Summary
[Wormbase] hif-1 encodes an ortholog of the mammalian hypoxia-induced factor HIF-1, and is required for survival in hypoxic environments (1% oxygen) that have no effect on wild-type C. elegans.
Wormbase predicts 4 models.

AceView summary
Expression: According to AceView, this gene is expressed at very high level, 7.8 times the average gene in this release, at all stages of development [Kohara cDNAs]. The sequence of this gene is defined by 103 cDNA clones, some from whole animal (seen 11 times). We annotate structural defects or features in 3 cDNA clones.
Alternative mRNA variants and regulation: The gene contains 12 distinct gt-ag introns. Transcription produces 3 alternatively spliced mRNAs. There are 2 probable alternative promotors and 2 validated alternative polyadenylation sites (see the diagram). The mRNAs appear to differ by by truncation of the 5' end, presence or absence of a cassette exon, overlapping exons with different boundaries.
Protein coding potential: The 3 spliced mRNAs putatively encode good proteins, altogether 6 different isoforms (2 complete, 5 COOH complete), some containing domains Basic helix-loop-helix dimerisation region bHLH, PAS fold-3 [Pfam]. Efficacy of translation may be reduced by the presence of a shorter translated product (uORF) initiating at an AUG upstream of the main open reading frame (in variant c).
Function: There are 19 articles specifically referring to this gene in PubMed. In addition we point below to 4 abstracts. This gene is associated to a phenotype (adaptation to hypoxia, Hypoxia Inducible Factor, reduced susceptibility to pathogens). Functionally, the gene has been proposed to participate in a process (regulation of transcription). Proteins are expected to have molecular function (transcription regulator activity) and to localize in nucleus.

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

Map: This gene hif-1 maps on chomosome V at position +29.88 (interpolated). In AceView, it covers 4.86 kb, from 20775801 to 20780658 (WS190), on the direct strand.
Links to: WormBase, NextDB, RNAiDB.
Other names: The gene is also known in Wormgenes/AceView by its positional name 5V253, in Wormbase by its cosmid.number name F38A6.3, in NextDB, the Nematode expression pattern database, as CEYK179.

The closest human genes, according to BlastP, are the AceView genes HIF1AandSNAPC1 (e=6 10^-39), HIF3A (e=3 10^-37), EPAS1 (e=2 10^-36).
The closest mouse genes, according to BlastP, are the AceView genes Hif1aandEG277089 (e=6 10^-40), Hif3a (e=2 10^-37), Epas1 (e=3 10^-35)

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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