DmeINT0023251 @ dm6
Intron Retention
Gene
FBgn0040299 | Myo28B1
Description
The gene Myosin 28B1 is referred to in FlyBase by the symbol DmelMyo28B1 (CG6976, FBgn0040299). It is a protein_coding_gene from Dmel. It has 5 annotated transcripts and 5 polypeptides (4 unique). Gene sequence location is 2L:7666047..7689459. Its molecular function is described by: ATP binding; actin-dependent ATPase activity; actin filament binding; microfilament motor activity. It is involved in the biological process described with: sensory organ development; vesicle transport along actin filament; actin filament organization; actin filament-based movement. 13 alleles are reported. The phenotypes of these alleles manifest in: trichogen cell; male genitalia. The phenotypic classes of alleles include: viable; visible; lethal - all die during P-stage. Summary of modENCODE Temporal Expression Profile: Temporal profile ranges from a peak of moderate expression to a trough of extremely low expression. Peak expression observed within 18-24 hour embryonic stages, at stages throughout the larval period, during early pupal stages.
Coordinates
chr2L:7686027-7687923:+
Coord C1 exon
chr2L:7686027-7686325
Coord A exon
chr2L:7686326-7686387
Coord C2 exon
chr2L:7686388-7687923
Length
62 bp
Sequences
Splice sites
5' ss Seq
ACGGTATGT
5' ss Score
9.94
3' ss Seq
CAAACAATTCATTATTGCAGAGA
3' ss Score
5.56
Exon sequences
Seq C1 exon
GCCATTTGGTTGACTATACTCCGCTTTATGGGCGACTTGCCGGATGTTGTTTCCTCGCCTACTCTTCACGTATTCGATAATGAAAACTTGATGAGTGATTTGGCAAGCCTCTTGAACACTTCTGATTCCTATAAGCCTCGCTTATTTGTGCGCCAATCCCAAAGACGTATCCCAAAGCCTTTGGCTAGTGGTGAGAAGGAAGCCCAGGAATTCTATCAACACTGGCTCAACGTTCCCACAAGTCACCTGGAGAAAATTCACTTCATCATAGGTCATGGTATAATAAAGAATAGCTTACG
Seq A exon
GTATGTTATGACAAGAAGACAGGACATTTCTTTGCATCAAACCAAACAATTCATTATTGCAG
Seq C2 exon
AGACGAAATCTTGGCCCAGATCTGCAAGCAGCTATATCTTAACCCAAGTCGGAGCTCCTACTCCCGCGGATGGTTGCTCCTTTCGCTATGCCTCAGCTGCTTTCCACCCAGCAAGGAGTTTGAGCCACACTTGCGCAGTTTCATGAAGCAGGGAACTGCCCAACTGCAGGCCACTCCATCCCTGCAGCGATTGGAGCGAACCCTGGTCAATGGACCACGCTGTCAGCCACCTTCGTTATTTGAGCTCCACGCAATCCGCGGTCGCCACCCGCTTAGGTTGGACATTCACCTGATGGATGGGCAGCAGAGAAGATTGCAGGTGGATGCGGCCAGTACAGCTCGAGAGGCAGTCAATCAACTTTGTCAGGGTATGGGGCTAACCGACACCTTTGGCTTTGGATTGGTGATGTCATTGAATGGGAAGCTAATGCCGCTGGGAGCAGGTCAGGAGCATGTCCTGGATGCCATTTCGGAGTGCGAGCAACGTCAGCTGGATGCACCTTGGAAACTATACATCCGAAAGGAAATGTTTGCCACTTGGTATGATCCCTCGATGGATCCCAAGGCCACTCAACTTATATACAAGCAAATTCTAAACGGGTTGAAGTGCGGAGAGTATCGATGTCGCTCCGAGAAGGACATAGCAATGGTGTGTGCTCTGGCCTGCTTTGTAGAATATGGACCTGGGGAGATTCTTCGATTGAAGCCATCGGAGATCACTGCATTTGTCCCAAGTGATCTTCTAGCTCCCGGCGAGCGAGCCATTGAGAACTGGAGTCGCCTAATAGCTGCCACCTACGAGAAGAGCTCTTATGTCAAAGAAGAACAGAATGACCTGCTATTGGAGGCGCAGAAGAGAGCCAAGGAGGATATATGTCTGTTTGCACATCTCTCCTGGCCTATGAGGCACTCCCGACTGTTTGAAGTGGTTCGCAAAGAGGGACCAAAACTCCAAAGCGATGAACTTATGCTGGGCATTAATTCCGCGGGCCTTTTCCTTATCGACGAAACCGAACAGGTGCTGGCATCCTGTTGTTTTAGCGAGGTGCTGAAAGTGCACGTGGAATCAGATGATAAACTGCATGTTATGACCTTCCAACACGTCAATTTTGTGCTGCAGTGCAGCTCTGCTCAGGATGCCAACGAGGTGATAAACTATATGCTGGATAATCTCCGACAGCGTTCAAGCTATGGCGTAGCTCTTGATCCGGTCGTAGAGGGGGATCTAGAGGATTGTCTAGTGCTAAACCCCGGTGACCTAATCGAATTCGAGGCAGGTGTAACAGGTGCCCAGTTAATGGCTGGTAATGCACAAGACTGCTACAGGGGATGTGTCAATGGCCAGTGGGGTCAGTTTTTAGCTGGAAATGTTCGCGTTTTGGCCACGCTCACCAAGCCGAGTGAAAAACTTCAAGATATCCTCCGAGAAGGCCGATTTCAAGAACCCCCGAAACCAACTCCAAGAGCCAATTACTCTCGTCGTCGTCAACACAATATCTCTCAGCTGGCTGAGAGCCACTTTAGGGAGCCATTGGA
VastDB Features
Vast-tools module Information
Secondary ID
FBgn0040299:FBtr0079475:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.020 A=NA C2=0.070
Domain overlap (PFAM):
C1:
PF0078412=MyTH4=PU(18.7=20.0)
A:
NA
C2:
PF0078412=MyTH4=PD(80.4=16.8),PF093795=FERM_N=WD(100=16.4)
Main Inclusion Isoform:
NA
Main Skipping Isoform:
FBpp0079097
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
FBpp0079099
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:
GCTCAACGTTCCCACAAGTCA
R:
AGGAGCTCCGACTTGGGTTAA
Band lengths:
134-196
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)