BtaEX6009362 @ bosTau6
Exon Skipping
Gene
ENSBTAG00000018520 | SCN1A
Description
sodium channel, voltage gated, type I alpha subunit [Source:HGNC Symbol;Acc:HGNC:10585]
Coordinates
chr2:30392292-30403969:+
Coord C1 exon
chr2:30392292-30392465
Coord A exon
chr2:30396513-30396635
Coord C2 exon
chr2:30403688-30403969
Length
123 bp
Sequences
Splice sites
3' ss Seq
TTATTTTTGTATGCTTTCAGGTT
3' ss Score
10.54
5' ss Seq
AGGGTAAGA
5' ss Score
9.21
Exon sequences
Seq C1 exon
GCATTTGAGGATATATATATTGACCAGCGAAAGACAATCAAAACAATGTTGGAATATGCTGACAAGGTTTTCACTTACATTTTCATTCTGGAAATGCTTCTAAAATGGGTGGCATATGGCTATCAAACATATTTCACCAATGCCTGGTGTTGGCTAGACTTCTTAATTGTTGAT
Seq A exon
GTTTCATTGGTCAGTTTAACAGCAAATGCCTTGGGTTACTCAGAACTTGGTGCCATCAAATCTCTCAGGACACTAAGAGCTCTGAGACCTCTAAGAGCCTTATCACGATTTGAAGGGATGAGG
Seq C2 exon
GTGGTTGTGAATGCCCTTTTAGGAGCAATTCCATCCATCATGAATGTACTTCTGGTTTGTCTTATATTCTGGCTAATTTTCAGCATCATGGGCGTAAATTTGTTTGCTGGCAAATTCTACCACTGTGTTAACACCACAACTGGTGACATGTTTGACATCAGCGAAGTGAATAATCATTCAGATTGCCTAATACTAATAGAAAGAAATGAGACTGCCCGATGGAAAAATGTGAAAGTAAACTTTGATAATGTAGGATTTGGGTATCTCTCTTTGCTTCAAGTT
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000018520-'22-22,'22-20,23-22=AN
Average complexity
A_C2
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=PU(17.0=67.2)
A:
PF0052026=Ion_trans=FE(17.5=100)
C2:
PF0052026=Ion_trans=FE(40.6=100)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Primers PCR
Suggestions for RT-PCR validation
F:
GCCTGGTGTTGGCTAGACTTC
R:
TCCATCGGGCAGTCTCATTTC
Band lengths:
256-379
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]