In this case, the results will not be available, please restart the analysis using the option below "Send the URL of the result to". The results will be available for a limited time on our server. For details of how long your results will be kept please see the result-email. After that period they will be deleted unless protected in the project management! User input that is either of erroneous format e. Database version: ElDorado Input: 1 loci based on list of 1 keywords from input Analysis: 1 loci were analyzed 29 transcripts were found 11 unique promoters were found.
For each input i. Please note that in some cases your input will be mapped to more than one chromosomal locus.
It may also occur that a promoter cannot be found. This is generally due to the incomplete annotation of the genome sequences. Promoters can be selected for extraction and further analysis by clicking the check boxes in the Selection column.
By default, only those promoters are selected where the search term was found to match exactly either the gene name, GeneId, accession number or any other transcript related IDs. A promoter can be assigned to several alternative transcripts within a locus. There are three possible quality levels assigned to the alternative transcripts for a locus:. If a promoter for a locus was identified via corresponding regulatory regions in the genomic sequence of one or more different organisms, there is no transcript listed and the promoter is called a CompGen promoter see CompGen promoters and promoter sets.
If the search terms used as input were accession numbers, transcripts Ids, or Affymetrix probe set Ids, the transcripts that correspond to the search term are highlighted in orange. When one or more transcription factor families up to 5 are selected in the popup menu and the "Apply" button is pressed, the page is reloaded and additional information is shown for each promoter. If ALL of the selected binding sites are present this is shown in red.
This filter is available for all organisms. Human promoters can additionally be filtered for overlap with public annotation data , e. Additionally, promoters with coding transcripts can be selected. All selected filters are combined with AND. A task menu for further analyses After selection of the desired length the selected promoters in the above result table can either be extracted or used to start an analysis with GEMS Launcher :. These parameters are hidden by default.
Clicking on will reveal them. Click on the link behind the accession number to get detailed information. Also, if the input were Affymetrix probe set Ids, the number of probes within this transcript is given in dark green. Overview of Help-Pages.
The gene names included in ElDorado are based on EntrezGene. The input may contain the following gene related keywords: Gene symbols e. Full gene names e. DoOP: Databases of Orthologous Promoters A database containing orthologous clusters of promoters from Homo sapiens, Arabidopsis thaliana and other organisms. PlantCare Database of plant cis-acting regulatory elements and a portal to tools for in silico analysis of promoter sequences. Place Database of motifs found in plant cis-acting regulatory DNA elements, all from previously published reports.
It covers vascular plants only. PlantTFDB: Plant Transcription Factor Database An integrative plant transcription factor database that provides a web interface to access large close to complete sets of transcription factors of several plant species, currently encompassing Arabidopsis thaliana thale cress , Populus trichocarpa poplar , Oryza sativa rice , Chlamydomonas reinhardtii and Ostreococcus tauri.
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