Special

DmeINT0031234 @ dm6

Intron Retention

Gene
Description
The gene dumpy is referred to in FlyBase by the symbol Dmeldpy (CG33196, FBgn0053196). It is a protein_coding_gene from Dmel. It has 17 annotated transcripts and 17 polypeptides (16 unique). Gene sequence location is 2L:4477462..4614300. Its molecular function is described by: zinc ion binding; DNA-binding transcription factor activity; extracellular matrix structural constituent; calcium ion binding. It is involved in the biological process described with 6 unique terms, many of which group under: cuticle development; RNA biosynthetic process; chitin-based cuticle attachment to epithelium; chitin-based embryonic cuticle biosynthetic process; regulation of cellular macromolecule biosynthetic process. 332 alleles are reported. The phenotypes of these alleles manifest in: epidermal cell; cephalic branch; mesothoracic tergum; adult abdomen; adult trachea. The phenotypic classes of alleles include: increased mortality during development; phenotype; modifier of variegation; lethal. 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 06-24 hour embryonic stages, at stages throughout the larval period, at stages throughout the pupal period, in stages of adults of both sexes.
Coordinates
chr2L:4563111-4564189:-
Coord C1 exon
chr2L:4563680-4564189
Coord A exon
chr2L:4563468-4563679
Coord C2 exon
chr2L:4563111-4563467
Length
212 bp
Sequences
Splice sites
5' ss Seq
AGGGTAAGT
5' ss Score
10.45
3' ss Seq
TTAATGCCTAACGCCGGCAGATG
3' ss Score
4.03
Exon sequences
Seq C1 exon
ACATTGACGAATGCCAAGATCCCGCGATAGCAGCGCGATGCGTGGAGAACGCCGAGTGCTGCAACCTGCCGGCGCACTTCCTCTGCAAGTGCAAGGATGGATACGAGGGCGACGGCGAAGTTCTGTGCACGGATGTGGACGAGTGTCGCAATCCGGAGAACTGCGGTCCCAACGCTCTGTGCACCAACACGCCGGGCAATTACACATGCTCCTGCCCGGACGGCTATGTGGGCAACAATCCGTATCGGGAGGGATGCCAGGATGTGGACGAGTGCTCGTACCCGAATGTCTGCGGACCCGGTGCCATATGTACGAATCTCGAGGGCAGTTATCGCTGCGACTGCCCGCCGGGATACGACGGCGATGGACGCTCGGAGTCCGGTTGCGTGGATCAGGATGAGTGCGCACGGACGCCCTGCGGCCGGAACGCGGATTGTTTGAACACGGACGGCAGCTTCCGCTGCTTGTGTCCGGACGGCTACAGTGGTGATCCCATGAACGGCTGCGAGG
Seq A exon
GTAAGTGGAGTAGCTAGAGATTATGCAAATTAATATAAGCTCATTGTTCCATTTTGGTTATTTTTTGCACTTTTGTTTTTTGAACTTGAATTGGCGGCACCTTCAACATACGAACAAACACCTACACACACATAATTATTATTACTATAATCGTACATTAATGCACCGCAACATGCAACATTAATACAACAATTAATGCCTAACGCCGGCAG
Seq C2 exon
ATGTCGATGAATGCGCCACTAACAATCCATGCGGTTTGGGTGCTGAATGCGTGAACCTGGGCGGTAGCTTCCAGTGCCGCTGTCCCTCCGGCTTTGTGTTGGAGCACGATCCGCACGCGGATCAGTTGCCCCAGCCGCTGAACACCCAACAATTGGGCTACGGGCCGGGGGCGACGGACATTGCGCCCTATCAAAGGACCTCCGGCGCCGGTCTGGCATGCCTGGACATCGATGAGTGCAATCAGCCGGATGGAGTGGCCAAGTGCGGCACCAATGCCAAGTGCATTAACTTTCCCGGCTCATACCGCTGCCTGTGTCCGAGTGGATTCCAAGGACAGGGCTATTTGCACTGCGAGA
VastDB Features
Vast-tools module Information
Secondary ID
FBgn0053196:FBtr0332355:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact

ORF disruption upon sequence inclusion

No structure available
Features
Disorder rate (Iupred):
  C1=0.000 A=NA C2=0.133
Domain overlap (PFAM):

C1:
PF126622=cEGF=PD(13.6=1.8),PF129472=EGF_3=WD(100=19.3),PF0764510=EGF_CA=WD(100=24.6),PF0764510=EGF_CA=WD(100=24.6),PF0764510=EGF_CA=WD(100=22.8),PF0764510=EGF_CA=PU(0.1=0.0)
A:
NA
C2:
PF0764510=EGF_CA=WD(100=35.0),PF0764510=EGF_CA=WD(100=35.8)


Main Inclusion Isoform:
NA


Main Skipping Isoform:
FBpp0304622


Other Inclusion Isoforms:
NA


Other Skipping Isoforms:
FBpp0293671, FBpp0293672, FBpp0304620, FBpp0304621, FBpp0304624, FBpp0304625, FBpp0304626, FBpp0304628, FBpp0304629, FBpp0304630, FBpp0304631, FBpp0304632
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:
GTGCTCGTACCCGAATGTCTG
R:
TTCACGCATTCAGCACCCAAA
Band lengths:
294-506
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)