DmeINT0002369 @ dm6
Intron Retention
Gene
FBgn0037280 | CG1126
Description
The gene Bardet-Biedl syndrome 5 is referred to in FlyBase by the symbol DmelBBS5 (CG1126, FBgn0037280). It is a protein_coding_gene from Dmel. It has 2 annotated transcripts and 2 polypeptides (1 unique). Gene sequence location is 3R:4816318..4817776. Its molecular function is described by: phosphatidylinositol-3-phosphate binding. It is involved in the biological process described with: cilium assembly; intracellular transport. 2 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 low expression to a trough of extremely low expression. Peak expression observed within 06-18 hour embryonic stages.
Coordinates
chr3R:4816318-4816635:+
Coord C1 exon
chr3R:4816318-4816428
Coord A exon
chr3R:4816429-4816486
Coord C2 exon
chr3R:4816487-4816635
Length
58 bp
Sequences
Splice sites
5' ss Seq
ACTGTAAGT
5' ss Score
8.59
3' ss Seq
ATTGGAGAGATTCGTTTCAGGCA
3' ss Score
-2.75
Exon sequences
Seq C1 exon
TAGTTGTCTCGGAAAAATGTTAAAGTCGCTAGCTCCGATCGAAGGAAACCAACAGCCCGTGCTGCAGTTGCTCTGGGAGGACAAGGAGGTCAAATTTGATGTGCCTCAACT
Seq A exon
GTAAGTAGACGCTAATTTAATTGGTTTTTGGACCCTCAATTGGAGAGATTCGTTTCAG
Seq C2 exon
GCACAAGAACCTGCGGAGCGGAGAACGAGTGCTCGACTACATTTACCACATCGAAGACAGCAAAGGAAATCCGGGGGACACTGGTCGCCTGATGGTAACCAATTTGCGAATTATATGGCACTCGCTGGTCCACAAGAAGTACAATCTGT
VastDB Features
Vast-tools module Information
Secondary ID
FBgn0037280:FBtr0078872:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF072896=DUF1448=PU(3.9=43.8)
A:
NA
C2:
PF072896=DUF1448=FE(14.0=100)
Main Inclusion Isoform:
NA
Main Skipping Isoform:
FBpp0078512
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:
CTGGGAGGACAAGGAGGTCAA
R:
GTTACCATCAGGCGACCAGTG
Band lengths:
138-196
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)