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Ensembl Plants

Ensembl Plants is a genome-centric portal for plant species of scientific interest

http://plants.ensembl.org/

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Ensembl Plants | plants.ensembl.org Reviews
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Ensembl Plants is a genome-centric portal for plant species of scientific interest
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Ensembl Plants | plants.ensembl.org Reviews

https://plants.ensembl.org

Ensembl Plants is a genome-centric portal for plant species of scientific interest

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archive.plants.ensembl.org archive.plants.ensembl.org

Ensembl Plants

For easy access to commonly used genomes, drag from the bottom list to the top one · Save. Oryza sativa Japonica (. Oryza sativa Japonica Group. Arabidopsis lyrata subsp. lyrata. Brassica oleracea var. oleracea. Brassica rapa subsp. pekinensis. Cyanidioschyzon merolae strain 10D. Medicago truncatula str. A17. Musa acuminata subsp. malaccensis. Oryza sativa Indica (. Oryza sativa Indica Group. Solanum lycopersicum str. Heinz 1706. Middot; Restore default list. Select a species -. What's New in Release 31.

pre.plants.ensembl.org pre.plants.ensembl.org

Ensembl Plants Pre

The TGACv1 assembly of the wheat genome has now been incorporated in the main Ensembl Plants. Site Please consult it there. Future genomes may be pre-released in this site, and will be advertised in the main site as applicable. Many other species with fully annotated genomic data, more website features and documentation are available at www.ensemblgenomes.org. Ensembl Genomes is developed by EMBL-EBI. And is powered by Ensembl. Hv IBSC PGSB v2. Ensembl Plants Pre release 33 - October 2016 EMBL-EBI.

INTERNAL PAGES

plants.ensembl.org plants.ensembl.org
1

Ensembl Plants

http://plants.ensembl.org/info/website/help/index.html

Beta vulgaris subsp. vulgaris. For easy access to commonly used genomes, drag from the bottom list to the top one · Save. Oryza sativa Japonica (. Oryza sativa Japonica Group. Arabidopsis lyrata subsp. lyrata. Beta vulgaris subsp. vulgaris (. Beta vulgaris subsp. vulgaris. Brassica oleracea var. oleracea. Brassica rapa subsp. pekinensis. Cyanidioschyzon merolae strain 10D. Medicago truncatula str. A17. Musa acuminata subsp. malaccensis. Oryza sativa Indica (. Oryza sativa Indica Group. Select a species -.

2

Ensembl Plants

http://plants.ensembl.org/species.html

Beta vulgaris subsp. vulgaris. Oryza brachyantha.v1.4b. O longistaminata v1.0. Oryza meridionalis v1.3. Ensembl Plants release 32 - August 2016 EMBL-EBI. EMBL-EBI Terms of use.

3

Triticum aestivum - Ensembl Genomes

http://plants.ensembl.org/Triticum_aestivum/Info/Index

Beta vulgaris subsp. vulgaris. Data Source TGAC Taxonomy ID 4565. Eg TRIAE CS42 7DL TGACv1 731555 AA2173560. Or TGACv1 scaffold 250239 3DL:42896-61821. This assembly and annotation is available for use under the terms of the Toronto Agreement. On prepublication data sharing. The previous wheat assembly ( IWGSC CSS. And every other plant from release 31 is available in the new Ensembl Plants archive. The A-genome donor) and an unknown grass thought to be related to. Which hybridized again with. Homologues...

4

Ensembl Plants

http://plants.ensembl.org/compara_analyses.html

Genomic alignments and syntenies. Information about the analyses is available on http:/ www.ensemblgenomes.org. Click on a species name to expand/collapse its alignment list. Click on a analysis name to see available statistics. Or click a species names to expand/collapse its alignment list. Ensembl Plants release 32 - August 2016 EMBL-EBI. EMBL-EBI Terms of use.

5

Physcomitrella patens - Ensembl Genomes

http://plants.ensembl.org/Physcomitrella_patens/Info/Index

Beta vulgaris subsp. vulgaris. Are non-vascular plants that appeared very early in the fossil record, soon after the transition of plants to terrestrial environments. The. More information and statistics. More information and statistics. Display your data in Ensembl Plants. What can I find? Protein-coding and non-coding genes, splice variants, cDNA and protein sequences, non-coding RNAs. More about this genebuild. Download genes, cDNAs, ncRNA, proteins - FASTA. Update your old Ensembl IDs.

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fruitech.org fruitech.org

FR Database 1.0

http://www.fruitech.org/index.html

Welcome to FR Database 1.0. Key words : fruit, development, ripening. Fruits form unique growing period in the life cycle of higher plants. They provide essential nutrients and have beneficial effects on human health. During development and ripening, fruit enlargement, texture alteration and nutrients accumulation are tightly regulated by thousands of genes in various processes. School of Biotechnology and Food Engineering, Hefei University of Technology.

jul2016.archive.ensembl.org jul2016.archive.ensembl.org

Compare genes across species

http://jul2016.archive.ensembl.org/info/website/tutorials/compara.html

Compare genes across species. Variants for my gene. ENCODE data in Ensembl. The GRCh37 assembly in Ensembl. Use my own data. Compare genes across species. Compare genes across species. Gene Trees and Homologues. A representative protein for every gene in Ensembl across all species is used to determine gene trees. Homologues are separated into Orthologues. Across different species) and Paralogues. Gene Tree help page. Gene trees and homology. Compare species in the genomic alignment view.

