RnoALTA0008960-2/2 @ rn6
Alternative 3'ss
Gene
ENSRNOG00000003777 | Chrne
Description
cholinergic receptor nicotinic epsilon subunit [Source:RGD Symbol;Acc:2353]
Coordinates
chr10:57239285-57239661:-
Coord C1 exon
chr10:57239475-57239661
Coord A exon
chr10:57239392-57239394
Coord C2 exon
chr10:57239285-57239391
Length
3 bp
Sequences
Splice sites
5' ss Seq
CCGGTGAGC
5' ss Score
8.69
3' ss Seq
AGCGCTTGGTGTCGCCTTAGCAG
3' ss Score
2.16
Exon sequences
Seq C1 exon
ATTTTATTAGAGCTACTGCCGCGCCTCCTCGGCTTGAGCCCACCCCCAGAGGATCCCGGAGCTGCCTCACCAGCGAGGCGTGCCTCATCTGTGGGCATTCTGCTTAGAGCGGAGGAGCTCATCTTGAAAAAGCCGCGGAGCGAACTCGTGTTTGAGGGACAGAGGCATCGGCATGGAACTTGGACCG
Seq A exon
CAG
Seq C2 exon
CCGCCCTCTGCCAGAACCTGAGTGCTGCAGCCCCTGAAGTCCGCTGCTGTGTGGATGCTGTGAACTTTGTGGCTGAGAGCACAAGGGACCAGGAAGCCACTGGAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000003777-12-14,12-13-2/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.095 A=NA C2=0.054
Domain overlap (PFAM):
C1:
PF0293211=Neur_chan_memb=FE(27.1=100)
A:
NA
C2:
PF0293211=Neur_chan_memb=FE(15.7=100)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTTTGAGGGACAGAGGCATCG
R:
TTCACAGCATCCACACAGCAG
Band lengths:
102-105
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]