RnoALTD0006728-2/2 @ rn6
Alternative 5'ss
Gene
ENSRNOG00000019527 | Chrnd
Description
cholinergic receptor nicotinic delta subunit [Source:RGD Symbol;Acc:2352]
Coordinates
chr9:94288062-94288483:+
Coord C1 exon
chr9:94288062-94288139
Coord A exon
chr9:94288140-94288171
Coord C2 exon
chr9:94288328-94288483
Length
32 bp
Sequences
Splice sites
5' ss Seq
CAAGTTGAG
5' ss Score
-10.48
3' ss Seq
TTATGGTCTCCATCCCACAGCAA
3' ss Score
8.25
Exon sequences
Seq C1 exon
GCATGGATAGACAGCCGGCTACAATGGAATGCCAACGAGTTTGGGAACATCACCGTCCTGCGCCTGCCCTCTGACATG
Seq A exon
GTGTGGCTACCAGAAATTGTACTGGAGAACAA
Seq C2 exon
CAATGACGGCTCATTCCAGATTTCTTACGCCTGCAATGTGCTTGTTTCTGACTCGGGCCATGTGACCTGGCTGCCACCCGCCATCTTCCGCTCCTCCTGCCCCATCTCGGTCACCTACTTCCCTTTTGATTGGCAGAACTGCTCCCTCAAATTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000019527-3-5,4-5-2/2
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:
PF0293118=Neur_chan_LBD=FE(16.2=100)
A:
NA
C2:
PF0293118=Neur_chan_LBD=FE(23.4=100)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Mouse
(mm10)
No conservation detected
Mouse
(mm9)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACAGCCGGCTACAATGGAATG
R:
CCCGAGTCAGAAACAAGCACA
Band lengths:
125-157
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]