RnoEX6017189 @ rn6
Exon Skipping
Gene
ENSRNOG00000006639 | Scn9a
Description
sodium voltage-gated channel alpha subunit 9 [Source:RGD Symbol;Acc:69368]
Coordinates
chr3:52632544-52636917:-
Coord C1 exon
chr3:52636546-52636917
Coord A exon
chr3:52633702-52633831
Coord C2 exon
chr3:52632544-52632782
Length
130 bp
Sequences
Splice sites
3' ss Seq
GCCTTTTTATCCCCCTTTAGGGC
3' ss Score
11.59
5' ss Seq
AAGGTATGT
5' ss Score
9.79
Exon sequences
Seq C1 exon
TCGCCACTCAGCATTCGTGGGTCCCTGTTTTCTGCCAGGCGCAGCAGCAGGACGAGTCTGTTCAGTTTTAAGGGGCGAGGAAGAGATCTGGGATCTGAGACAGAATTCGCTGATGATGAGCATAGCATTTTTGGAGACAACGAGAGCAGAAGGGGTTCACTATTCGTACCCCATAGACCCCGGGAGCGGCGCAGCAGTAACATCAGTCAGGCCAGTAGGTCCCCGCCAGTGCTACCGGTGAACGGGAAGATGCACAGTGCAGTGGACTGCAATGGCGTCGTGTCGCTTGTTGATGGACCCTCAGCCCTCATGCTCCCCAATGGACAGCTTCTTCCAGAGGTGATAATAGATAAGGCAACTTCCGACGACAGC
Seq A exon
GGCACGACTAATCAGATGCGCAAAAAAAGGCTCTCTAGTTCTTACTTCTTGTCTGAGGACATGCTGAATGACCCGCATCTCAGGCAAAGGGCCATGAGCAGGGCGAGCATACTGACCAACACTGTGGAAG
Seq C2 exon
AACTTGAAGAATCTAGACAAAAATGTCCACCATGGTGGTACAGATTTGCTCACACATTTTTAATCTGGAATTGCTCTCCATATTGGATAAAATTCAAAAAGCTCATCTATTTTATTGTGATGGATCCTTTTGTAGATCTTGCAATTACCATTTGCATAGTTTTAAACACCTTATTTATGGCTATGGAGCACCACCCAATGACTGAAGAATTCAAAAATGTCCTTGCAGTGGGGAACTTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000006639-'16-15,'16-14,18-15=AN
Average complexity
A_C1
Mappability confidence:
100%=100=100%
Protein Impact
ORF disruption upon sequence exclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.589 A=0.114 C2=0.000
Domain overlap (PFAM):
C1:
PF0253517=Zip=PD(1.6=2.4),PF119333=DUF3451=FE(53.0=100)
A:
PF119333=DUF3451=PD(15.5=81.8)
C2:
PF0052026=Ion_trans=PU(1.6=3.8)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGGACAGCTTCTTCCAGAGGT
R:
TTCAGTCATTGGGTGGTGCTC
Band lengths:
258-388
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]