BtaEX0031582 @ bosTau6
Exon Skipping
Gene
ENSBTAG00000021339 | SCN8A
Description
sodium channel, voltage gated, type VIII alpha subunit [Source:HGNC Symbol;Acc:HGNC:10596]
Coordinates
chr5:28236301-28240811:-
Coord C1 exon
chr5:28240455-28240811
Coord A exon
chr5:28237144-28237614
Coord C2 exon
chr5:28236301-28236418
Length
471 bp
Sequences
Splice sites
3' ss Seq
TCCTAATGCTCCTGGTGCAGGTA
3' ss Score
7.02
5' ss Seq
GATGTAAGG
5' ss Score
6.35
Exon sequences
Seq C1 exon
CTCCGAGTCTTCAAATTGGCCAAATCCTGGCCCACCCTGAACATGCTGATCAAGATTATTGGAAATTCAGTGGGTGCCCTGGGCAACCTGACCCTTGTGCTGGCCATTATTGTCTTCATCTTTGCTGTGGTGGGGATGCAGCTCTTTGGAAAGAGCTACAAAGAATGTGTCTGCAAGATCAACCAGGACTGTGAACTCCCTCGCTGGCACATGCATGACTTTTTCCATTCTTTCCTCATTGTCTTTCGAGTGTTGTGCGGGGAATGGATCGAGACCATGTGGGACTGCATGGAGGTGGCTGGCCAGGCTATGTGCCTCATTGTCTTCATGATGGTCATGGTTATTGGCAACTTGGTG
Seq A exon
GTACTGAACCTGTTTCTGGCCTTGCTTCTGAGCTCCTTCAGTGCTGACAACCTGGCAGCCACAGACGATGATGGAGAAATGAACAACCTGCAAATCTCCGTGATCCGGATCAAGAAGGGCGTGGCGTGGATCAAACTGAAAGTGCACGCCTTCATGCAGGCCCATTTCAAGCAGCGCGAGGCCGACGAAGTGAAACCTCTGGACGAGCTGTACGAGAAGAAAGCCAACTGCATCGCCAACCACACCGGCGCCGACATCCACCGGAACGGTGACTTCCAGAAGAATGGCAATGGCACCACCAGCGGCATCGGCAGCAGCGTGGAGAAGTACATCATCGACGAGGACCACATGTCCTTCATCAACAATCCCAACCTGACTGTGCGAGTGCCCATCGCCGTCGGCGAGTCCGATTTTGAGAACCTAAACACCGAGGATGTCAGCAGCGAGTCGGATCCTGAAGGCAGCAAAGAT
Seq C2 exon
AAACTGGACGACACCAGCTCCTCTGAAGGAAGCACCATTGACATCAAACCAGAAGTAGAAGAAGTCCCTGTGGAGCAGCCTGAGGAATACTTGGATCCAGATGCCTGCTTCACGGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000021339-'17-21,'17-20,18-21
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=0.210 C2=0.575
Domain overlap (PFAM):
C1:
PF0052026=Ion_trans=FE(62.1=100)
A:
PF0052026=Ion_trans=PD(4.2=5.1),PF065128=Na_trans_assoc=PU(61.0=84.7)
C2:
PF065128=Na_trans_assoc=FE(17.9=100)
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:
TTCATCTTTGCTGTGGTGGGG
R:
GTGAAGCAGGCATCTGGATCC
Band lengths:
356-827
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development