DmeINT0025484 @ dm6
Intron Retention
Gene
FBgn0014870 | Psi
Description
The gene P-element somatic inhibitor is referred to in FlyBase by the symbol DmelPsi (CG8912, FBgn0014870). It is a protein_coding_gene from Dmel. It has 6 annotated transcripts and 6 polypeptides (3 unique). Gene sequence location is 2R:16861321..16867714. Its molecular function is described by: protein binding; mRNA binding. It is involved in the biological process described with 7 unique terms, many of which group under: negative regulation of mRNA splicing, via spliceosome; reproductive process; heterocycle biosynthetic process; multi-organism reproductive process; male gamete generation. 16 alleles are reported. The phenotypes of these alleles manifest in: spermatid; onion stage spermatid; testis; seminal vesicle; trichogen cell. The phenotypic classes of alleles include: some die during larval stage; lethal - all die before end of prepupal stage; phenotype; mating defective. Summary of modENCODE Temporal Expression Profile: Temporal profile ranges from a peak of high expression to a trough of moderate expression. Peak expression observed within 00-12 hour embryonic stages.
Coordinates
chr2R:16864569-16865329:-
Coord C1 exon
chr2R:16865092-16865329
Coord A exon
chr2R:16865034-16865091
Coord C2 exon
chr2R:16864569-16865033
Length
58 bp
Sequences
Splice sites
5' ss Seq
AAGGTGGGT
5' ss Score
8.23
3' ss Seq
TATAATTATAACATTAGCAGCAG
3' ss Score
0.01
Exon sequences
Seq C1 exon
ACAAATGGGATGCCATCGTGAGGCTGAAATGATCGAGCAGCAAATGAAGGCCAAACAGGCGGGCGGCTCCTCCGGTCCTGTCCAGCAGCAACAACCCCAACAGCAGCAACAGTCCCAGCAGCAGACAGGAGGCGCCGGTGCCGGAGGAGCGGACTACAGTGCCCAGTGGGCGGAGTACTATCGCAGCGTGGGCAAGATTGAAGAAGCTGAGGCAATCGAAAAGACATTAAAGAATAAG
Seq A exon
GTGGGTGGAAAGCCATCCTTTCTATACAATATTATCTATATAATTATAACATTAGCAG
Seq C2 exon
CAGAACGGATCTGGTGGCCAGAGCAGTACGCCGAATCCCAGCCAGGGCGGCTCCGGCCAGCAGCAGCCCAATCCCGCTGCGGCGGCGGCGGCAGCAGCTGCTGCTGCAGCGGCGGCCGGTGGTTATGGCCAGAGCATGACGCCCACTCAGTATGCACAGTATTCGCAGTATTATGCAGCTGCTGCTGCAGCTGGTGGTCAGCCCCAGGGAGCGCCTCAGCCCGGCGGAGGGCAGAGCGGTGGTCCGCCGGGCAACTATCCTGGCAATTATCCGGGCGCTGGTTACGGCGGCTATCCCGGTGCGCCGGGCCAACAGCAGCAGAAATCGCACAAAAACGACAATCACTGAGGACGTTCGGATGTATCGGAATCGTCGGTAGGGGGAAGGAGGTGTATGTGGGAGTGGAAGCGAACGCCGAAGTGGAAGATGCTGCGGGTTGAGGACGATGCAGGTGCCTTGAATGGG
VastDB Features
Vast-tools module Information
Secondary ID
FBgn0014870:FBtr0087073:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.700 A=NA C2=0.878
Domain overlap (PFAM):
C1:
PF090055=DUF1897=PD(47.4=22.5),PF090055=DUF1897=WD(100=47.5)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Main Skipping Isoform:
FBpp0086220
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
FBpp0086221
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:
CGGAGGAGCGGACTACAGTG
R:
GATTCGGCGTACTGCTCTGG
Band lengths:
134-192
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)