BtaEX6093489 @ bosTau6
Exon Skipping
Gene
ENSBTAG00000017174 | SCN11A
Description
sodium channel, voltage gated, type XI alpha subunit [Source:HGNC Symbol;Acc:HGNC:10583]
Coordinates
chr22:12275353-12290213:-
Coord C1 exon
chr22:12290113-12290213
Coord A exon
chr22:12282871-12283141
Coord C2 exon
chr22:12275353-12276383
Length
271 bp
Sequences
Splice sites
3' ss Seq
TCCTTTTTCTTTTTCCTCAGAAC
3' ss Score
11.48
5' ss Seq
TTAGTAAGT
5' ss Score
7.79
Exon sequences
Seq C1 exon
GTGGCCAAGATGTCTTTCTGACAGAAGAACAGAAGAAATACTATAATGCAATGAAAAAATTAGGATCCAAAAAACCTCAAAGGCCCATTCCAAGGCCTCAG
Seq A exon
AACAAATGCCAAGGCTTTGTGTTTGACCTCGTCACACACCAGGTCTTTGACATCATTATCATCATCCTCATTCTCCTCAACATGCTTAGCATGATGGCTGAAACACATAAGCAGTCGGAGACCATGAAACATTTACTTGAGAGTCTCAACATGGCCTTTGTGGTCATCTTTGCAATTGAGTGTTTCATCAAAATCTTTGCTTTGAGGCAATACTACTTCGCCAATGGCTGGAATTTATTTGATTGTGTGATCGTGCTCCTTTCTATTGTTA
Seq C2 exon
GTTCCGTGGTTTCTGCCTTGAAAACCCAGGCCCAGATTCCTTTCCCTCCAACACTGTTCAGAATGGTTCGCTTGGTTCGGATTGGCCGAATCCTGAGACTTGTTCGAGCAGCACGAAGAATCAGAACTCTGCTTTTTGCTCTGATGATGTCCCTGCCCTCTCTATTTAATATTGGTCTTCTCCTCTTTCTGGTTATGTTTATTTATGCCATTTTTGGTATGAACTCTTTTCGAAAAGTGAAGGAAGAGTCTGGAATCGATGACATCTTCAACTTCCAAACTTTTACAAGCAGCATGCTCTGCCTCTTCCAGATAACCACGACAGCAGGCTGGGATGCCCTCCTCAGCCCCATGTTGAAATCAAACAAGTCCTGTGACCCCAAGACAGAGAGCTGCCACCTCTCTACCATAGCCATAATCTACTTCGTCACTTATATCATCATCTCCTCTCTCATTGTGGTCAACATGTATATTGCTGTGATTTTAGAAAACTTCAATGTA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000017174-'25-26,'25-25,26-26=AN
Average complexity
A_S
Mappability confidence:
100%=100=100%
Protein Impact
ORF disruption upon sequence exclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.059 A=0.000 C2=0.023
Domain overlap (PFAM):
C1:
NO
A:
PF0052026=Ion_trans=PU(21.1=47.3)
C2:
PF0052026=Ion_trans=PD(78.4=46.5)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACCTCAAAGGCCCATTCCAAG
R:
TGTCATCGATTCCAGACTCTTCCT
Band lengths:
292-563
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]