DmeINT0034415 @ dm6
Intron Retention
Gene
FBgn0004657 | mys
Description
The gene myospheroid is referred to in FlyBase by the symbol Dmelmys (CG1560, FBgn0004657). It is a protein_coding_gene from Dmel. It has 5 annotated transcripts and 5 polypeptides (2 unique). Gene sequence location is X:8061645..8070237. Its molecular function is described by: protein heterodimerization activity; protein binding; extracellular matrix protein binding; integrin binding. It is involved in the biological process described with 36 unique terms, many of which group under: cell adhesion; biological adhesion; supramolecular fiber organization; actin cytoskeleton organization; embryo development. 161 alleles are reported. The phenotypes of these alleles manifest in: pigment cell; extracellular matrix; somatic mesoderm derivative; visceral muscle; cell-substrate junction. The phenotypic classes of alleles include: immune response defective; phenotype; cell shape defective; increased mortality. Summary of modENCODE Temporal Expression Profile: Temporal profile ranges from a peak of high expression to a trough of moderately high expression. Peak expression observed at stages throughout embryogenesis, during late larval stages, at stages throughout the pupal period.
Coordinates
chrX:8063840-8064761:+
Coord C1 exon
chrX:8063840-8064459
Coord A exon
chrX:8064460-8064532
Coord C2 exon
chrX:8064533-8064761
Length
73 bp
Sequences
Splice sites
5' ss Seq
TCAGTGAGT
5' ss Score
7.68
3' ss Seq
TGCTTATCAATACACCTTAGATG
3' ss Score
4.45
Exon sequences
Seq C1 exon
CCGGCGCACAGAAGCGACAGAGACAGAGCACACACAGCACCTGGCACATCCAAGGATATCCGATCCTCCTGCATCCCGAATCATCCACAACCTGCACCAACCGCTAACCGCCAAAGCCATGATCCTCGAGAGAAACCGGAGGTGCCAGCTGGCCCTCCTCATGATCGCAATACTGGCCGCCATCGCTGGACAAACGGATGCCCAGAAGGCGGCCAAACTGACGGCAGTGAGCACATGTGCATCGAAGGAAAAGTGTCACACCTGCATCCAGACAGAGGGTTGCGCCTGGTGCATGCAGCCGGACTTTAAGGGCCAGTCGCGGTGCTACCAAAACACCAGCTCACTGTGTCCGGAGGAGTTCGCCTACAGTCCGATAACAGTTGAGCAGATTCTAGTGAACAACAAACTAACGAATCAATACAAAGCTGAACTGGCGGCTGGTGGCGGCGGCTCCGCCATGTCCGGCAGCAGCTCAAGCTCCTACTCGTCGAGTTCGAGCTCGTCGAGCTTCTACTCGCAGAGCTCCTCGGGATCCAGTTCCGCCAGCGGATACGAAGAGTACTCTGCCGGCGAAATTGTCCAAATCCAACCGCAGTCCATGCGACTCGCATTGCGCGTCA
Seq A exon
GTGAGTAGCAAACGATTGCATCATCCATGTGACCTACAAACTAATCCCTTACTTGCTTATCAATACACCTTAG
Seq C2 exon
ATGAGAAACACAACATCAAGATTAGCTATTCCCAGGCGGAGGGATATCCGGTGGATCTCTACTACTTGATGGATCTCTCCAAATCTATGGAGGACGACAAGGCCAAATTGTCTACGCTGGGCGACAAGTTGTCCGAGACCATGAAACGCATCACCAACAATTTCCATCTTGGTTTCGGTTCGTTTGTGGACAAGGTGCTCATGCCCTATGTCTCGACCATTCCCAAAAA
VastDB Features
Vast-tools module Information
Secondary ID
FBgn0004657:FBtr0071105:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.018 A=NA C2=0.045
Domain overlap (PFAM):
C1:
PF0036213=Integrin_beta=PU(26.7=73.2)
A:
NA
C2:
PF0036213=Integrin_beta=FE(16.5=100)
Main Inclusion Isoform:
NA
Main Skipping Isoform:
FBpp0071061

Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
FBpp0309121, FBpp0309122, FBpp0309123
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:
TACTCTGCCGGCGAAATTGTC
R:
CCAGCGTAGACAATTTGGCCT
Band lengths:
181-254
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)