DreEX6020611 @ danRer10
Exon Skipping
Gene
ENSDARG00000062744 | scn1lab
Description
sodium channel, voltage-gated, type I like, alpha b [Source:ZFIN;Acc:ZDB-GENE-060906-1]
Coordinates
chr6:10065479-10070432:-
Coord C1 exon
chr6:10070110-10070432
Coord A exon
chr6:10066150-10066268
Coord C2 exon
chr6:10065479-10065568
Length
119 bp
Sequences
Splice sites
3' ss Seq
TTTGCTTTTCTCTACCGCAGACC
3' ss Score
11.71
5' ss Seq
TTCATATCC
5' ss Score
-14.87
Exon sequences
Seq C1 exon
CTCCCAGAGTGACCGGAGATTAGCTGGTGCAGCTACCAGAGCAGGATGTCAATATGGCTGCTCAGCTGCTCGTTCCACCCGGACCTGACAGCTTCCGGCCCTTCCTGCCCGAGTCTCTCGCCGCTATCGAGCAACGCATCGCAGAGGAGGTGGCCCAGAGGCCCAAAGGCGAGAGACGGCCTGATGACGACGACGAAAATGGGCCCAAACCCAACAGAGATTTGGAGGCGGGAAAACCCCTGCCGTTCATCTACGGAGATGTTCCGCCACACATGCTGTCCGTCCCGCTGGAGGACCTGGACACCTACTACAGCAACCAAAAA
Seq A exon
ACCTTTATAGTTTTGAATCGTGGGAAGGCTATATTCCGCTTTAACGCTACGCCGGCCTTGTATATTTTGAGTCCCTTCAATCCATTAAGGAGAATCTCCATCAGGGTCCTGGTGCATTC
Seq C2 exon
TCTGTTCAGTTTTGTGATCATGTGCACAATCTTGACCAACTGCGCCTTCATGACGCTCAGCAATCCCCCAGAATGGGCCAAGAACGTGGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000062744-'3-5,'3-2,6-5=AN
Average complexity
A_S
Mappability confidence:
100%=100=100%
Protein Impact
ORF disruption upon sequence exclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.344 A=0.000 C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NO
C2:
PF0052026=Ion_trans=PU(0.8=6.5)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTATCGAGCAACGCATCGCAG
R:
AAGGCGCAGTTGGTCAAGATT
Band lengths:
248-367
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]