Summary
[Wormbase] The cua-1 gene encodes a putative E1-E2 ATPase orthologous to the human gene KIAA1347 (ATP7A; OMIM:604384), which when mutated leads to Hailey-Hailey disease.
Wormbase predicts one model, but Caenorhabditis elegans cDNA sequences in GenBank, 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 summary
Expression: According to AceView, this gene is expressed at high level, 1.8 times the average gene in this release, at all stages of development [Kohara cDNAs]. The sequence of this gene is defined by 24 cDNA clones. We annotate structural defects or features in 2 cDNA clones.
Alternative mRNA variants and regulation: The gene contains 15 distinct gt-ag introns. Transcription produces 3 different mRNAs, 2 alternatively spliced variants and 1 unspliced form. There are 2 non overlapping alternative last exons and 4 validated alternative polyadenylation sites (see the diagram). The mRNAs appear to differ by by truncation of the 3' end.
Protein coding potential: 2 spliced mRNAs putatively encode good proteins, altogether 2 different isoforms (1 complete, 2 COOH complete), some containing domains E1-E2 ATPase-associated region, Heavy metal transport/detoxification protein, Haloacid dehalogenase-like hydrolase [Pfam], some transmembrane domains [Psort2]. The remaining mRNA variant (unspliced; partial) appears not to encode a good protein.
Function: There are 4 articles specifically referring to this gene in PubMed. In addition we point below to 4 abstracts. This essential gene is associated to a phenotype (Paralysed, UNCoordinated locomotion, affects axonal growth or guidance). Functionally, the gene has been proposed to participate in processes (metabolism, metal ion transport). Proteins are expected to have molecular functions (ATP binding activity, enzyme activity, hydrolase activity, acting on acid anhydrides, catalyzing transmembrane movement of substances, metal ion binding activity) and to localize in various compartments (membrane, plasma membrane).

Please quote: AceView: a comprehensive cDNA-supported gene and transcripts annotation, Genome Biology 2006, 7(Suppl 1):S12

Map: This essential gene cua-1 maps on chomosome III at position +20.97 (interpolated). In AceView, it covers 15.59 kb, from 13455187 to 13439595 (WS190), on the reverse strand.
Links to: WormBase, NextDB, RNAiDB.
Other names: The gene is also known in Wormgenes/AceView by its positional name 3O530, in Wormbase by its cosmid.number name Y76A2A.2, in NextDB, the Nematode expression pattern database, as CEYK384.

The closest human genes, according to BlastP, are the AceView genes ATP7A (e= 10^-134), ATP7B (e= 10^-130), LOC644732 (e= 10^-120).
The closest mouse genes, according to BlastP, are the AceView genes Atp7a (e= 10^-132), Atp7b (e= 10^-129).
The closest A.thaliana gene, according to BlastP, is the AceView gene HMA5 (e=7 10^-90)

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 cDNA clones supporting each intron. Superimposed introns of the same color are identical, of different colors are different.
Mouse over the ending of each transcript gives tissues from which the supporting cDNAs were extracted. Click on any transcript to open the specific mRNA page, to see the exact cDNA clone support and eventual SNPs and to get details on tissues, sequences, mRNA and protein annotations. Details on tissue of origin for each intron and exon is available from the intron and exons table. Good predicted proteins are in pink, yellow proteins may be partial or unconvincing, green are uORFs. Proteins supported by a single continuous GenBank accession lead to underlining the name/ending of the variant. Names not underlined result from cDNA concatenation in the coding region and should be experimentally checked.
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