Caenorhabditis elegans essential gene gop-2, encoding ATP/GTP binding protein, Gro-1 OPeron gene.
SUMMARY back to top
[Wormbase] gop-2 encodes a member of the conserved hypothetical ATP binding protein family that affects embryonic viability, growth, and fertility.
Wormbase predicts one model

AceView synopsis, each blue text links to tables and details
According to AceView, this gene is expressed at very high level, 10.5 times the average gene in this release, mostly from L1 larvae to adult [Kohara cDNAs]. 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 19%, L3 to adult (including dauer) 79%. See the in situ hybridization pattern in Kohara NextDB. The sequence of this gene is defined by 13 cDNA clones and 125 elements defined by RNA-seq, some from mixed (seen 4 times), l1 (2).
The gene contains 4 distinct gt-ag introns. Transcription produces one spliced mRNA, 1 alternatively spliced variant and 1 unspliced form. Variant a is transpliced to SL1, SL2, SL3, SL4, SL7, SL8. There are 2 validated alternative polyadenylation sites (see the diagram).
Function: There are 6 articles specifically referring to this gene in PubMed. In addition we point below to one abstract. This essential gene is associated to a phenotype (abnormal CyToplasmic Appearance, Embryonic Lethal, Gro-1 OPeron gene, Larval arrest, SLow growth, STerile Progeny, large cytoplasmic granules in early embryos). Proteins are expected to have molecular function (nucleotide binding activity) and to localize in cytoplasm. This protein appears to interact with other proteins (1G512, 3N306).
Protein coding potential: The spliced mRNAs putatively encode a good protein, containing Protein of unknown function, ATP binding domain [Pfam], a coiled coil stretch [Psort2]. The remaining mRNA variant (unspliced; partial) appears not to encode a good protein.

Please quote: AceView: a comprehensive cDNA-supported gene and transcripts annotation, Genome Biology 2006, 7(Suppl 1):S12.
Map on chromosome III, links to other databases and other names
Map: This essential gene gop-2 maps on chomosome III at position -1.90 (interpolated). In AceView, it covers 1.50 kb, from 5258982 to 5260479 (WS190), on the direct strand.
Links to: WormBase, NextDB, RNAiDB.
Other names: The gene is also known in Wormgenes/AceView by its positional name 3G349, in Wormbase by its cosmid.number name C34E10.2, in NextDB, the Nematode expression pattern database, as CEYK8443.
Closest AceView homologs in other species ?
The closest human gene, according to BlastP, is the AceView gene XAB1 (e=10-93).
The closest mouse gene, according to BlastP, is the AceView gene Xab1.
The closest A.thaliana gene, according to BlastP, is the AceView gene QQT2
          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 gop-2 5' 3' encoded on plus strand of chromosome III from 5,258,982 to 5,260,479 a b 1kb 0 154 bp exon 154 bp exon 47 bp [gt-ag] intron 13 GenBank accessions 336 bp exon 162 bp [gt-ag] intron 12 GenBank accessions 277 bp exon 43 bp [gt-ag] intron 11 GenBank accessions 161 bp exon 42 bp [gt-ag] intron 10 GenBank accessions 276 bp exon 137 accessions, some from mixed (seen 4 times) l1 (2) Transpliced 5' end, 8 accessions Validated 3' end, 1064 accessions 276 bp exon 104 bp exon 104 bp exon 1 accession Validated 3' end, 3 accessions 104 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 Upstream sequence Transcription
Downstream sequence
a 1204 bp 355 aa 10 bp 126 bp 2kb including Promoter 1498 bp 1kb
b 104 bp 19 aa 42 bp 2kb 104 bp 1kb

Gene neighbors and Navigator on chromosome III back to top
C wrs-2 D C R P gop-1 D C R P gop-2 D C I P gop-3 D C R P hap-1 C I P gro-1 D C I P 3G357 C 3G359 C toc-1 D C R P clk-1 D C I R P D C P cnd-1 C I P 3G340 C 3G350 D C I R P ztf-8 D C P 3G364 5kb 0 3G325, 10 accessions, 3 variants wrs-2, 44 accessions, 5 variants gop-1, 31 accessions, 6 variants gop-2, 138 accessions 2 variants gop-3, 48 accessions, 3 variants hap-1, 0 accession gro-1, 33 accessions, 6 variants 3G357, 37 accessions, 3 variants 3G359, 7 accessions, 2 variants toc-1, 46 accessions, 5 variants clk-1, 112 accessions 3 variants 3G330, 1 accession 3G356, 4 accessions, 2 variants 3G362, 5 accessions cnd-1, 14 accessions 3G340, 67 accessions, 5 variants 3G350, 6 accessions, 3 variants ztf-8, 50 accessions, 5 variants 3G364, 74 accessions, 2 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 6 articles in PubMed.
In addition we found 1 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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