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Users can view basic introduction, contents and construction
methods of plantEAR in the main page. User also can obtain basic function of
this platform by Navigation Bar.
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Through the browse interface, EAR motif-containing proteins can be browsed by species and gene family as following.
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Browse by species as follows by click a species.
User can view the EAR motif-containing proteins that bind directly to DNA or bind indirectly to
DNA and other EAR motif-containing proteins that bind to DNA have not yet been identified.
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Through the browse interface, EAR motif-containing protein can also be browsed by Gene Family. Browse by gene family as follows by click a gene family.
User can view number of EAR motif-containing proteins and links to their details.
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Users can find extensive information concerning a gene. There are many parts
in this page: Basic Information, Gene Structure, Protein Sequence Feature Details,
GO annotations, putative orthologs, blast search to NCBI and Uniprot.As to Arabidopsis thaliana, expression profiles and literature information are also provided. Most of they are
easy to understand. The protein and transcript sequences
of the gene are esay to download. Two model images of each gene were produced seperatedly, demonstrating the gene's structure and the protein's pfam domain and position of EAR motifs. For genes have more than one gene model,
user can swith gene model in the basic information table. In putative orthologs part, families of its orthologous protein can also be obtained.
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Users could select at least one plant species in the corresponding form. Keyword search, Search by hormone
,Search by stress and search by epigenetic modification are offered in this page.
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The description of EAR motif-containing proteins that related to phytohormone and stress can be search by evidence
of publication, GO and microarray expression profile. If the species is not Arabidopsis, the EAR motif-containing proteins homologous to Arabidopsis can be searched. As shown in the following figure, an
associated expression profile or a link to the reference literature could be viewed.
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In this page, users can browse three tools of plantEAR including blast search, motif analysis and GSEA analysis.
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BLAST search against transcript sequence or consensus peptide sequence of genes that encoding EAR motif-containing protein as following.
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The Plant GeneSet Enrichment Analysis Toolkit (PlantGSEA) is an online websever for
gene set enrichment analysis of plant organisms developed by our Lab in China Agricultural
University. We developed this to meet the increasing demands of unearthing the biological
meaning from large amounts of data. The PlantGSEA was designed to serve researchers from
plant community as well as performance-efficient frame. |
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This page was designed for scanning motifs in the gene's promoter sequence. All motifs
appearing in the sequence are listed and counted using the in-house script if users input
a promoter sequence in fasta format. For a list of genes, users can not only get all the
motifs presented in the genes' promoter sequence, but can also perform motif significance analysis. |
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Users could submit a gene ID. Then corresponding interaction pairs will be visualized and showed.
Protein-proteins in Arabidopsis obtained from BioGRID, PAIR, BAR and CCSB databases.
Arabidopsis thaliana, Sorghum bicolor, Gossypium arboreum and Gossypium hisutum have
integrated co-expression Network and predicted protein-protein Network.
If species is not one of them, then network of its orthologous gene to Arabidopsis
thaliana were chose to present.
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From the download interface, the transcripts sequences, CDS sequences, piptied sequences of genes that encoding the
EAR motif-containing protein can be downloaded according to the species of the plant. And pattern of EAR motif,
classification of gene family, annotations of EAR motif-containing protein also can be download.
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