RnoEX6017124 @ rn6
Exon Skipping
Gene
ENSRNOG00000005007 | Scn3a
Description
sodium voltage-gated channel alpha subunit 3 [Source:RGD Symbol;Acc:3635]
Coordinates
chr3:51556176-51568679:-
Coord C1 exon
chr3:51568209-51568679
Coord A exon
chr3:51557507-51557627
Coord C2 exon
chr3:51556176-51556330
Length
121 bp
Sequences
Splice sites
3' ss Seq
GACATGGGCTTTGTTTCCAGAAA
3' ss Score
6.92
5' ss Seq
AAGGTAAAG
5' ss Score
9.06
Exon sequences
Seq C1 exon
GTTCTGAACCTCTTTCTGGCCTTATTGTTGAGTTCCTTTAGTTCAGATAACCTTGCTGCTACTGACGATGATAACGAAATGAACAACCTCCAGATCGCGGTGGGAAGGATGCAAAAGGGAATTGATTTTGTGAAAAATAAGATACGGGAGTGCTTCCGAAAAGCGTTTTTCAGAAAGCCGAAAGTGATAGAAATCCAAGAAGGCAACAAAATAGACAGCTGCATGTCCAATAACACGGGCATCGAAATAAGCAAAGAGCTTAACTACCTTAAAGACGGTAATGGAACCACCAGCGGCGTGGGAACCGGAAGCAGTGTGGAAAAATACGTAATCGATGAAAATGACTACATGTCATTCATAAACAATCCCAGCCTCACCGTGACTGTGCCAATTGCTGTGGGAGAGTCTGACTTTGAAAATTTAAATACGGAAGAGTTCAGCAGTGAGTCAGAATTGGAAGAAAGTAAGGAG
Seq A exon
AAATTAAATGCAACCAGCTCTTCTGAAGGAAGCACAGTTGATGTTGCTCCACCCCGAGAAGGTGAACAAGCAGAAATTGAACCTGAGGAGGACCTTAAGCCAGAAGCTTGTTTTACTGAAG
Seq C2 exon
GGTGCATTAAAAAATTCCCCTTCTGTCAAGTAAGTACAGAAGAAGGTAAAGGAAAAATATGGTGGAATCTTAGGAAGACATGCTACAGCATTGTGGAGCACAACTGGTTTGAAACGTTCATTGTGTTCATGATTCTCCTCAGTAGTGGCGCTTTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000005007-'28-27,'28-26,30-27=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=0.134 A=0.756 C2=0.000
Domain overlap (PFAM):
C1:
PF0052026=Ion_trans=PD(4.2=5.1),PF065128=Na_trans_assoc=PU(60.7=84.7)
A:
PF065128=Na_trans_assoc=FE(18.3=100)
C2:
PF065128=Na_trans_assoc=PD(20.1=84.6)
Main Skipping Isoform:
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:
CTCACCGTGACTGTGCCAATT
R:
CAAAGCGCCACTACTGAGGAG
Band lengths:
254-375
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]