Caenorhabditis elegans essential gene hmp-2, encoding embryonic body elongation factor, Armadillo-like beta-catenin, HuMPback, dorsal lumps, defective body elongation in embryos, MAternal effect Dumpy mad-1.
SUMMARY back to top
[Wormbase] hmp-2 encodes a beta-catenin; HMP-2 activity is required during embryonic development for cell adhesion at adherens junctions, cell migration, and body morphogenesis; as a beta-catenin, HMP-2 likely functions solely as part of a cadherin-catenin complex, as in yeast two-hybrid assays, HMP-2 is the only C. elegans beta-catenin that binds HMP-1/alpha-catenin and HMR-1/cadherin; additionally, in the embryo, HMP-2 co-localizes to sites of epithelial cell contacts with HMP-1 and HMR-1/cadherin; however, despite its normal role in embryonic cell adhesion, HMP-2 can activate transcription and when overexpressed in vivo, can partially rescue vulval defects produced by loss of BAR-1/beta-catenin, suggesting that HMP-2 has retained the ability to interact with the Wnt signaling pathway.
Wormbase predicts one model from 2 genes, 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, 2.8 times the average gene in this release, at all stages of development [Kohara cDNAs]. The expression profile for the gene, derived from the proportion of animals at each stage in each Kohara library is: embryos 45%, L1 or L2 larvae 19%, L3 to adult (including dauer) 36%. See the in situ hybridization pattern in Kohara NextDB. The sequence of this gene is defined by 30 cDNA clones and 7 elements defined by RNA-seq, some from embryo (seen 14 times), mixed (4), l2 (3), l1 (2), dauer (once).
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, SL3, SL4, SL7, SL8, SL1. There are 2 probable alternative promotors (see the diagram).
Function: There are 14 articles specifically referring to this gene in PubMed. In addition we point below to 19 abstracts. This essential gene is associated to a phenotype (Embryonic Lethal, MAternal effect Dumpy, DumPY : shorter than wild-type, exaggerated pseudocleavage, fragile animal, may explode at vulva, HuMPback, dorsal lumps, defective body elongation in embryos, multiple cavities or vesicles during early embryogenesis, slow embryonic cell division, UNCoordinated locomotion, aberrant spindle orientation in anterior or posterior cell in 2-cell embryos, EMS embryonic blastomere fails to extend anteriorly, division axis of ABa or ABp aberrant). Functionally, the gene has been proposed to participate in a process (pseudocleavage (sensu Nematoda)). This protein appears to interact with other proteins (3G136, APR-1, FRK-1, HMP-1, HMR-1). The gene interacts with 5 other genes (ALR-1, FRK-1, RDE-1, VAB-9, ZFP-1C).
Protein coding potential: The spliced mRNAs putatively encode a good protein, containing Armadillo domain [Pfam]. The remaining mRNA variant (spliced; 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 I, links to other databases and other names
Map: This essential gene hmp-2 maps on chomosome I at position +26.30 (interpolated). In AceView, it covers 3.84 kb, from 14738831 to 14742668 (WS190), on the direct strand.
Links to: WormBase, NextDB, RNAiDB.
as Other names: The gene is also known mad-1, in Wormgenes/AceView by its positional name 1P333, in Wormbase by its cosmid.number name K05C4.6, in NextDB, the Nematode expression pattern database, as CEYK2322.
Closest AceView homologs in other species ?
The closest human genes, according to BlastP, are the AceView genes JUP, CTNNB1.
The closest mouse genes, according to BlastP, are the AceView genes Jup (e=7 10-77), Ctnnb1 (e=10-76).
The closest A.thaliana genes, according to BlastP, are the AceView genes AT1G08315, AT1G08310
          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 hmp-2 5' 3' encoded on plus strand of chromosome I from 14,738,831 to 14,742,668 a b 1kb 0 62 bp exon 62 bp exon 57 bp [gt-ag] intron 18 GenBank accessions 663 bp exon 107 bp [gt-ag] intron 12 GenBank accessions 165 bp exon 340 bp [gt-ag] intron 6 GenBank accessions 992 bp exon 391 bp [gt-ag] intron 23 GenBank accessions 336 bp exon 36 accessions, some from embryo (seen 14 times) mixed (4), l2 (3), l1 (2) dauer (once) Transpliced 5' end, 6 accessions Validated 3' end, 13 accessions 336 bp exon 94 bp exon 631 bp [gt-ag] intron 1 GenBank accession 54 bp exon 1 accession 54 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 2218 bp 678 aa 22 bp 159 bp 2kb including Promoter 3113 bp 1kb
b 148 bp 49 aa 2kb 779 bp 1kb

Gene neighbors and Navigator on chromosome I back to top
1P309 C R 1P325 C P 1P331 C P hmp-2 D C I P 1P339 C dnj-12 D C R P rps-26 D C R P 1P317 1P323 1P340 D C I R P pbs-5 D C P 1P312 C R 1P314 C 1P318 D C I R P mtx-1 R 1P350 5kb 0 1P309, 14 accessions, 4 variants 1P325, 8 accessions, 2 variants 1P331, 134 accessions hmp-2, 37 accessions, 2 variants 1P339, 36 accessions, 2 variants dnj-12, 1159 accessions 7 variants rps-26, 0 accession 1P317, 1 accession 1P323, 1 accession 1P324, 2 accessions 1P340, 9 accessions, 2 variants 1P300, 12 accessions, 3 variants pbs-5, 178 accessions 2 variants 1P312, 21 accessions, 2 variants 1P314, 15 accessions, 3 variants 1P318, 15 accessions, 6 variants mtx-1, 24 accessions 1P350, 5 accessions 1P354C, 34 accessions 6 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 14 articles in PubMed.
In addition we found 19 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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