MmuALTD1022500-1/2 @ mm10
Alternative 5'ss
Gene
ENSMUSG00000035594 | Chrna5
Description
cholinergic receptor, nicotinic, alpha polypeptide 5 [Source:MGI Symbol;Acc:MGI:87889]
Coordinates
chr9:54981015-54998163:+
Coord C1 exon
chr9:54981015-54981115
Coord A exon
NA
Coord C2 exon
chr9:54998012-54998163
Length
0 bp
Sequences
Splice sites
5' ss Seq
CAGGTCTTC
5' ss Score
0.53
3' ss Seq
CCTAAAAACTTGTTATGCAGGGT
3' ss Score
3.53
Exon sequences
Seq C1 exon
GTCCTTCAGAGTCCTCCAGTTTATCCATCTCATTTACAAGGAAGAGAAAATAGACGCACAAAGGAAGAGTGATTTGAACAAGATGCAGATCTCGAATGCAG
Seq A exon
NA
Seq C2 exon
GGTTGCCTGAGCTATCCTCTGCTGCAAAACATGAAGACAGTTTGTTTAGGGATTTATTTGAAGACTATGAAAAGTGGGTTCGTCCTGTGGAACACCTGAGTGACAAGATAAAAATCAAGTTTGGCCTTGCAATATCTCAGTTAGTGGACGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000035594-0-2,1-2-1/2
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0293118=Neur_chan_LBD=PU(19.1=76.5)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
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:
GTCCTTCAGAGTCCTCCAGTT
R:
ACTGAGATATTGCAAGGCCAAACT
Band lengths:
242-374
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Ribosome-engaged transcriptomes of neuronal types
- Neural differentiation time course
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types