BtaEX6009363 @ bosTau6
Exon Skipping
Gene
ENSBTAG00000018520 | SCN1A
Description
sodium channel, voltage gated, type I alpha subunit [Source:HGNC Symbol;Acc:HGNC:10585]
Coordinates
chr2:30390443-30396635:+
Coord C1 exon
chr2:30390443-30390597
Coord A exon
chr2:30392292-30392465
Coord C2 exon
chr2:30396513-30396635
Length
174 bp
Sequences
Splice sites
3' ss Seq
TGCGTAACTTTTCTTTATAGGCA
3' ss Score
8.56
5' ss Seq
GATGTAAGT
5' ss Score
9.11
Exon sequences
Seq C1 exon
GCTGTGTGCAAAGATTCAAATGTTGTCAAATCAGTGTGGAAGAAGGGAGAGGAAAACAGTGGTGGAATCTGAGAAGAACGTGTTTCCGAATAGTTGAACATAACTGGTTTGAGACCTTCATTGTTTTCATGATTCTCCTTAGTAGTGGTGCACTG
Seq A exon
GCATTTGAGGATATATATATTGACCAGCGAAAGACAATCAAAACAATGTTGGAATATGCTGACAAGGTTTTCACTTACATTTTCATTCTGGAAATGCTTCTAAAATGGGTGGCATATGGCTATCAAACATATTTCACCAATGCCTGGTGTTGGCTAGACTTCTTAATTGTTGAT
Seq C2 exon
GTTTCATTGGTCAGTTTAACAGCAAATGCCTTGGGTTACTCAGAACTTGGTGCCATCAAATCTCTCAGGACACTAAGAGCTCTGAGACCTCTAAGAGCCTTATCACGATTTGAAGGGATGAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000018520-'21-20,'21-19,22-20=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:
PF065128=Na_trans_assoc=PD(19.7=84.6)
A:
PF0052026=Ion_trans=PU(17.0=67.2)
C2:
PF0052026=Ion_trans=FE(17.5=100)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Primers PCR
Suggestions for RT-PCR validation
F:
CAGTGTGGAAGAAGGGAGAGGA
R:
TCCCTTCAAATCGTGATAAGGCT
Band lengths:
242-416
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]