Special

DmeALTA0007631-2/2 @ dm6

Alternative 3'ss

Gene
FBgn0003888 | betaTub60D
Description
The gene beta-Tubulin at 60D is referred to in FlyBase by the symbol Dmel�etaTub60D (CG3401, FBgn0003888). It is a protein_coding_gene from Dmel. It has 3 annotated transcripts and 3 polypeptides (2 unique). Gene sequence location is 2R:24305881..24313099. Its molecular function is described by: GTPase activity; GTP binding; structural constituent of cytoskeleton. It is involved in the biological process described with 7 unique terms, many of which group under: cellular process; microtubule-based process; larval behavior; response to external stimulus; response to radiation. 28 alleles are reported. The phenotypes of these alleles manifest in: reproductive process; tergum; embryonic/larval peripheral nervous system; embryonic/larval midgut; developing material anatomical entity. The phenotypic classes of alleles include: locomotor behavior defective; phenotype; increased mortality; fertile. Summary of modENCODE Temporal Expression Profile: Temporal profile ranges from a peak of very high expression to a trough of moderate expression. Peak expression observed within 06-18 hour embryonic stages, during late larval stages, at stages throughout the pupal period.
Coordinates
chr2R:24310722-24311137:+
Coord C1 exon
chr2R:24310722-24310830
Coord A exon
chr2R:24310893-24310895
Coord C2 exon
chr2R:24310896-24311137
Length
3 bp
Sequences
Splice sites
5' ss Seq
CGGGTAACA
5' ss Score
5.3
3' ss Seq
CTAATCGCATCCCCTTTCAGCAG
3' ss Score
7.9
Exon sequences
Seq C1 exon
TTCTGGGAGATCATTTCCGAGGAGCACGGCATCGACAGCAATGGCATCTACGTGGGCGACAGTGATCTGCAGCTGGAGCGCGTCAGTGTCTACTACAACGAAGCATCGG
Seq A exon
CAG
Seq C2 exon
TCACGCGGTCGTCGGGTGGCAAGTACGTGCCCAGGGCCATCCTGCTCGATCTGGAGCCCGGAACCATGGAGTCGGTGCGTTCCGGTCCGTACGGACAACTCTTCCGGCCGGACAACTTCGTGTACGGACAGTCGGGAGCGGGCAACAACTGGGCCAAGGGTCACTACACCGAGGGCGCCGAGCTGGTGGACAATGTCCTGGACGTGGTCCGCAAGGAGTGCGAGAACTGCGACTGCCTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
FBgn0003888-4-2,4-1-2/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact

Protein isoform when splice site is used (Ref)

No structure available
Features
Disorder rate (Iupred):
  C1=0.000 A=NA C2=0.012
Domain overlap (PFAM):

C1:
PF0009120=Tubulin=FE(15.8=100)
A:
NA
C2:
PF0009120=Tubulin=FE(35.2=100)


Main Inclusion Isoform:
FBpp0072177


Main Skipping Isoform:
FBpp0310087


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:
GACAGTGATCTGCAGCTGGAG
R:
CTCCAGATCGAGCAGGATGGC
Band lengths:
108-111
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)