BtaEX0031573 @ bosTau6
Exon Skipping
Gene
ENSBTAG00000018520 | SCN1A
Description
sodium channel, voltage gated, type I alpha subunit [Source:HGNC Symbol;Acc:HGNC:10585]
Coordinates
chr2:30396513-30403969:+
Coord C1 exon
chr2:30396513-30396635
Coord A exon
chr2:30399031-30399094
Coord C2 exon
chr2:30403688-30403969
Length
64 bp
Sequences
Splice sites
3' ss Seq
TATATTTCTATTTTGTATAGGAT
3' ss Score
7.53
5' ss Seq
TGGGTACTG
5' ss Score
2.97
Exon sequences
Seq C1 exon
GTTTCATTGGTCAGTTTAACAGCAAATGCCTTGGGTTACTCAGAACTTGGTGCCATCAAATCTCTCAGGACACTAAGAGCTCTGAGACCTCTAAGAGCCTTATCACGATTTGAAGGGATGAGG
Seq A exon
GATAATCTTGCTCCAACTTGGATGGGGTGGAGCGCTGGTTCCGCCCCTCAGCCCTTTATTATGG
Seq C2 exon
GTGGTTGTGAATGCCCTTTTAGGAGCAATTCCATCCATCATGAATGTACTTCTGGTTTGTCTTATATTCTGGCTAATTTTCAGCATCATGGGCGTAAATTTGTTTGCTGGCAAATTCTACCACTGTGTTAACACCACAACTGGTGACATGTTTGACATCAGCGAAGTGAATAATCATTCAGATTGCCTAATACTAATAGAAAGAAATGAGACTGCCCGATGGAAAAATGTGAAAGTAAACTTTGATAATGTAGGATTTGGGTATCTCTCTTTGCTTCAAGTT
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000018520_MULTIEX1-1/2=C1-2
Average complexity
C1
Mappability confidence:
100%=100=100%
Protein Impact
In the CDS, with uncertain impact
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=PD(9.9=40.9)
C2:
PF0052026=Ion_trans=FE(40.6=100)
Main Inclusion Isoform:
ENSBTAT00000021951fB6164
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACAGCAAATGCCTTGGGTTACT
R:
TGGAATTGCTCCTAAAAGGGCA
Band lengths:
138-202
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development