DmeALTD0005676-2/3 @ dm6
Alternative 5'ss
Gene
FBgn0085434 | NaCP60E
Description
The gene Na channel protein 60E is referred to in FlyBase by the symbol DmelNaCP60E (CG34405, FBgn0085434). It is a protein_coding_gene from Dmel. It has 11 annotated transcripts and 11 polypeptides (9 unique). Gene sequence location is 2R:24891614..24921677. Its molecular function is described by: voltage-gated sodium channel activity; voltage-gated cation channel activity; cation channel activity. It is involved in the biological process described with: sodium ion transmembrane transport; neuronal action potential; olfactory behavior; membrane depolarization during action potential; sodium ion transport. 40 alleles are reported. No phenotypic data is available. The phenotypic classes of alleles include: behavior defective; viable; smell perception defective; chemical resistant. Summary of modENCODE Temporal Expression Profile: Temporal profile ranges from a peak of moderate expression to a trough of very low expression. Peak expression observed within 06-12 and 18-24 hour embryonic stages, during early larval stages, during late pupal stages, in adult male stages.
Coordinates
chr2R:24917320-24920265:+
Coord C1 exon
chr2R:24917320-24917481
Coord A exon
chr2R:24917482-24917529
Coord C2 exon
chr2R:24917648-24920265
Length
48 bp
Sequences
Splice sites
5' ss Seq
GAGGTTTGT
5' ss Score
6.36
3' ss Seq
CCCCGTTTGCCCCCTTTCAGCTG
3' ss Score
10.25
Exon sequences
Seq C1 exon
CCGCAATGAACAACACGACCAACACCACCTCAAACTCCGCCTCCACCTCCGGCACGGCCTCCTCCACCGCCACCGCCCCAGCCACTGGGTGTGGCCCAGCAGCCACCTCCGCCTCCGACAGCGACCGACACCAGGCGGTGGGGGGTGGGTCGGCTCCATCAC
Seq A exon
GTAAGCGCGCCTCTAGTTTCATTCGCAAGAAACCGCCCCTAGAAAGAG
Seq C2 exon
CTGAGGCGTCAGCCCCCGAGGTGATCGTCACCAGGCCGTCGCCAGAGCAACAGACGCATCCGCACTCGCTGAGCCTGCGTCCGGACAACGCAACTCTGGTCCACGTACTGGTACACCGCGAGAGCGAAGAGTATAAGGAGGAGGATGAGAGCAGCCCGTCCGTGAGCGGCAACGGAAATGGTTTTGGTGTCGGCCTGGACATGCTTAGCAAGCAGCCGCCGCCTCAGATACGCATCACAACGGGCTCGGTAGAGAGCTCAATGGACACGTGCGCGATGCCCACAGTTCAGATCATGGTGGACAGTCCGAAGGACCCGCCACGAGGCGATTTCAGCTCAGCACCGATTGATGATGTGGGTGCGCCAATCGATGTGAATGTCCAGGGCGATACTTCGCAGGTGTTTTACGACTATAATCCTGAGAAAGCCACCGATGACCAAGGGAATGGACAGGACGAGACAGCGCAGTTCGAATCACTTCCAGACAGACAGAGATGACCT
VastDB Features
Vast-tools module Information
Secondary ID
FBgn0085434-45-42,46-42,47-42-2/3
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (No Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.948 A=NA C2=0.996
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
FBpp0300665
Main Skipping Isoform:
FBpp0303273
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
FBpp0300661, FBpp0300662, FBpp0300663, FBpp0300664, FBpp0300666
Associated events
Conservation
Human
(hg38)
No conservation detected
Human
(hg19)
No conservation detected
Mouse
(mm10)
No conservation detected
Mouse
(mm9)
No conservation detected
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GACAGCGACCGACACCAG
R:
GGACCAGAGTTGCGTTGTCC
Band lengths:
148-196
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Neural diversity
- Neurogenesis
- Neuronal activity
- Splicing factor regulation (brain)
- Splicing factor regulation (SL2)