DmeALTA0006465-1/3 @ dm6
Alternative 3'ss
Gene
FBgn0020620 | RN-tre
Description
The gene Related to the N terminus of tre oncogene is referred to in FlyBase by the symbol DmelRN-tre (CG8085, FBgn0020620). It is a protein_coding_gene from Dmel. It has 6 annotated transcripts and 6 polypeptides (5 unique). Gene sequence location is 2R:13984815..13990707. Its molecular function is described by: Rab GTPase binding; GTPase activator activity. It is involved in the biological process described with: activation of GTPase activity; intracellular protein transport; regulation of GTPase activity. 11 alleles are reported. The phenotypes of these alleles manifest in: organism; multi-tissue structure; head segment; circulatory system; female germline cyst. The phenotypic classes of alleles include: melanotic mass phenotype; planar polarity defective; cell migration defective; neuroanatomy defective; viable. Summary of modENCODE Temporal Expression Profile: Temporal profile ranges from a peak of moderately high expression to a trough of low expression. Peak expression observed within 00-18 hour embryonic stages, in adult female stages.
Coordinates
chr2R:13985990-13988437:-
Coord C1 exon
chr2R:13988373-13988437
Coord A exon
NA
Coord C2 exon
chr2R:13985990-13986044
Length
0 bp
Sequences
Splice sites
5' ss Seq
CGGGTGAGT
5' ss Score
9.89
3' ss Seq
AATACGAAGTTCGCTTGCAGGTA
3' ss Score
2.77
Exon sequences
Seq C1 exon
ACAAGAACAAAACGCGATCGACGTTCAGTCCACAGTGTCCTACGAGACTTCGGAGTGCGCAACGG
Seq A exon
NA
Seq C2 exon
GTACTTCAGTTGCCTCGCACGGCTCCTCGGAAACGATGTCGCTGGAGGACAACAA
VastDB Features
Vast-tools module Information
Secondary ID
FBgn0020620-7-10,7-9,7-8-1/3
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (No Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.330 A=NA C2=0.978
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
FBpp0303476
Main Skipping Isoform:
FBpp0303477
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
FBpp0086729
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:
AGAACAAAACGCGATCGACGT
R:
TTGTTGTCCTCCAGCGACATC
Band lengths:
117-168
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)