BtaEX6009361 @ bosTau6
Exon Skipping
Gene
ENSBTAG00000018520 | SCN1A
Description
sodium channel, voltage gated, type I alpha subunit [Source:HGNC Symbol;Acc:HGNC:10585]
Coordinates
chr2:30403688-30408428:+
Coord C1 exon
chr2:30403688-30403969
Coord A exon
chr2:30406249-30406302
Coord C2 exon
chr2:30408291-30408428
Length
54 bp
Sequences
Splice sites
3' ss Seq
ATGCATGTCCTTTTTAATAGGCC
3' ss Score
7.75
5' ss Seq
AATGTAAGT
5' ss Score
8.62
Exon sequences
Seq C1 exon
GTGGTTGTGAATGCCCTTTTAGGAGCAATTCCATCCATCATGAATGTACTTCTGGTTTGTCTTATATTCTGGCTAATTTTCAGCATCATGGGCGTAAATTTGTTTGCTGGCAAATTCTACCACTGTGTTAACACCACAACTGGTGACATGTTTGACATCAGCGAAGTGAATAATCATTCAGATTGCCTAATACTAATAGAAAGAAATGAGACTGCCCGATGGAAAAATGTGAAAGTAAACTTTGATAATGTAGGATTTGGGTATCTCTCTTTGCTTCAAGTT
Seq A exon
GCCACATTTAAGGGATGGATGGATATAATGTATGCAGCAGTTGATTCCAGAAAT
Seq C2 exon
GTGGAACTCCAGCCTAAGTATGAGGAAAGTCTATACATGTATCTTTACTTTGTTATTTTCATCATCTTTGGGTCCTTCTTCACCTTGAACCTGTTTATTGGTGTCATCATAGATAATTTCAACCAGCAAAAAAAGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000018520-'25-24,'25-23,26-24=AN
Average complexity
A_C1
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 Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Primers PCR
Suggestions for RT-PCR validation
F:
GCCCGATGGAAAAATGTGAAAGT
R:
AGAAGGACCCAAAGATGATGAA
Band lengths:
148-202
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]