DmeINT0025384 @ dm6
Intron Retention
Gene
FBgn0003149 | Prm
Description
The gene Paramyosin is referred to in FlyBase by the symbol DmelPrm (CG5939, FBgn0003149). It is a protein_coding_gene from Dmel. It has 6 annotated transcripts and 6 polypeptides (3 unique). Gene sequence location is 3L:8732858..8745310. Its molecular function is described by: motor activity. It is involved in the biological process described with: myofibril assembly; mesoderm development; actomyosin structure organization. 21 alleles are reported. The phenotypes of these alleles manifest in: myofibril; somatic muscle; striated muscle myosin thick filament; sarcomere; trichogen cell. The phenotypic classes of alleles include: visible; phenotype; increased mortality; increased mortality during development. Summary of modENCODE Temporal Expression Profile: Temporal profile ranges from a peak of very high expression to a trough of very low expression. Peak expression observed within 12-24 hour embryonic stages, at stages throughout the larval period, during late pupal stages, in stages of adults of both sexes.
Coordinates
chr3L:8739367-8740451:-
Coord C1 exon
chr3L:8739580-8740451
Coord A exon
chr3L:8739495-8739579
Coord C2 exon
chr3L:8739367-8739494
Length
85 bp
Sequences
Splice sites
5' ss Seq
GAGGTGCGT
5' ss Score
8.42
3' ss Seq
AATAACCTATTATTAACCAGATG
3' ss Score
5.55
Exon sequences
Seq C1 exon
AGCCGAAAAGGACAAGGCCAAATTCCAGACCGAAGTCTACGAGCTGCTCTCCCAGATCGAGTCCTACAACAAGGAGAAGATCGTGTCGGAGAAGCACATCTCCAAACTGGAGGTCTCGATCTCCGAGCTCAACGTGAAGATCGAGGAGCTTAACCGCACCGTTATCGACATTAGCTCCCACCGATCCCGCCTCTCGCAGGAGAACATTGAGCTGACCAAGGACGTCCAAGATCTGAAGGTTCAGCTGGACACGGTCTCGTTCTCCAAGAGCCAGGTCATTTCCCAGCTGGAGGACGCCCGCCGTCGCTTGGAGGACGAGGACCGTCGTCGCTCGCTGCTCGAATCCTCTCTGCATCAGGTTGAGATCGAATTGGACTCGGTTCGTAATCAACTCGAGGAGGAGTCCGAGGCCCGCATCGACTTGGAACGTCAGTTGGTCAAGGCCAATGCCGATGCCACCTCCTGGCAGAACAAGTGGAACTCCGAGGTGGCTGCCCGCGCCGAGGAGGTCGAGGAGATCCGTCGCAAGTACCAGGTCCGCATCACCGAGCTGGAGGAGCACATCGAGTCCCTCATCGTCAAGGTCAACAATCTGGAGAAGATGAAGACGCGCCTGGCCAGCGAAGTGGAGGTGCTCATCATCGATCTGGAGAAGTCGAACAACAGCTGCCGCGAGCTGACCAAGTCGGTCAACACCCTCGAGAAGCACAACGTTGAGCTGAAGAGCCGTCTGGACGAGACCATCATCCTGTACGAGACCAGCCAGCGCGACCTGAAGAACAAGCACGCCGACCTCGTCCGCACTGTCCACGAACTGGACAAGGTCAAGGACAACAACAACCAGCTGACCCGCGAGAACAAGAAACTGGGAG
Seq A exon
GTGCGTTACCATACTAAAAGACTTTCACAATTGTATATTGTAGTTATCATGATATAATATTTAATAATAACCTATTATTAACCAG
Seq C2 exon
ATGATCTTCATGAGGCCAAGGGTGCCATCAACGAACTGAACCGTCGTCTGCACGAATTGGAACTGGAGCTGCGTCGTCTGGAGAACGAGCGTGATGAGCTGACCGCTGCCTACAAGGAAGCCGAGGCT
VastDB Features
Vast-tools module Information
Secondary ID
FBgn0003149:FBtr0076593:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.102 A=NA C2=0.349
Domain overlap (PFAM):
C1:
PF0157614=Myosin_tail_1=FE(34.0=100),PF0003816=Filament=WD(100=86.6),PF093045=Cortex-I_coil=WD(100=35.3),PF0003816=Filament=PU(70.9=51.7),PF0003816=Filament=PU(12.8=12.0)
A:
NA
C2:
PF0157614=Myosin_tail_1=FE(4.9=100),PF0003816=Filament=PD(0.1=0.0),PF0003816=Filament=FE(19.7=100),PF0003816=Filament=FE(15.3=100)
Main Inclusion Isoform:
NA
Main Skipping Isoform:
FBpp0076320
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
FBpp0076321
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:
TCATCCTGTACGAGACCAGCC
R:
AGACGACGGTTCAGTTCGTTG
Band lengths:
178-263
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)