Caenorhabditis elegans gene aap-1, encoding phosphoinositide 3-kinase AGE-1 AdAPter subunit.
SUMMARY back to top
[Wormbase] aap-1 encodes the C. elegans ortholog of the phosphoinositide 3-kinase (PI3K) p50/p55 adaptor/regulatory subunit; AAP-1 negatively regulates lifespan and dauer development, and likely functions as the sole adaptor subunit for the AGE-1/p110 PI3K catalytic subunit to which it binds in vitro; although AAP-1 potentiates insulin-like signaling, it is not absolutely required for insulin-like signaling under most conditions.
Wormbase predicts one model, but Caenorhabditis elegans cDNA sequences in GenBank, dbEST, Trace and SRA, filtered against clone rearrangements, coaligned on the genome and clustered in a minimal non-redundant way by the manually supervised AceView program, support at least 2 spliced variants

AceView synopsis, each blue text links to tables and details
Expression: According to AceView, this gene is expressed at high level, 3.2 times the average gene in this release, at all stages, mostly from L1 larvae to adult [Kohara cDNAs], the transcript accumulates in the adult gonad and in early embryos [Kohara in situ hybridisations]; the GFP fusion protein is seen at some level in all tissue, especially neurons and intestine; gonad was not tested by the method [Wolkow, 2002]. The gene is transpliced to SL2, and would be second in an operon with gene 1F675, itself encoding a protein conserved among bilateria, possibly a MAPK activating protein. The expression profile for the gene, derived from the proportion of animals at each stage in each Kohara library is: embryos 2%, L1 or L2 larvae 58%, L3 to adult 40%. See the in situ hybridization pattern in Kohara NextDB. The sequence of this gene is defined by 14 cDNA clones and 28 elements defined by RNA-seq, some from l1 (seen 4 times), l2 (4), mixed (2).
Alternative mRNA variants and regulation: The gene contains 5 distinct gt-ag introns. Transcription produces 2 alternatively spliced mRNAs. Variant a is transpliced to SL2, SL1, SL3, SL4. There are 2 probable alternative promotors and 2 validated alternative polyadenylation sites (see the diagram). The mRNAs appear to differ by presence or absence of a cassette exon, overlapping exons with different boundaries. 117 bp of this gene are antisense to spliced gene 1F670, 409 to chp-1, raising the possibility of regulated alternate expression.
Function: There are 4 articles specifically referring to this gene in PubMed. In addition we point below to 3 abstracts. This gene is associated to a phenotype (constitutive DAuer Formation, long-LIved and Viable after thermal stress, potentiates insulin-like signaling). Proteins are expected to have molecular function (protein binding activity) and to localize in nucleus. These proteins appear to interact with other proteins (AGE-1, PAL-1). The gene interacts with 2 other genes (AGE-1, DAF-2).
Protein coding potential: The 2 spliced mRNAs putatively encode good proteins, altogether 2 different isoforms (1 complete, 1 partial), some containing SH2 motif [Pfam], a vacuolar domain, a coiled coil stretch [Psort2].

