DreEX0021699 @ danRer10
Exon Skipping
Gene
ENSDARG00000003420 | chrna5
Description
cholinergic receptor, nicotinic, alpha 5 [Source:ZFIN;Acc:ZDB-GENE-050417-440]
Coordinates
chr18:40499317-40502908:-
Coord C1 exon
chr18:40502731-40502908
Coord A exon
chr18:40501926-40502258
Coord C2 exon
chr18:40499317-40499667
Length
333 bp
Sequences
Splice sites
3' ss Seq
ACAATCCTCTTCTTTTAAAGGTC
3' ss Score
10.18
5' ss Seq
AAGGTGACT
5' ss Score
6.64
Exon sequences
Seq C1 exon
TGCAGATGGTAATTTCGAGGCCACAGTGACAAAAGCAGTGGTGAGATTTGATGGCACAATCTCCTGGACTCCTCCTGCCAACTATAAATCTGCCTGCACCATTGATGTGACCTTCTTCCCCTTTGACCTTCAAAACTGCTCCATGAAGTTCGGTTCTTGGACCTATGATGGCTCCCAG
Seq A exon
GTCGACATTCTCCTTGAAGACGTGCATGTGGACAAACGTGACTATTTTGACAATGGCGAATGGGAGATCGTGAAGGCCACTGGTAACCGGGGTTTGAGAAGAGATGGGACTTTTTTCTATCCATCCATCACGTACTCCTTTATAATCCGACGTCTTCCTCTCTTCTACACACTCTTCCTCATCATCCCCTGCATTGGATTGTCTTTCCTGACTGTGCTTGTCTTTTATCTTCCGTCTAATGGAGGGGAAAAAATCTCCCTCTGCACGTCTGTCCTCGTCTCACTTACTGTCTTCCTTCTGGTGATAGAAGAGATCATCCCTTCCTCCTCAAAG
Seq C2 exon
GTAATTCCTCTGATTGGAGAATATTTGGTCTTCACTATGATCTTCGTGACACTTTCCATTGTCATCACCGTCTTTGCTATTAACATCCACCATCGCTCCTCTTCCACCCATCATAGCATGGCTCCCTGGGTCCGCCGTATCTTTCTTCACCACTTGCCTAGACTGCTCTGCATGCGTAGCCACGTGGACCGTTACGCCACCAGCGCTGGGACTCGAACAGGAGGACTGGGCTATGGGAAGAGTTTGAGTCAGGATACCAACCAGCTCGATGCAGAACACAACCTGCAGGCGGCCTTAGAGTCTATACGCTACATCACACGCCATGTGGTGAAGGAGAATGAAGTCAGAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000003420_CASSETTE1
Average complexity
S*
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=0.000 C2=0.000
Domain overlap (PFAM):
C1:
PF0293118=Neur_chan_LBD=FE(28.9=100)
A:
PF0293118=Neur_chan_LBD=PD(25.5=46.8),PF0293211=Neur_chan_memb=PU(40.8=45.9)
C2:
PF0293211=Neur_chan_memb=PD(57.6=61.5),PF0293211=Neur_chan_memb=PU(60.7=43.6)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Rat
(rn6)
No conservation detected
Chicken
(galGal3)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGGACTCCTCCTGCCAACTA
R:
ACTCTTCCCATAGCCCAGTCC
Band lengths:
358-691
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]