGTTGCTAACCTCAATTTATGTTAACAGATGATCCATTTGAACAGTTGGCTGTATGACTGAAGTAATAACTGATGAGATACATTTGATCTTGTAAAAATAGCAAAATATTATCTGAACTGGACTAGTGAAAAATCTAGTATTTGTATCCTGGCAAATAATACTAATTTATAATCCACAGTAAAGTTCATCCTTTGACTGTGCTGGAGAATTCCAGTTGTATTT
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000169684-6-8,7-8-1/2
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=NA A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0293118=Neur_chan_LBD=FE(13.3=100)
A:
NA
C2:
PF0293211=Neur_chan_memb=PD(39.2=57.4)
Other Inclusion Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGGACCAGTACGAAAACAGTCA
R:
ACTTAGTCTGTTAAAGCTTGCACT
Band lengths:
306-561
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)