DmeALTD0001498-3/3 @ dm6
Alternative 5'ss
Gene
FBgn0031170 | CG1718
Description
The gene ATP binding cassette subfamily A is referred to in FlyBase by the symbol DmelABCA (CG1718, FBgn0031170). It is a protein_coding_gene from Dmel. It has 4 annotated transcripts and 4 polypeptides (3 unique). Gene sequence location is X:21292308..21306665. Its molecular function is described by: ATPase activity; ATP binding; ATPase-coupled transmembrane transporter activity; lipid transporter activity. It is involved in the biological process described with: lipid transport; transmembrane transport. 8 alleles are reported. The phenotypes of these alleles manifest in: NMJ bouton; embryonic/larval neuromuscular junction; egg chamber; nurse cell. The phenotypic classes of alleles include: lethal - all die before end of P-stage; locomotor rhythm defective; viable; behavior defective; neuroanatomy defective. Summary of modENCODE Temporal Expression Profile: Temporal profile ranges from a peak of moderate expression to a trough of low expression. Peak expression observed within 00-06 and 12-24 hour embryonic stages, at stages throughout the larval period, during late pupal stages, in stages of adults of both sexes.
Coordinates
chrX:21292714-21293530:-
Coord C1 exon
chrX:21293364-21293530
Coord A exon
chrX:21293156-21293363
Coord C2 exon
chrX:21292714-21292930
Length
208 bp
Sequences
Splice sites
5' ss Seq
GGAGTAGTT
5' ss Score
-6.12
3' ss Seq
TTTGTCACTCCTATATCCAGTCG
3' ss Score
5.24
Exon sequences
Seq C1 exon
GGAGGAGTACCAGGGCATTTTAACATTCTACATTCCGTTGACTGGAGTGAAATGGTCTCGCATCTTCGGCTTGATGGAGAGCAATCGCGACCAGCTGAACGTGGAGGACTACTCAGTCAGCCAGACAACGCTGGAGGAGATCTTTCTCGAGTTCGCCAAATACCAGC
Seq A exon
GTGAGGATACGCGCGCCAATCAGTGAGCTAGCCCCCAAAAAGATCCAACACCCAGTTGATAACACCACATGGCTTCTTTTTAACGGGCTTCTTGCTTCCTGGCTTCATCTTCTGCCTGTCGCATCGCATCGCATTGCCAGCACCTAAACAAAACGAGCACCGCAACACCGCCAGAACATCCTATTTCTCATACACGACAGCACTCGGA
Seq C2 exon
TCGCCTCTCGGAATTGAGGAAGCTGTGCAAGTGCCTGCTAACTAATGAGTTTTGAACCAACTACCTGAGCGGGTCCGTTACGATCCGATTTTCACCTGATCTTACACTCACAGATAATAATGTTGTATACCAAAGCAACGCCGATGCCTGAACAGCTAACAAATAGTTTCTAAGCTCGACCTGACAATAGATAGCAGCTATTATGCCTTATTTCATT
VastDB Features
Vast-tools module Information
Secondary ID
FBgn0031170-19-15,20-15,21-15-3/3
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (No Ref, Alt. Stop)
No structure available
Features
Disorder rate (Iupred):
C1=0.031 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
FBpp0304765
Main Skipping Isoform:
FBpp0304764
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
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:
CCGTTGACTGGAGTGAAATGGT
R:
TGTTAGCTGTTCAGGCATCGG
Band lengths:
294-502
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)