DreEX6020631 @ danRer10
Exon Skipping
Gene
ENSDARG00000062744 | scn1lab
Description
sodium channel, voltage-gated, type I like, alpha b [Source:ZFIN;Acc:ZDB-GENE-060906-1]
Coordinates
chr6:10015516-10016539:-
Coord C1 exon
chr6:10016402-10016539
Coord A exon
chr6:10015907-10016011
Coord C2 exon
chr6:10015516-10015786
Length
105 bp
Sequences
Splice sites
3' ss Seq
CTTCTCCATTTGCTCTTTACCTT
3' ss Score
0.08
5' ss Seq
GCGGTACAA
5' ss Score
2.55
Exon sequences
Seq C1 exon
TTGGAGCAACAGCCTGTCTATGAAACAAACCTTTACATGTACCTGTACTTCGTCATATTCATCATCTTCGGCTCCTTCTTTACCCTCAACCTCTTCATTGGTGTCATCATCGATAACTTCAATCAGCAGAAGAAAAAG
Seq A exon
CTTGGAGGTCAGGATATCTTCATGACAGAAGAGCAAAAGAAATATTACAATGCTATGAAGAAGTTGGGATCTAAGAAACCTCAGAAGCCAATTCCCAGACCTGCG
Seq C2 exon
AATAAGTTTCAAGGCCTTGTCTTTGACCTAATCACCAAACAAGCCTTCGACATAATCATTATGATCCTGATCTGCTTGAACATGGTGACCATGATGGTGGAAACCGATGACCAGACAGAGGATATGGACAATATTCTGTACTGGATAAACCTGGTTTTCATCATCCTCTTCACTGGAGAATGTGTGCTAAAGATGATCTCCCTGCGCCACTACTTCTTCACCATCGGCTGGAATGTGTTTGACTTTGTTGTGGTGATTCTATCAATTGTTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000062744-'32-34,'32-32,34-34=AN
Average complexity
A_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:
PF0052026=Ion_trans=PD(15.3=76.1)
A:
NO
C2:
PF0052026=Ion_trans=PU(20.4=47.3)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Cow
(bosTau6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGGAGCAACAGCCTGTCTATG
R:
GTCTGGTCATCGGTTTCCACC
Band lengths:
253-358
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]