DmeINT0034504 @ dm6
Intron Retention
Gene
FBgn0004118 | nAChRbeta2
Description
The gene nicotinic Acetylcholine Receptor beta2 is referred to in FlyBase by the symbol Dmel
AChRbeta2 (CG6798, FBgn0004118). It is a protein_coding_gene from Dmel. It has 3 annotated transcripts and 3 polypeptides (2 unique). Gene sequence location is 3R:24509228..24515106. Its molecular function is described by: acetylcholine-gated cation-selective channel activity; neurotransmitter receptor activity; transmembrane signaling receptor activity. It is involved in the biological process described with 7 unique terms, many of which group under: cellular process; biological regulation; cell communication; response to stimulus; synaptic signaling. 19 alleles are reported. The phenotype of these alleles manifest in: chaeta. The phenotypic classes of alleles include: flight defective; chemical resistant; visible; lethal; viable. 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 12-24 hour embryonic stages, during early larval stages, at stages throughout the pupal period.
Coordinates
chr3R:24511484-24513822:-
Coord C1 exon
chr3R:24513695-24513822
Coord A exon
chr3R:24511660-24513694
Coord C2 exon
chr3R:24511484-24511659
Length
2035 bp
Sequences
Splice sites
5' ss Seq
AAGGTAACA
5' ss Score
8.92
3' ss Seq
TGTAAACATTTCGTTGACAGGTT
3' ss Score
7.24
Exon sequences
Seq C1 exon
ATATCACATTTAAGTTGACCATGCGGCGTAAGACCTTGTTCTATACCGTTAATTTGATTGTGCCATGTGTGGCTTTAACATTCCTCACGGTGTTGGTCTTTTATTTGCCCAGCGATTCGGGCGAAAAG
Seq A exon
GTAACAAAGATGGATCCTCCAAATTCAATGATCAAAAATCTGAGAGTGATACCTTCTTTTTTGTGGCACGTAGCATGTTTTTGTTAATTTTAACACGTAGAATTAGATTTCCTATAGCTTAGAAAACTGAAAAATAGCTTTTGTACATATGCTTTCTTTATTTTTATTAAATTTATATTTTTAAAATAATTTTGTGAAGTAATTTCAAATGCAAATTCACTTAAGTGTACTCCCTATAACTTAAAACACTCAAAAACATTGACTCTACAATGAACCTATACCTTAGATGAGCTATCTTTTTCATATGCACAAATCGAACTCCTTTCAATTACTTTAACTATCACTCCCCAATCTTTCAAGTCTTGCTAAGTCAGCTATCCTAAAGCTGAGCTCTTGCATTCCCTAGCCAGATACTACAAATTCTAAATTGGCTTTTAAAAACAAATATTTTAAACGAACACTATCCAAATTCTTTCCGAGAAGAGCTCAACTTGAACTTCCTGCTCTTTCCAATCTTAAACTCTCTCTATTTTACGCTCCAATTTTGTAACTAATGTGTATATCATAATGATATTTAGCTTTTTCTATCTATCCATCAAATAATCAGCTCCGCATTCGCAGCAGCAACTATCAGAATTTTTGAAAGCAGCACACAGATATTTACGTCTCAGAAAATATATATGAATATATCATACATATGTATATCGTGTACACCACATTTTTTGCTGAATATCATGTGTGCTGTCCTGAGTTGAGAAATCTCATAACGTAAATTTTCATCGAATGCATACAAATGCGCAATCGATATCGACATTGAACCCAATCCGAATCGAGTCGTATTCAAAATGTCAAAAAGCCACTCGCAAAATTTTCCATATCGCGTATCTTGTAATTAAGCAGCGCACTCACACACCCGCTCACTGAAACACACACACACACACACACCTAGGACACCTGCATTCAGCACAGGCACACCTACACCTACATACACATTCACTTTATAAACACACACTAACAAACACGTACTGGACTCGTGCAGTTTGTTGTTGAATTCATTTTATCGTTGCCCTAGAGTTTGTTCGTTCAGTCGTATTGCTCAAGTAAAGATACAATACATACATGCTTCCCATCGAGATTGATATAATATATAAACCCGATATGAATCAAAAAGAAGATTATTCAGTTTTTTAAATAGCATGTAATACACCTGAAATTTTTAAGGTTTTTAAGCAAAGTAAGATTGCCGTGGAATAATATATTTCGTAGTAGATACTTACTGCTTTCTGGGTTCCATATAGATATTCATTTCGTACTGTTAAATTTAATAGAAAAGATTTTAAAGCAATGTAACTTTAAAAATTTAAAATTCCAAAATTTGAACAACACAGGAATTTAATACAAAGTGATTCAATATAACATTTTTTGTATCAAAAACTTAACCACTTAAAAACTTCGAAGAAAAAGATACACAGTGAATCTTTTGATTGACACAGATACACTCGTACTCAGAAAGTTCACATGTAAACGTAGTAAAATGCGCTTTGTTCCTTTGATTTGTTGGTGTTGATTGTTTTCGTGTAAACTTCGAATGATTGATTGATGTGGGTAGGTGCAGGATGTCCCATCCCCATAGATTGTGCGTTCGCGAGTGTGTTAGTTGTGGGTCTTTAGCTTAGTCACAGGATACGCGATGCAGTCCTGAAGTACGTAGCCATTTCGTTGTTTAAGACCAATTGTTTGTTAAAGTATTCGTATGTTTATTTTAAGGCCTTGGAGTGTTAATATTACAATATATATTATCTCCCTGGCCAATCATATTTTTCGTACCAGTAATTGGCTTTATTAATTAAACAAATTATTATGATTGTGTTTTCATTTGGTTGTTGTTATGTGTTCAATGTCGTTGTTGGTTGATTGTTGGTTTGATTGTTTGACTGTTTGACCGTTTGATGGCTCGTGTATCTGTCGGATCGAGTGGGTAGCGATAGCCGAGAGATATCGACAGGTGGAAATTGTGTAAACATTTCGTTGACAG
Seq C2 exon
GTTACGTTATGTATTTCGATACTCGTGTCGTTGACCGTGTTTTTCCTGCTCTTGGCCGAAATTATCCCCCCAACCTCGTTGGCCGTGCCCCTGCTGGGCAAGTACCTTCTCTTTACCATGATACTCGTCTCGCTATCCGTTTGGACGACGGTCTGCGTGCTGAACATCCATTTCAG
VastDB Features
Vast-tools module Information
Secondary ID
FBgn0004118:FBtr0084681:6
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=0.000
Domain overlap (PFAM):
C1:
PF0293118=Neur_chan_LBD=PD(5.1=25.6),PF0293211=Neur_chan_memb=PU(10.5=55.8)
A:
NA
C2:
PF0293118=Neur_chan_LBD=PD(5.1=15.3),PF0293211=Neur_chan_memb=WD(100=38.9)
Main Inclusion Isoform:
NA
Main Skipping Isoform:
FBpp0084061
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:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
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)