Special

DmeINT0034416 @ dm6

Intron Retention

Gene
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:8064533-8065532:+
Coord C1 exon
chrX:8064533-8064761
Coord A exon
chrX:8064762-8065447
Coord C2 exon
chrX:8065448-8065532
Length
686 bp
Sequences
Splice sites
5' ss Seq
AAAGTGAGT
5' ss Score
8.4
3' ss Seq
GAATCGAATCGAATCCATAGACT
3' ss Score
2.18
Exon sequences
Seq C1 exon
ATGAGAAACACAACATCAAGATTAGCTATTCCCAGGCGGAGGGATATCCGGTGGATCTCTACTACTTGATGGATCTCTCCAAATCTATGGAGGACGACAAGGCCAAATTGTCTACGCTGGGCGACAAGTTGTCCGAGACCATGAAACGCATCACCAACAATTTCCATCTTGGTTTCGGTTCGTTTGTGGACAAGGTGCTCATGCCCTATGTCTCGACCATTCCCAAAAA
Seq A exon
GTGAGTATGACCTACATAAATGTGAAGGAAAACCATGAATTGGAAATAGTTCTACAAATTTTGCTGATTGAAGATGATGCCAGATGCCGTCAGTTGATGGTGCATTTCTTTAAGGCCTATTAAATTATTGTATTTATATATTATATTATACAGCGTATTTGACTTGTTAAAATTATGATTTGTCTATTGTAGCGTACAATAGCCCCTCTAGTCATGACAATGTGCTTATGATTCAAATAGCGAATCAAATTAAGTTTATTTTTAAGTGATGCTACTTTCCAGAAACTCTGCAATAGTCATATCCTATTTGTCAGCGCTTTTGCAGGCAGCACTGCCGCTTGACTTTCGAAAAAAAAAAAAAAAAAAACTCAAATTGATAATGATTGATAAAATTGATAACACCATCACCTTATCAATATAGAATTCCAAAACAATTTCCTCTTGCTAACTGTAGAACGAAATACATAAATTCCTAACCCATTGGCTCTATAAAATTGAAAGTGCAGCTCAACATTCTGTGTATCCCAATGCTGCTCTATATGTTTAATTTTGAGCTAATTTTATCTAATTTAACATACCACATACAGCCGCTAACTTTGTTTAATATTTATATACTTACAACCAAACCATGAACGAACACCAACAAAACAACATCAACGCTCGACGGAATCGAATCGAATCCATAG
Seq C2 exon
ACTCGAGCATCCATGCGAAAACTGCAAGGCTCCCTATGGTTACCAAAATCACATGCCACTCAACAATAACACCGAAAGCTTCTCT
VastDB Features
Vast-tools module Information
Secondary ID
FBgn0004657:FBtr0071105:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact

ORF disruption upon sequence inclusion

No structure available
Features
Disorder rate (Iupred):
  C1=0.045 A=NA C2=0.276
Domain overlap (PFAM):

C1:
PF0036213=Integrin_beta=FE(16.5=100)
A:
NA
C2:
PF0036213=Integrin_beta=FE(6.1=100)


Main Inclusion Isoform:
NA


Main Skipping Isoform:
FBpp0071061


Other Inclusion Isoforms:
NA


Other Skipping Isoforms:
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:
TGAGAAACACAACATCAAGATTAGCT
R:
AGAGAAGCTTTCGGTGTTATTGT
Band lengths:
313-999
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)