DreEX6067610 @ danRer10
Exon Skipping
Gene
ENSDARG00000098738 | scn4aa
Description
sodium channel, voltage-gated, type IV, alpha, a [Source:ZFIN;Acc:ZDB-GENE-051201-2]
Coordinates
chr12:4842508-4851835:+
Coord C1 exon
chr12:4842508-4842864
Coord A exon
chr12:4850099-4850464
Coord C2 exon
chr12:4851703-4851835
Length
366 bp
Sequences
Splice sites
3' ss Seq
CCTTACCTTTGTTTTTCCAGGTG
3' ss Score
11.79
5' ss Seq
AAGGTAAGG
5' ss Score
10.51
Exon sequences
Seq C1 exon
CTACGTGTCTTCAAACTGGCTAAATCTTGGCCCACCCTTAACATGCTGATCAAGATCATCGGCAACTCAGTGGGTGCTCTAGGGAACCTAACACTTGTTCTGGCCATCATTGTCTTCATCTTTGCCGTGGTGGGCATGCAGCTTTTTGGAAAAAGCTACAAGGACTGCGTTTGTAAGATCTCTGAGGATTGCGAGCTGCCCCGCTGGCACATGAACGACTTCTTCCACTCATTCCTCATCGTCTTTCGGATCTTATGTGGAGAGTGGATTGAGACTATGTGGGACTGCATGGAGGTGGCAGGAGCTAGCATGTGTTTGATAGTCTTCATGATGGTCATGGTCATCGGAAACCTTGTG
Seq A exon
GTGCTGAATCTGTTTCTGGCCCTGCTGCTTAGCTCCTTCAGTGGAGATAACCTGTCTGGAGGTGATGATGATGGAGAGATGAACAACCTTCAGATTGCCATTGGCCGCATCACCAGGGGTATCGATTGGGTTAAAGCCTTAGTTGCCAGTATGGTGCAACGGATTCTGGGAAAGAAACCTGATAATACCAAAGAGGAAGGGGAGGGAGACATAGAACTGTACGCTTTAAATCACCTTGATGAAGGAAAAATGGCAGATGGTTTGACCAACTGTTTGTCTCCAACATTGACTGTACCTATTGCTCGTTGTGAGTCTGATGTGGAGGAAGATGAGGACTCTGAATCTTCTGATGAGGAAGACGCAAAG
Seq C2 exon
GCCACTCTTAATGATGGTGACTCTTCGGTTTGTAGCACAGTGGACTACCAGCCTCCAGAACCTGAGCCTGAACCTGAAGAGGTAGAAGAAGAGGAACCAGAACCTGAAGAACCAGAGGCCTGTTTCACAGAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000098738-'16-17,'16-16,17-17=AN
Average complexity
A_S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=0.303 C2=0.778
Domain overlap (PFAM):
C1:
PF0052026=Ion_trans=FE(62.1=100)
A:
PF0052026=Ion_trans=PD(4.2=6.6),PF065128=Na_trans_assoc=PU(52.1=80.3)
C2:
PF065128=Na_trans_assoc=FE(23.4=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:
CTCAGTGGGTGCTCTAGGGAA
R:
AGGTTCTGGAGGCTGGTAGTC
Band lengths:
355-721
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]