DreEX6020629 @ danRer10
Exon Skipping
Gene
ENSDARG00000062744 | scn1lab
Description
sodium channel, voltage-gated, type I like, alpha b [Source:ZFIN;Acc:ZDB-GENE-060906-1]
Coordinates
chr6:10016402-10018802:-
Coord C1 exon
chr6:10018521-10018802
Coord A exon
chr6:10018388-10018441
Coord C2 exon
chr6:10016402-10016539
Length
54 bp
Sequences
Splice sites
3' ss Seq
CTTATCTTACTTTTCCCAAGGCC
3' ss Score
7.34
5' ss Seq
GATGTAAGT
5' ss Score
9.11
Exon sequences
Seq C1 exon
GTGGTAGTGAACGCTCTTCTTGGAGCCATACCTTCCATCATGAATGTGTTGCTGGTGTGCTTGATCTTCTGGCTGATCTTCAGCATCATGGGGGTGAACCTCTTTGCCGGGAAATATTACTATTGCGTTAATATCACCAACGACGAGCTGTTTCCCGTCAGTGTGGTCAACAATAAGTCTGATTGCTATGCTCTGATTCAAAACAATGATACAGCGCGCTGGAAAAACGTGAAGATTAATTTCGATAATGTGGGAGCCGGATACCTGGCACTTCTGCAAGTG
Seq A exon
GCCACATTTAAAGGATGGATGGACATCATGTACGCAGCTGTAGATTCTCGTGAT
Seq C2 exon
TTGGAGCAACAGCCTGTCTATGAAACAAACCTTTACATGTACCTGTACTTCGTCATATTCATCATCTTCGGCTCCTTCTTTACCCTCAACCTCTTCATTGGTGTCATCATCGATAACTTCAATCAGCAGAAGAAAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000062744-'30-31,'30-30,31-31=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=FE(40.6=100)
A:
PF0052026=Ion_trans=FE(7.4=100)
C2:
PF0052026=Ion_trans=PD(15.3=76.1)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Primers PCR
Suggestions for RT-PCR validation
F:
TTCGATAATGTGGGAGCCGGA
R:
GTTGAGGGTAAAGAAGGAGCCG
Band lengths:
132-186
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]