DreEX0064526 @ danRer10
Exon Skipping
Gene
ENSDARG00000062744 | scn1lab
Description
sodium channel, voltage-gated, type I like, alpha b [Source:ZFIN;Acc:ZDB-GENE-060906-1]
Coordinates
chr6:10029098-10034915:-
Coord C1 exon
chr6:10034424-10034915
Coord A exon
chr6:10031777-10031818
Coord C2 exon
chr6:10029098-10029230
Length
42 bp
Sequences
Splice sites
3' ss Seq
TGTGTGACCTGTTATTGCAGCGT
3' ss Score
7.28
5' ss Seq
CCTGTAAGA
5' ss Score
4.07
Exon sequences
Seq C1 exon
GTGTTGAACTTGTTCCTGGCCTTGCTGCTGAGCTCTTTCAGTGCCGATAATCTGGCCGCCACCGATGACGACAGCGAAATGAACAACCTGCAGATCGCCGTGGGCAGAATACAGAAAGGTATCGCTCTGGTCAAGTCCACTCTCCGTCAGTTCCTGCAAAGCCTCTTCTTGGCCGGCTCTAAACCACGCTCCCTAGATGAGGAGAAGCCCCTTGACGACCTCCACAGTGACGGCAAAGAGAACTGCCTGTCCAATCACGCTCCGGTAGCCGTCGATCTCACTAAGGACTATCTGAAGGAGGGCTGTGTCTCTCCTGGTAATGGGGTGGAGAGTCATGTAAAGTATGGAATTGAGGAAGGCGACTACATGTCGTTCATCCACAATCCCAGCCTCACGGTTACAGTACCGATAGCGGTGGGAGAGTCGGACTTTGAAAACCTGAACACGGAAGATTTCAGTAGCGAATCATCTGACGTGGAGGGAAGTAAAGAG
Seq A exon
CGTTATGACAGACGAACCCCAGGTTTTCTCTGAAAGAGCCCT
Seq C2 exon
AAGCTACCTGTCGATACGGTTCTCAGTTCCTCGGAGGGGAGCACAGTGGATATTCGCCCCCCTGGAGAGGGGGCAGAGTCTGTCGAATTGGAGCCGGAGGAGTCCCTGGACCCAGAGGCCTGCTTCACAGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000062744_CASSETTE3
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.162 A=0.700 C2=0.422
Domain overlap (PFAM):
C1:
PF0052026=Ion_trans=PD(4.2=4.9),PF065128=Na_trans_assoc=PU(60.9=85.4)
A:
PF065128=Na_trans_assoc=PD(3.4=45.5)
C2:
PF065128=Na_trans_assoc=FE(19.1=100)
Main Inclusion Isoform:
ENSDART00000151247fB5415
Other Inclusion Isoforms:
NA
Associated events
Conservation
Human
(hg19)
No conservation detected
Mouse
(mm10)
No conservation detected
Mouse
(mm9)
No conservation detected
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGTGGGAGAGTCGGACTTTGA
R:
ATATCCACTGTGCTCCCCTCC
Band lengths:
132-174
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]