BtaEX6093428 @ bosTau6
Exon Skipping
Gene
ENSBTAG00000009155 | SCN5A
Description
Bos taurus sodium channel, voltage-gated, type V, alpha subunit (SCN5A), mRNA. [Source:RefSeq mRNA;Acc:NM_174458]
Coordinates
chr22:12066827-12073648:-
Coord C1 exon
chr22:12073469-12073648
Coord A exon
chr22:12072477-12072848
Coord C2 exon
chr22:12066827-12066959
Length
372 bp
Sequences
Splice sites
3' ss Seq
TCCTCTCTCCGTGCCTTCAGAAT
3' ss Score
10.71
5' ss Seq
ACGGTGAGC
5' ss Score
9.44
Exon sequences
Seq C1 exon
GCCCTCGCCATCAGGGGTGTGGACACCGTGTCCCGCAGCTCCTTGGAGATGTCCCCATTGGCCCCAGTAACCACCCACGAGAGAAGGAGCAAGAGAAGAAAACGAATGTCTTCAGGGATGGAAGAGTGTGGGGACGACAAGTTCCCCAAGTCCGACTCAGAGGATGGTCCCCGAGCAGTG
Seq A exon
AATCGTTTCAGCATCACCCATGGCCTCAGCAGGACCTCCATGAAGCCGCGCTCCAGCCACGGGAGCATTTTCACCTTCCGCCGACGGGACCTGGGCTCCGAGACAGATTTTGCGGACGATGAAAACAGCACCGCCGGGGACAGTGAGAGCCACCGCACATCACTGCTGGTGCCTTGGCCCCTGCGGCGGCCTAGTACCCTGGGACAGCCCAGTCCCGGAACCTCAACTCCCGGCCACGTGCTCAACGGCAAAAGGAACAGCACTGTGGACTGTAACGGGGTGGTCTCCTTGCTGGGGGCAGGAGACCCCGAGGCCACCTCCCCAGGGAGTCACCTCCTCCACCCTATGAAGCTGGAGCGCCCCCCAGACACG
Seq C2 exon
ACCACACCATCGGAGGAGCCGGGCAGGCCCCAGACGCTGACGCCCCAGGCTCCGTGTGTAGACGGCTTCGAGGAGCCAGGAGAGCGGCAGCGAGCCCTCAGTGCAGTGAGCGTCCTCACCAGTGCCCTGGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000009155-'13-16,'13-15,14-16=AN
Average complexity
A_S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.717 A=0.968 C2=0.556
Domain overlap (PFAM):
C1:
PF119333=DUF3451=PU(21.6=75.0)
A:
PF119333=DUF3451=FE(59.1=100)
C2:
PF119333=DUF3451=PD(17.8=82.2)
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:
GCCATCAGGGGTGTGGACA
R:
AGGGCACTGGTGAGGACG
Band lengths:
302-674
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]