DmeINT0007917 @ dm6
Intron Retention
Gene
FBgn0051100 | CG31100
Description
This gene is referred to in FlyBase by the symbol DmelCG31100 (FBgn0051100). It is a protein_coding_gene from Dmel. It has 3 annotated transcripts and 3 polypeptides (2 unique). Gene sequence location is 3R:8995229..9003650. Its molecular function is described by: carbohydrate:proton symporter activity. It is involved in the biological process described with: glucose import. 5 alleles are reported. No phenotypic data is available. The phenotypic classes of alleles include: fertile; some die during larval stage; partially lethal; viable. Summary of modENCODE Temporal Expression Profile: Temporal profile ranges from a peak of moderately high expression to a trough of extremely low expression. Peak expression observed within 12-24 hour embryonic stages, at stages throughout the larval period, during early pupal stages.
Coordinates
chr3R:9000044-9000544:-
Coord C1 exon
chr3R:9000287-9000544
Coord A exon
chr3R:9000181-9000286
Coord C2 exon
chr3R:9000044-9000180
Length
106 bp
Sequences
Splice sites
5' ss Seq
CGGGTAAAA
5' ss Score
5.16
3' ss Seq
AACACACTTTTCCGTTGCAGCTC
3' ss Score
9.53
Exon sequences
Seq C1 exon
GTTTTGCCACTTAGCACTCACCGTCGAAACCATCGATAAATAATGATAATTGTCAATAACAATGGCCAAATGATTACCAACTGAGTGAAAAGAGCCACAGTTCGATCGAAATACGTGAACCTTGCGCACAAAACAGGGACTAGCAGCAGCCACTTGAGCAAACAGAAAGGTGCATTAAGTATACGCCGCGCATCAAGTATACGCAGCGATGTCCAATGGCAAGGCCGCCACAGCTGGCGCAACAGCTGAGAAAAACGG
Seq A exon
GTAAAATCGCATAATGTGCACCACACAGTTCTCGCTCAGACAATAAACCATAGTTAATTGCCAGCTCAAAACTAATCGAATGAAAAAACACACTTTTCCGTTGCAG
Seq C2 exon
CTCGCTGAACGATCGGCCATTGTTTATGCAAAATGGCAACGGCGGACGCATTGCGACCAGCGATGTGGAAGTCAGCAACTTCCGACGCGCCCTCCCACAGTTTTTAGCTGTTAGTATTAAGAACATATTGCTATTCG
VastDB Features
Vast-tools module Information
Secondary ID
FBgn0051100:FBtr0082011:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.412 A=NA C2=0.021
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0008319=Sugar_tr=PU(3.3=25.5)
Main Inclusion Isoform:
NA
Main Skipping Isoform:
FBpp0081489
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
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:
GAACCTTGCGCACAAAACAGG
R:
AGCTAAAAACTGTGGGAGGGC
Band lengths:
251-357
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)