BtaEX0031574 @ bosTau6
Exon Skipping
Gene
ENSBTAG00000018520 | SCN1A
Description
sodium channel, voltage gated, type I alpha subunit [Source:HGNC Symbol;Acc:HGNC:10585]
Coordinates
chr2:30396513-30406302:+
Coord C1 exon
chr2:30396513-30396635
Coord A exon
chr2:30403688-30403969
Coord C2 exon
chr2:30406249-30406302
Length
282 bp
Sequences
Splice sites
3' ss Seq
TTTTTCCATTTGTGTATTAGGTG
3' ss Score
9.22
5' ss Seq
GTTGTAAGT
5' ss Score
8.3
Exon sequences
Seq C1 exon
GTTTCATTGGTCAGTTTAACAGCAAATGCCTTGGGTTACTCAGAACTTGGTGCCATCAAATCTCTCAGGACACTAAGAGCTCTGAGACCTCTAAGAGCCTTATCACGATTTGAAGGGATGAGG
Seq A exon
GTGGTTGTGAATGCCCTTTTAGGAGCAATTCCATCCATCATGAATGTACTTCTGGTTTGTCTTATATTCTGGCTAATTTTCAGCATCATGGGCGTAAATTTGTTTGCTGGCAAATTCTACCACTGTGTTAACACCACAACTGGTGACATGTTTGACATCAGCGAAGTGAATAATCATTCAGATTGCCTAATACTAATAGAAAGAAATGAGACTGCCCGATGGAAAAATGTGAAAGTAAACTTTGATAATGTAGGATTTGGGTATCTCTCTTTGCTTCAAGTT
Seq C2 exon
GCCACATTTAAGGGATGGATGGATATAATGTATGCAGCAGTTGATTCCAGAAAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000018520_MULTIEX1-2/2=C1-C2
Average complexity
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(17.5=100)
A:
PF0052026=Ion_trans=FE(40.6=100)
C2:
PF0052026=Ion_trans=FE(7.4=100)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Primers PCR
Suggestions for RT-PCR validation
F:
ATTGGTCAGTTTAACAGCAAATGCC
R:
ATTTCTGGAATCAACTGCTGCA
Band lengths:
172-454
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development