BtaEX6093479 @ bosTau6
Exon Skipping
Gene
ENSBTAG00000017174 | SCN11A
Description
sodium channel, voltage gated, type XI alpha subunit [Source:HGNC Symbol;Acc:HGNC:10583]
Coordinates
chr22:12314760-12320587:-
Coord C1 exon
chr22:12320219-12320587
Coord A exon
chr22:12317164-12317586
Coord C2 exon
chr22:12314760-12314873
Length
423 bp
Sequences
Splice sites
3' ss Seq
CTCCCTTTGCCCCTTCCTAGGTA
3' ss Score
10.67
5' ss Seq
CAGGTACGC
5' ss Score
10.12
Exon sequences
Seq C1 exon
CTGAGGGTCTTCAAGTTAGCCAAATCCTGGCCAACTTTAAGCACACTGATTAAGATCATTGGCCATTCTGTTGGAGCCCTTGGAAACCTGACTGTGGTCTTGGCCATTGTGGTCTTTATTTTCTCAGTAGTTGGCATGCAGCTTTTCGGCTCTAAATTCAATAACAGAAAGAATAATTTAAAGTCCTGTGACCCTGAAGTCCTGTGTTTACGGCGCTGGCACATGGGGGATTTCTACCACTCCTTTTTGGTGGTGTTCCGCATCCTCTGTGGCGAATGGATTGAAAACATGTGGGAATGCATGCAAGAAGCTAACCCAACGCTGTGCGTTATTGTGTTTCTGTCGATCATGGTGATTGGAAAACTTGTG
Seq A exon
GTACTCAACCTCTTCATTGCCTTGCTACTCAATTCCTTCAGCAATGAGGAGAGAAATGGACACTTGGAGGGAAAAGTCAAGAAAACCAAAATCCAGATAGCCCTGGATCGGTTCTGCCGGGCTTTTTGTTTTGTAATACATACTCTTGAGCATTTTTTCAGGAAGCATTGCAGGAAGCGACATTTATCAAAGCAAAAAGAGGTGACAGAAGACCCTGGTGGAAAGATCAAAGATATCATTCCCCTGGTCACAGGGATGAGAAAGGGCCCAGAGATCTGGGAGGAGTTTGGCGTACTAACTTCTGTACCAATGGCCTTGTATGATCGGACTTGGTTGGCCCCACTTGCAGAGGAAGAAGATGATGCTGAACCCCCTGGTGAAGATAAGGCACAGGCTGTCACACAACCTGAGGCTGGAAAACAG
Seq C2 exon
GCCAGCGAAGTCCATCAGAAGAGCAAGGATCTCACTAGTCCAGGAATTCAGAGTGTGGAAATTGATCTATTCTCTGGAGATGATCCTCCTATGTCAATACAGAATCTTCGGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000017174-'14-15,'14-13,15-15=AN
Average complexity
A_C3
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=0.206 C2=0.368
Domain overlap (PFAM):
C1:
PF0052026=Ion_trans=FE(61.9=100)
A:
PF0052026=Ion_trans=PD(4.1=5.7),PF065128=Na_trans_assoc=PU(48.5=81.6)
C2:
PF065128=Na_trans_assoc=FE(15.6=100)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAGCCCTTGGAAACCTGACTG
R:
TCCACACTCTGAATTCCTGGACT
Band lengths:
355-778
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]