DmeINT0011508 @ dm6
Intron Retention
Gene
FBgn0261698 | CG42732
Description
The gene slowpoke 2 is referred to in FlyBase by the symbol DmelSLO2 (CG42732, FBgn0261698). It is a protein_coding_gene from Dmel. It has 10 annotated transcripts and 10 polypeptides (9 unique). Gene sequence location is 2R:10322195..10416996. Its molecular function is described by: calcium-activated potassium channel activity; outward rectifier potassium channel activity; intracellular sodium activated potassium channel activity. It is involved in the biological process described with: potassium ion transmembrane transport; potassium ion transport. 21 alleles are reported. The phenotypes of these alleles manifest in: mesothoracic tergum; ganglion mother cell; trichogen cell. The phenotypic classes of alleles include: phenotype; increased mortality; increased mortality during development; some die during P-stage.
Coordinates
chr2R:10333633-10335161:-
Coord C1 exon
chr2R:10334896-10335161
Coord A exon
chr2R:10333945-10334895
Coord C2 exon
chr2R:10333633-10333944
Length
951 bp
Sequences
Splice sites
5' ss Seq
CTGGTGGGT
5' ss Score
6.29
3' ss Seq
ATCATCGACTATGACAACAGCCA
3' ss Score
0.02
Exon sequences
Seq C1 exon
ATATGGAGTGGCCCTGGTGGGCGTGCGACCGGCGGAGCTGCCGGAATTCTACGAGGAAACCATTCTATTGAATCCCGGACCCAGGCACATTATGAAAAAGGATGACACGTGCTATTACATGAGCATCACCAAGGAAGAGAATTCCGCATTTGTCGTTAATCAAAATCAAACATCGGACCCCACGGCAGCTGCCAAGGAGGGGAGCGGGACAGGGGGCGGAGGCGGTGCCTCCTCATCCGCCTCCCACCACCACACTGCTGCAACTG
Seq A exon
GTGGGTAGACCCTTTCTTTAGACCCAATTGTGTGAGTGTGTGTGTGTGTGTGTGTGTTTGAGTCTCAATCATTTAAAATTCAAGCGAGTGAATGAACAAACTACTATGTATATCCATTTACATAAAAACATAAATATCATATATATAAATTGTGAGCTTCCTTATTTAGCAACCAGTTCTTGCTCTACCTCTCTCTTTTTCTTCCCTCTTCTTATATTTATCCAATAATCCTTATTTCTGAGGCTGAGTTAAAAGTTTTCATTGTCGTTATCCTCGACTTTTCAGTTTGTTTGGTTTGTCTGAATGAAAAGAAAACGCTTTAAGTGTGTGTTTGTGAGCGAGGCTGCCTCACATTAACGTTAATCATAATATTCGCCTTGCCCGAATTCGTTTTCTCTTTTTTAAGTTTGTGAAACTTTCCACCTTAATCATTTTGTATGGGTTCCATTTTGTTAATTAACTTATTCCCACGAGGAAGTTACTTAAGCGCTTAATTTTCCTTTACGAAATATGTATGAAAACCAATGCAACTTTTCAGAACTGAAACAGAACACGCTTTTAGGTCCTAGAGGCAATGTCCTTTACATTAAACTTAGTTTCATATACGACCCAATAGGATTTTATATTTTTAGGATAGATTGTGTCTTAAGACCAACACACACACACTCAATCACAATTCTGGATTAACAATAACTCGCCACTCAAACTGATATACCATTAGAAAAGAGTTTAGGCCCAATTTCCGTTTCCGTTTTCGATCAAATTTAAGATGATTCAAGAATCATCAATGTAAGCTTGATCGACTTGGAAAAGCGGAAGAGGGGCTGGGGGAAACTAGTGCAGAGTTTCCATTATGTAGACCACATAAACCCTAGTTTTATCCTTTTATGTTATGTATGAATGTCTAAGTACAACAATAACAATAAACTACATCATCGACTATGACAACAG
Seq C2 exon
CCAACCCAACAACAACAATAACAACAACAGTACAAGCAACAACAACAACAATTAGCACCACCTTCACATCATCAACATTACTATCAGCATCAACAACAACAGCAACAATAAATGCAACCTCAACCGCCGCAGCCGCACCACCACCAGTGCCGTCTGTTTGTGTGCGTGTGCCCCACAGTCCCAGTTACGATAGTGGTGGTGGCACCACCGGCACCACCCACTTGCAACCGTATCCGTATCCGCAATCGTATCCGCAACCGCATCCGCCAATGCAAACACCTGACAGTGGCGAGTTTGCATCACTATTTGTGC
VastDB Features
Vast-tools module Information
Secondary ID
FBgn0261698:FBtr0303080:14
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.465 A=NA C2=0.914
Domain overlap (PFAM):
C1:
PF0349313=BK_channel_a=PD(8.5=10.0)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Main Skipping Isoform:
FBpp0292199
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:
CGGACCCAGGCACATTATGAA
R:
ACAAACAGACGGCACTGGTG
Band lengths:
352-1303
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)