Please quote: AceView: a comprehensive cDNA-supported gene and transcripts annotation, Genome Biology 2006, 7(Suppl 1):S12.
Map on chromosome I, links to other databases and other names
Map: This gene aap-1 maps on chomosome I at position -0.38 (interpolated). In AceView, it covers 2.34 kb, from 5107846 to 5110182 (WS190), on the direct strand.
Links to: WormBase, NextDB, RNAiDB.
Other names: The gene is also known in Wormgenes/AceView by its positional name 1F677, in Wormbase by its cosmid.number name Y110A7A.10, in NextDB, the Nematode expression pattern database, as CEYK6865.
Closest AceView homologs in other species ?
The closest human gene, according to BlastP, is the AceView gene PIK3R1 (e=2 10-31).
The closest mouse gene, according to BlastP, is the AceView gene Pik3r1 (e=2 10-31)
          Complete gene on genome diagram: back to top
Please choose between the zoomable GIF version., and the HTML5/SVG version.
This diagram shows in true scale the gene on the genome, the mRNAs and the cDNA clones.
Compact gene diagram back to top
Gene aap-1 5' 3' encoded on plus strand of chromosome I from 5,107,846 to 5,110,182 a b 1kb 0 174 bp exon 174 bp exon 47 bp [gt-ag] intron 12 GenBank accessions 260 bp exon 181 bp [gt-ag] intron 12 GenBank accessions 266 bp exon 227 bp [gt-ag] intron 9 GenBank accessions 432 bp exon 80 bp [gt-ag] intron 14 GenBank accessions 670 bp exon 41 accessions, some from l1 (seen 4 times) l2 (4), mixed (2) Transpliced 5' end, 7 accessions Validated 3' end, 34 accessions Validated 3' end, 69 accessions 670 bp exon 256 bp exon 256 bp exon 33 bp uORF 256 bp exon 256 bp exon 674 bp [gt-ag] intron 1 GenBank accession 429 bp exon 1 accession 429 bp exon Alternative mRNAs are shown aligned from 5' to 3' on a virtual genome where introns have been shrunk to a minimal length. Exon size is proportional to length, intron height reflects the number of cDNAs supporting each intron, the small numbers show the support of the introns in deep sequencing (with details in mouse-over) . Introns of the same color are identical, of different colors are different. 'Good proteins' are pink, partial or not-good proteins are yellow, uORFs are green. 5' cap or3' poly A flags show completeness of the transcript.
Sequences: click on the numbers to get the DNA back to top
mRNA variant mRNA matching the genome Best predicted protein 5' UTR 3' UTR uORF Upstream sequence Transcription
Downstream sequence
a 1802 bp 522 aa 232 bp 2kb including Promoter 2337 bp 1kb
b 685 bp 146 aa 247 bp 30 bp 2kb possibly including promoter 1359 bp 1kb

Gene neighbors and Navigator on chromosome I back to top
kin-32 C R 1F665 C 1F671 C 1F675 D C P aap-1 D C I R P 1F691 C R 1F697 D C R P 1F699 C 1F701 C I R P C 1F670 D C I P chp-1 D C I P pas-3 R C 1F680 C elpc-1 D C I R P mat-1 5kb 0 kin-32, 43 accessions 9 variants 1F665, 10 accessions 1F671, 5 accessions, 2 variants 1F675, 28 accessions, 2 variants aap-1, 42 accessions, 2 variants 1F691, 40 accessions, 2 variants 1F697, 114 accessions 2 variants 1F699, 16 accessions, 4 variants 1F701, 49 accessions, 7 variants 1F676, 0 accession 1F670, 36 accessions, 8 variants chp-1, 101 accessions 7 variants pas-3, 0 accession 1F678, 0 accession 1F680, 0 accession elpc-1, 32 accessions 3 variants mat-1, 58 accessions, 5 variants ZOOM OUT                 D:disease, C:conserved, I:interactions, R:regulation, P:publications         Read more...
Annotated mRNA diagrams back to top
Bibliography back to top
Please see these 4 articles in PubMed.
In addition we found 3 papers for which we do not have a PubMed identifier
? Gene Summary Gene on genome mRNA:.a, .b Alternative mRNAs features, proteins, introns, exons, sequences Expression Tissue Function, regulation, related genes DCI

To mine knowledge about the gene, please click the 'Gene Summary' or the 'Function, regulation, related genes ' tab at the top of the page. The 'Gene Summary' page includes all we learnt about the gene, functional annotations of neighboring genes, maps, links to other sites and the bibliography. The 'Function, regulation, related genes ' page includes Diseases (D), Pathways, GO annotations, conserved domains (C), interactions (I) reference into function, and pointers to all genes with the same functional annotation.
To compare alternative variants, their summarized annotations, predicted proteins, introns and exons, or to access any sequence, click the 'Alternative mRNAs features' tab. To see a specific mRNA variant diagram, sequence and annotation, click the variant name in the 'mRNA' tab. To examine expression data from all cDNAs clustered in this gene by AceView, click the 'Expression tissue'.

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