DmeINT0014519 @ dm6
Intron Retention
Gene
FBgn0034423 | CG7229
Description
The gene testis-specifically expressed bromodomain containing protein-2 is referred to in FlyBase by the symbol Dmel brd-2 (CG7229, FBgn0034423). It is a protein_coding_gene from Dmel. It has 2 annotated transcripts and 2 polypeptides (1 unique). Gene sequence location is 2R:19259909..19262294. Its molecular function is unknown. It is involved in the biological process described with: spermatogenesis. 7 alleles are reported. The phenotypes of these alleles manifest in: spermatid; nucleus; mitochondrial derivative. The phenotypic classes of alleles include: male sterile; viable. Summary of modENCODE Temporal Expression Profile: Temporal profile ranges from a peak of moderate expression to a trough of no expression detected. Peak expression observed during late larval stages, at stages throughout the pupal period, in adult male stages.
Coordinates
chr2R:19259909-19262294:+
Coord C1 exon
chr2R:19259909-19260067
Coord A exon
chr2R:19260068-19260121
Coord C2 exon
chr2R:19260122-19262294
Length
54 bp
Sequences
Splice sites
5' ss Seq
ATGGTGAGT
5' ss Score
10.13
3' ss Seq
ACAAATCATTCTATTGGCAGGCA
3' ss Score
5.34
Exon sequences
Seq C1 exon
AAAGCGGACGGTCGAACGGCAAAAGTGTTCCCAAAACTCAATCGTAATCGTAGTCAAATTCGAGTTTATATTTGTGTAAAATTGAAAGAGACACGTTTTCAAAAATCGAAACAAACGAACAACCAGTAACCAGTAACTGAAAAATATATCTCTAGCATG
Seq A exon
GTGAGTTCGTAAGCTATTCACTGCGCGAATTTCTACAAATCATTCTATTGGCAG
Seq C2 exon
GCATCTTGCAAGCCGCTTTCCGTAAAACTAAAACTCCCAAATCGTGTCCAACCCGAGTTTATACCGCATCCCGGAATGGCGGGTCGTTATACCAATAAGTTGCATTACTTCAAGAAGCATTTGCTCGACGAGGCTCGCAAGAAGAAGTATGCCTTGGACTTCTTGGAGCCCGTGGACACGGAGGCTCTGATGGTGCCCACATACTACACGGTTATCCATCGTCCCATGGATATCGGTACCATTGTGAAAAGAGTTCAGAACAACTACTATAAATCTGTCAATGAAGCGATTGCCGATTTCAAGCAAATTATTAGCAATTGCTTCCTATTCAATCGATCCGGCGATGTCGTTTACCGCAAGGGCCAGATGCTGGAGAAGTTCTTTCACAAGAAACTCCGAGGCATGCCGTCTGGTCCAGAGGTGCCCTGCAATAGGGATCCCAAGGCGGTGGGCAGGCCTAGGACCAATGCTCCTAGTTCCGCGCAGACGGAACGCAAGTGCCGGGAATTATTGAAGAAGTTGCAGAGCATCACCAATCAGACAGATGCCATGACGCGCAATTTCTTCAGTAACAAGTGGGATTCGTTGCAAAAGAAAGTTGATCGCCAGTACTTCAAGTCTGTCAATGAATTTTGCTTGCATGTGGATGGCTGCTTTAGAAAGTACCACGAACCGGCTAAAATCCTCTACGAAAGAGTCTTTAATCAGCCGGCGGCTTGGTGTACTTCCATGAATGGAAACTCATCGCTGGAATCTGCTTTGAATGCCGCAGATCTAAATGAACTACTGGCTGCCGCCAAGTTAACGGTAAATAGCTTGATGCAGTGCGTCCAAATGCCCGGTTCCGGGGAACCTCTGACAGCCAAGAGTTTGGTGGAGACTTTCTGTGACACCTTAAACAAGATGATAAACAAAATGGAGGCAGGTCAACGAAATTCTCCAAACCCATCATCTAGCAAACGACAGAAGATGAGCCCCGAGCAGGAAACGGATTTGGTCCAAGGCGAATTTAAGCCAGCTATGGAGTTGTTAAGTGGAAATGAAATAGATAACCTCATGGCAGTTAGCATTGAATCCTCAGATGATGAAGCTATCGATGCCTCAATGCGTATCACTGACGCGGATCGATGTGCCACACAGAAATTATTTGCCAAGCTTCCGACAAACGCCATGAAGGAGATAATTCACATGGTCCAGCAAATCGAAGGATTTTCCTCAGAGAACTGTGGAGATCTGAGCTTCGATGTCAAAGGTCTCGCCACGGATACTATGATCATGATGAAAAGTGCCGTCACCAAGGCAACTAGGGCCCATAGCAAGCTGAAGCTCAAGGACATGCAGCCTTCGGAAAAGGAAGGACTTCAGCGGGCACTGCAGTCGCAGCTGGTGAACATTACACGGATGCTCAACAAAAATCGTCGCCGATGTGGTCCCTTGATCAATTTCAGGAATAAAAACAACACTGCCAATAACGTGGTGCGTAAGAGAGCAACTGCTCCGCTAACCGCCAAATTGAAGCCGCTACAGGCTAATGTAATGGCTCCACAATTGGGAGCAGGTGTTGTTGAGACTCACAATCTGAGCGATACCAGCGACGATGACGTCTCCGCTCCGGTAAAACTGTCGGCTATTGGTGGCACTCCAATGAGGAATCTCCCAATAAATAGTAATCCTTTGCAAATGCAACCCATCAGATCCCCCCCCAAGTTGCCACACGTTGTCGAACTCCAGATGAGCAGCAGCAGCAGCAGCGAGTCGGAAATGAAATCCAAGTCCGGCAGACTTTCTAGGTCCAGGTCCAGGTCCATGTCCGACACCAAGTTGAGACCCAGGTCAAACTCCAGCGCCAGCTCTAGATCTAACTCTAGTTCTAGCTCTGGCTCCAACGCTGGCTCCAGCTCAGGGTCGCGCTCCAGATCAAGCTCCAGTTCCAGTTCATCTTCGAACAACAGCTCCGAGTCCAACGATTCCTCTGACGTTGAAGTGGTCCCCAATGTACCCGAAGGACAGCTGAGGGCCTAATCCTCATAAAGAAGTCTTATGAATTCTTGCATTTTATGTATATGTAAAAAAAAGGGGGGTTTCACTACAAATATCCCAAATATAAGAAAATAAAAACTGTAAACACCTATATTACACATTCATGTGTACATATATGGTTGGACAAGAAACT
VastDB Features
Vast-tools module Information
Secondary ID
FBgn0034423:FBtr0086511:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.422
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0043920=Bromodomain=WD(100=12.5)
Main Inclusion Isoform:
NA
Main Skipping Isoform:
FBpp0085699
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:
TCGAAACAAACGAACAACCAGT
R:
GGTATAACGACCCGCCATTCC
Band lengths:
147-201
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)