Special

DmeINT0028497 @ dm6

Intron Retention

Gene
Description
The gene Target of rapamycin is referred to in FlyBase by the symbol DmelTor (CG5092, FBgn0021796). It is a protein_coding_gene from Dmel. It has 3 annotated transcripts and 3 polypeptides (2 unique). Gene sequence location is 2L:13004480..13013197. Its molecular function is described by 6 unique terms, many of which group under: binding; transferase activity; protein binding; transferase activity, transferring phosphorus-containing groups; protein serine/threonine kinase activity. It is involved in the biological process described with 34 unique terms, many of which group under: transmembrane receptor protein tyrosine kinase signaling pathway; enzyme linked receptor protein signaling pathway; cellular response to organic substance; positive regulation of wound healing; dendrite morphogenesis. 44 alleles are reported. The phenotypes of these alleles manifest in: plasma membrane bounded cell projection; neuron projection; cell projection; cell cycle; cellular process. The phenotypic classes of alleles include: cell size defective; phenotype; sterile; cell cycle defective. Summary of modENCODE Temporal Expression Profile: Temporal profile ranges from a peak of moderately high expression to a trough of moderate expression. Peak expression observed within 00-18 hour embryonic stages, during early pupal stages.
Coordinates
chr2L:13005067-13005997:+
Coord C1 exon
chr2L:13005067-13005287
Coord A exon
chr2L:13005288-13005430
Coord C2 exon
chr2L:13005431-13005997
Length
143 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAAT
5' ss Score
5.37
3' ss Seq
TTATATATTATTTTTTTCAGTAC
3' ss Score
7.06
Exon sequences
Seq C1 exon
AGTGCCTGATTAACTGCGAGGGCAGTCTTACTGCCAGGAAGGGCATTTCGCCCTATCTCAACCGCCTGCGCGATCTTCTGCTAATCAACGATGTGTCCGTCATGGAGATTGCCGCCCGCTCCCTGGTCAAATTGGCCAACATGCCCACCTCCAAGGGCGCCGATTCCTTCGACTTTGATATTAAGAAGGCTTTTGAGGTGCTCAGAGGCGAGAGACAAGAG
Seq A exon
GTGAATTATAAGGGAAACCTACAAATTAAGCTTTTAAGTCTGATTTTGAGATGAAGATGGAAAAACTTTATAATGAAAATGAAAATAGTAGTTGTAAGCATGGCTAGAGTTATCCAAATTCATTTATATATTATTTTTTTCAG
Seq C2 exon
TACCGCCGCCATTCAGCCGTCTTTATCCTCCGTGAGCTGGCTATCGCCTTGCCCACATACTTCTACCAGCACATCCTGACCTTCTTCGAGGTTATCTTTAACGCCATCTTCGATCCCAAACCTGCTATACGAGAGTCAGCTGGCGAGGCTTTGAGGGCGGCTTTGATTGTCACCGCTCAGCGAGAGAGCACCAAGCAGTCCAGTGAACCACAGTGGTACAGAATCTGCTATGACGAGGCGAATGGAAGCTTCAATGCAGACTTGGGCTCTAGCAAGGATCAGAAAGGCGTGACCCGAGACGATCGCATTCACGGTGGCCTCGTCGTCTTCAACGAGCTCTTTCGCTGTGCCAATGCCACCTGGGAGCGGCGCTACACGTCTCTGAAGACGCTGTTCCCCAAGACCCAACACAATAAGTTCCTGGAGGCCAGCAGTTCGTCGAGTATGGGTTCCCAGCTGAATACTCTAGTGCCGCGGCTAAAGGTGCCCTTCATTGACAAGCTCGGCAGCACCCAAACGCATTTGGGTGAGGGAGAGCATCACAAAGGAGTTGCCAAGTTCGCGAGC
VastDB Features
Vast-tools module Information
Secondary ID
FBgn0021796:FBtr0080422:2
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=0.051
Domain overlap (PFAM):

C1:
NO
A:
NA
C2:
NO


Main Inclusion Isoform:
NA


Main Skipping Isoform:
FBpp0307598


Other Inclusion Isoforms:
NA


Other Skipping Isoforms:
FBpp0080003
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:
CCTGCGCGATCTTCTGCTAAT
R:
AGAAGGTCAGGATGTGCTGGT
Band lengths:
242-385
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)