DmeALTA0009444-2/3 @ dm6
Alternative 3'ss
Gene
FBgn0039124 | tbrd-1
Description
The gene testis-specifically expressed bromodomain containing protein-1 is referred to in FlyBase by the symbol Dmel brd-1 (CG13597, FBgn0039124). It is a protein_coding_gene from Dmel. It has 3 annotated transcripts and 3 polypeptides (1 unique). Gene sequence location is 3R:23891597..23893560. Its molecular function is described by: chromatin binding. It is involved in the biological process described with: spermatid differentiation; spermatogenesis; mRNA splicing, via spliceosome. 13 alleles are reported. The phenotypes of these alleles manifest in: intracellular membrane-bounded organelle; intracellular; intracellular organelle; membrane-bounded organelle; organelle. The phenotypic classes of alleles include: male sterile; viable; male fertile; female fertile; flight defective. Summary of modENCODE Temporal Expression Profile: Temporal profile ranges from a peak of moderately high expression to a trough of extremely low expression. Peak expression observed in adult male stages.
Coordinates
chr3R:23891597-23893383:-
Coord C1 exon
chr3R:23893351-23893383
Coord A exon
chr3R:23893255-23893275
Coord C2 exon
chr3R:23891597-23893254
Length
21 bp
Sequences
Splice sites
5' ss Seq
AAAGTAAGC
5' ss Score
7.31
3' ss Seq
CTTTAGGCTAATATTAGGAGTTG
3' ss Score
-21.06
Exon sequences
Seq C1 exon
GAAAGGAGCTGTGAATTTTGAGTTGTTCAAAAA
Seq A exon
TTGGGTGACCTTACAAACCAG
Seq C2 exon
CAATGAATGAACTGCAGTCGAATAGCAACCAGCCTCCGCCGCGCAATGAGCCGTATCTGCAGCCGGTGAATGGCATCGTGCAACCGCCGGTGATTCCGCCACCGAATCGTCCTGGGCGAAGGACAAACATCCTAGAAGAGCTCAAGTCCGTGCTGAATTGCTTATGGCGCAATCGCTTCTCGTATCACTTTCGCCATCCCGTCGATTCTGTGAGCCTGGGTGTGCCCGACTACCATGCGGTGGTCAAGCATCCGATGGACTTGAGTACAATTAGGAAGCGACTGCACAACAAATACTACTGGCAGGCGAGCGAGGCTCTGGAGGATTTCAAGCTGATATTCGATAACTGCTTGTTGTACAATTTGGAGGGCTCACCGGTTTATCAGGCAGGGAAGCTTCTAATGGAGGCCTTTTACATGCGAATGGAGTCCATTGATTTGAGCACGGAGGTGGAACTAAAGCCGAAGTCGGAAAAGCGCAAGAGAAAGGCTACTGAATCA
VastDB Features
Vast-tools module Information
Secondary ID
FBgn0039124-0-2,0-1,0-0-2/3
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=NA
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
PF0043920=Bromodomain=WD(100=16.7),PF0043920=Bromodomain=WD(100=16.9)
Main Inclusion Isoform:
NA
Main Skipping Isoform:
FBpp0083911
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:
AGGAGCTGTGAATTTTGAGTTGT
R:
CCATTCACCGGCTGCAGATAC
Band lengths:
103-124
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)