BtaEX6009359 @ bosTau6
Exon Skipping
Gene
ENSBTAG00000018520 | SCN1A
Description
sodium channel, voltage gated, type I alpha subunit [Source:HGNC Symbol;Acc:HGNC:10585]
Coordinates
chr2:30408291-30412264:+
Coord C1 exon
chr2:30408291-30408428
Coord A exon
chr2:30410283-30410387
Coord C2 exon
chr2:30411994-30412264
Length
105 bp
Sequences
Splice sites
3' ss Seq
TTTATTTTTCTTTTCTATACTTT
3' ss Score
0.99
5' ss Seq
GGAGTAAGA
5' ss Score
4.36
Exon sequences
Seq C1 exon
GTGGAACTCCAGCCTAAGTATGAGGAAAGTCTATACATGTATCTTTACTTTGTTATTTTCATCATCTTTGGGTCCTTCTTCACCTTGAACCTGTTTATTGGTGTCATCATAGATAATTTCAACCAGCAAAAAAAGAAG
Seq A exon
TTTGGAGGTCAAGACATCTTTATGACAGAAGAACAGAAGAAATACTATAATGCAATGAAAAAATTAGGATCAAAAAAGCCACAAAAGCCTATACCTCGACCAGGA
Seq C2 exon
AACAAATTCCAAGGAATGGTCTTTGACTTCGTCACCAGACAAGTTTTTGACATCAGCATCATGATTCTTATCTGTCTCAACATGGTCACCATGATGGTGGAAACCGACGACCAGAGCGACTGTGTGACTAGCATTTTGTCCCGCATCAACTTGGTGTTCATTGTGCTGTTCACTGGGGAGTGTGTGCTGAAGCTCATCTCCCTCCGCCATTACTATTTTACTATAGGCTGGAATATCTTTGATTTTGTGGTGGTCATTCTCTCCATAGTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000018520-'27-26,'27-25,28-26=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:
PF0052026=Ion_trans=PD(15.3=76.1)
A:
NO
C2:
PF0052026=Ion_trans=PU(20.4=47.3)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGGTCCTTCTTCACCTTGAACC
R:
GTGAACAGCACAATGAACACCA
Band lengths:
242-347
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]