DmeINT0001803 @ dm6
Intron Retention
Gene
FBgn0035452 | CG10359
Description
This gene is referred to in FlyBase by the symbol DmelCG10359 (FBgn0035452). It is a protein_coding_gene from Dmel. It has 3 annotated transcripts and 3 polypeptides (2 unique). Gene sequence location is 3L:3612192..3615244. Its molecular function is described by: G protein-coupled receptor binding; chitin binding. It is involved in the biological process described with: G protein-coupled receptor signaling pathway. 4 alleles are reported. No phenotypic data is available. The phenotypic class of alleles includes: viable. Summary of modENCODE Temporal Expression Profile: Temporal profile ranges from a peak of high expression to a trough of extremely low expression. Peak expression observed within 18-24 hour embryonic stages, during late larval stages, during early pupal stages.
Coordinates
chr3L:3612192-3613205:+
Coord C1 exon
chr3L:3612192-3612492
Coord A exon
chr3L:3612493-3613074
Coord C2 exon
chr3L:3613075-3613205
Length
582 bp
Sequences
Splice sites
5' ss Seq
CGAGTGCGT
5' ss Score
5.03
3' ss Seq
TTTGTACTGCCATTCTCCAGAGC
3' ss Score
6.68
Exon sequences
Seq C1 exon
TCAGTTTCTTCGCAAACTTCAACCGGAACGGACGTATTGATCTCGGATTTTCCTTGGATCTTGCGTGGAACCAAGGATAGGTGTCAGATTCTCGATTTGTTTGCTTTGAGCGACGCGTAAACAAAGTGACATGATGAGGCCCCAATTAGCGGCCATAGCCACTGTCATGGTGCTGGCTGCGATCTGCGGTTTTGGCACTGGTTCCGTGCTGGAAGTACCCGGAGTCACCCAGGCACCACCACTCCCACCTCGTAACCTCCGAAACAACCAAACGCGGTCGCGCATTCCCAACAACTTCCGA
Seq A exon
GTGCGTTACAGTGAAAATACAGCACGCGATCGAAAGAACAAAAACACAACTTGCAAAATTGTAATTAAAAATTAAACTAAAATTCATAAATTTTTAACATCAAAAATAACTTAATGGTACTTAATACATATAAAAAACGTCGCTTAATAGAGTTCAGTATCACTTAGTGATTCATTGGTAAATTTGAAATGCTGACTAAAATAAAAAACAAAACAAACGCTATAAATATCATATGGTAAAATGACAAAATAGCAGAAAAAGAGAAGAGATGAATATAAAATATTTGACTCAAAAGCTTTGAAGAAGTGTTTTGAAGTGACATAAGCAACCTCAATTTGTGACAGAAATAAATACAAGAAAAATAAAATAAATTATCCCTTTGTTTGAAATGCAAAAATCCATTTTGCATAATGTGTGTTTGTTCTCTCGATCGCCCACTGTAATGTGAATTTTAAACTTGCCGACTGGCTGCTGACTTTTGGCCAGCAGGTTTCGTTTTGGCCAGAACAAGTTCAATGCGCTGGCCTCGTGTTTGCTTAATGTAGCGTCTCCCTTCTTTTTATTTGTACTGCCATTCTCCAG
Seq C2 exon
AGCATTGCGACCCCACCAATTGCTCCCAGATGCGACTACAAGGAGCTGATGACCAATCTGCACGATCGCGTTGGCATCTTGGTGACCTTGGACGAGGACCAGCGCCACCGGCTGGAAGTCATCGATAAGAA
VastDB Features
Vast-tools module Information
Secondary ID
FBgn0035452:FBtr0273204:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.500 A=NA C2=0.023
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Main Skipping Isoform:
FBpp0271712
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
FBpp0288729
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:
CTTGGATCTTGCGTGGAACCA
R:
GTCCAAGGTCACCAAGATGCC
Band lengths:
342-924
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)