DreEX6029424 @ danRer10
Exon Skipping
Gene
ENSDARG00000090724 | scn12aa
Description
sodium channel, voltage gated, type XII, alpha a [Source:ZFIN;Acc:ZDB-GENE-060908-2]
Coordinates
chr2:52315744-52343999:-
Coord C1 exon
chr2:52343643-52343999
Coord A exon
chr2:52331020-52331424
Coord C2 exon
chr2:52315744-52315861
Length
405 bp
Sequences
Splice sites
3' ss Seq
TGTTCCTGGTTCCTCTCTAGGTC
3' ss Score
11.44
5' ss Seq
CAGGTGAGA
5' ss Score
9.22
Exon sequences
Seq C1 exon
CTCAGAGTTTTTAAACTAGCGAAGTCGTGGCCGACCCTCAACACGCTGATAAAGATCATCGGTAACTCTGTGGGCGCTTTGGGGAACCTGACGCTGGTCCTGGCCATCATCGTCTTCATCTTCGCCGTGGTCGGCATGCAGCTATTTGGGAAAAACTATCAGGATTGTGTTTGCAAGATCAGCTACGACTGCACTCTTCCTCGCTGGCACATGAAGGACTTCTTCCACTCGTTCCTCATCGTCTTCAGGGTTCTGTGCGGGGAGTGGATCGAGACCATGTGGGATTGTATGGAGGTGGCCGGACAGCCGCTTTGCATCCTGGTCTTCATGCTGGTCATGGTCATAGGAAACCTGGTG
Seq A exon
GTCTTGAATCTGTTTCTGGCCCTGTTGCTGAGCTCTTTCAGCTCTGATAATCTATCAGCGCCGGATGAAGACGGAGAAATGAACAACCTTCAGATAGCCATCGCTCGAATCCACTGTGGTTTCTCTTGGCTTCTGAATGGCATCAAGGACCTCTTCAGCGGGAACCTGACGCGGCACAGACGCAAATCCAAAGAGGCACAAGTGACCCTGAATCACACGGAGTGCAACGGCGGACTGGGAAGTTTGGAGAAGTATGTTTTTCCAGAAACCGAGGACAGTTACATGACCAATCCCAATCTTACCATCTGTGTGCCCATCGCACCCGGAGAGTCAGACGTGGAATTTCTTGAGGAGGAGGAAGAGGAGGAGGACACAGAGTCATCAGAGGATGAAGAGGAGAAACAG
Seq C2 exon
GAAGTCATCAGCCTCTCTGAAGGAAGTACCGTGGATCTGAGGAAGCCTGGAGAAGATGAAGAGGAATATTCTGAGATGGCAGATGATGGCATGGATCCAGAAGAGTGTTTTCCAGAGT
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000090724-'18-17,'18-16,19-17=AN
Average complexity
A_S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (No Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=0.193 C2=0.725
Domain overlap (PFAM):
C1:
PF0052026=Ion_trans=FE(62.1=100)
A:
PF0052026=Ion_trans=PD(4.2=5.9),PF065128=Na_trans_assoc=PU(56.6=82.2)
C2:
PF065128=Na_trans_assoc=FE(19.9=100)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATCGTCTTCATCTTCGCCGTG
R:
GGATCCATGCCATCATCTGCC
Band lengths:
347-752
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]