DmeALTA0008643-3/4 @ dm6
Alternative 3'ss
Gene
FBgn0016038 | mod(r)
Description
The gene Vacuolar protein sorting 37A is referred to in FlyBase by the symbol DmelVsp37A (CG17828, FBgn0016038). It is a protein_coding_gene from Dmel. It has 7 annotated transcripts and 7 polypeptides (2 unique). Gene sequence location is X:621530..623051. Its molecular function is described by: . It is involved in the biological process described with: endosome transport via multivesicular body sorting pathway; ubiquitin-dependent protein catabolic process via the multivesicular body sorting pathway; protein targeting to vacuole; protein targeting to membrane. 8 alleles are reported. The phenotype of these alleles manifest in: wing. The phenotypic class of alleles includes: viable. Summary of modENCODE Temporal Expression Profile: Temporal profile ranges from a peak of moderately high expression to a trough of moderate expression. Peak expression observed within 00-12 hour embryonic stages, during late larval stages, at stages throughout the pupal period, in stages of adults of both sexes.
Coordinates
chrX:621530-622146:+
Coord C1 exon
chrX:621530-621797
Coord A exon
chrX:621853-621908
Coord C2 exon
chrX:621909-622146
Length
56 bp
Sequences
Splice sites
5' ss Seq
CCGGTAAAC
5' ss Score
4.81
3' ss Seq
TTAAAATAGATCTAACGCAGACA
3' ss Score
-0.48
Exon sequences
Seq C1 exon
CAAGCTAGCCAAGGTGGCAGCACTGAAATGGTCACAGAACGAAAATGCAACTTCGATCGGGGCATATAAAACCAGTGCTTCCAATCCGAAGGCAAAGCATAAAAGATCAGAACATCAGTAGCCGAAGATTGGCTGAGTAGCACGGACAGCGGGCAAGTCCTTTGAAACGTTGGTAGTTTGCAACCGGGTTTGCCAACTTCCTTTGGAGTTCAGTGGTGCTCAACTATCGACACAACTATCCTCGGCTTTCGCAAAACTCAGTAAACCG
Seq A exon
ACACATTGACATTCGAAAATTGGGATTGAAAACTCAAGATGCCGACTACACCACAG
Seq C2 exon
GATCTTGCCCTTGCCCACTCTCTTGCTCAAAGACCTCCGACCGATAGCAGTGAGGCCAAGGAGCAGGAGGCCGGCGAATCGGACAACCTGCCCAACCTGTGCACTTTGTCGCTGGACGAACTGAAACAGCTGGACAGGGATCCCGAGTTCTTCGAGGACTTCATCGAGGAGATGTCCGTGGTGCAGTACCTGAACGAGGAGCTCGATTCAATGATGGACCAGGTGGAGATTATATCAA
VastDB Features
Vast-tools module Information
Secondary ID
FBgn0016038-1-4,1-3,1-2,1-1-3/4
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=0.435
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
PF072008=Mod_r=PU(31.3=54.7)
Main Inclusion Isoform:
FBpp0088666
Main Skipping Isoform:
FBpp0088667
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
FBpp0088664, FBpp0088665, FBpp0307122, FBpp0307123
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:
GTAGTTTGCAACCGGGTTTGC
R:
TGCTATCGGTCGGAGGTCTTT
Band lengths:
145-201
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)