fungi.ensembl.org fungi.ensembl.org

Ensembl Fungi

http://fungi.ensembl.org/info/website/help/index.html

Search for a gene. Search for a genome. Eg type sac to find Saccharomyces. For easy access to commonly used genomes, drag from the bottom list to the top one · Save. Aspergillus nidulans FGSC A4. Puccinia graminis f. sp. tritici CRL 75-36-700-3. Acidomyces richmondensis BFW (. Acremonium chrysogenum ATCC 11550 (. Acremonium chrysogenum ATCC 11550. Agaricus bisporus var. bisporus H97 (. Agaricus bisporus var. bisporus H97. Agaricus bisporus var. burnettii JB137-S8 (. Allomyces macrogynus ATCC 38327 (.

fungi.ensembl.org fungi.ensembl.org

Puccinia graminis f. sp. tritici CRL 75-36-700-3 - Ensembl Genomes

http://fungi.ensembl.org/Puccinia_graminis/Info/Index

Acremonium chrysogenum ATCC 11550. Agaricus bisporus var. bisporus H97. Agaricus bisporus var. burnettii JB137-S8. Allomyces macrogynus ATCC 38327. Amanita muscaria Koide BX008. Arthrobotrys oligospora ATCC 24927. Arthroderma benhamiae CBS 112371. Arthroderma otae CBS 113480. Aspergillus fumigatus var. RP-2014. Aspergillus nidulans FGSC A4. Aspergillus niger (GCA 001515345). Aspergillus niger ATCC 1015. Aspergillus nomius NRRL 13137. Aspergillus oryzae 3.042. Aspergillus ruber CBS 135680. Cladophialophor...

grch37.ensembl.org grch37.ensembl.org

Species List

http://grch37.ensembl.org/info/about/species.html

Geek for a Week. Browser Genome Release Agreement. Ensembl name and logo policy. Credits for species images. About the Ensembl Project. The main Ensembl site focuses on vertebrate genomes - scroll down. For links to our sister sites covering invertebrates, plants, bacteria, etc. View the full Ensembl species tree. NB The table below shows only those species that were included in release 75 - for an up-to-date list, please see our main site at www.ensembl.org. Felis catus 6.2. Pan troglodytes 2.1.3.

grch37.ensembl.org grch37.ensembl.org

What's New in this release

http://grch37.ensembl.org/info/website/news.html

Pairwise Interactions File Formats. Coordinate Systems for custom tracks. Track Hub Support in Ensembl. Compare genes across species. Variants for my gene. ENCODE data in Ensembl. The GRCh37 assembly in Ensembl. Use my own data. Browse News by Topic. What's New in this release. Archives: Table of assemblies. What's New in this release. News for Ensembl GRCh37. New web displays and tools. New web displays and tools. Data slicer tool (all species). Variation Pattern Finder tool (all species). Release 71 (A...

grch37.ensembl.org grch37.ensembl.org

ENCODE data in Ensembl

http://grch37.ensembl.org/info/website/tutorials/encode.html

Compare genes across species. Variants for my gene. ENCODE data in Ensembl. The GRCh37 assembly in Ensembl. Use my own data. ENCODE data in Ensembl. ENCODE data in Ensembl. ENCODE data in Ensembl. How to view ENCODE data. Multiple data tracks relating to gene regulation, based on ENCODE data can be turned on in the ' region in detail. Page on our GRCh37 archive for human and mouse. A full tutorial on how to use these tracks. Is available on the EMBL-EBI website. Link to add ENCODE integrative analysis hub.

grch37.ensembl.org grch37.ensembl.org

Variant Effect Predictor

http://grch37.ensembl.org/info/docs/tools/vep

Examples and use cases. The VEP determines the effect of your variants (SNPs, insertions, deletions, CNVs or structural variants) on genes, transcripts, and protein sequence, as well as regulatory regions. Simply input the coordinates of your variants and the nucleotide changes to find out the:. Affected by the variants. Of the variants (e.g. upstream of a transcript, in coding sequence, in non-coding RNA, in regulatory regions). Scores for changes to protein sequence. Suits smaller volumes of data.

grch37.ensembl.org grch37.ensembl.org

Downloads - GRCh37 Archive browser 86

http://grch37.ensembl.org/downloads.html

Download a sequence or region. Click on the 'Export data' button in the lefthand menu of most pages to export:. GTF or GFF features. Custom datasets can be retrieved using the BioMart data-mining tool. You may find exploring this web-based query tool easier than extracting information direct from our databases. Write your own Perl scripts to retrieve small-to-medium datasets. All our data, as well as added functionality, is available through the Ensembl Perl API. You can also use our REST API.

grch37.ensembl.org grch37.ensembl.org

Variants for my gene

http://grch37.ensembl.org/info/website/tutorials/gene_snps.html

Compare genes across species. Variants for my gene. ENCODE data in Ensembl. The GRCh37 assembly in Ensembl. Use my own data. Variants for my gene. SNPs and other variants for my gene. Find short variants for a gene from dbSNP, COSMIC, and other sources. In the Gene Variation table. Variants are grouped into consequence types. Click on 'Show' to reveal a table of variant IDs. For a specific consequence type. Gene Variation Table help page. View variants within the nucleotide sequence in the Gene Sequence.

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Natural sunlight, oxygen and Green Plants. You are the seedling that power our planet. Let the journey begins. Http:/ plants.earth.tel. Natural sunlight, oxygen and Green Plants. You are the seedling that power our planet. Let the journey begins.

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The Endler Shop - Plants

The following are profiles of the plants that my Endler stock are kept with. These plants are also listed on the Order page when available. I’ve found these plants to be high impact and yet pretty low maintenance. Also, Endlers seem to especially thrive in planted tanks. The aquascapes on the right are some of my favorite inspirations. Hornwort (Scientific: Ceratophyllum Demersum). Simply take cuttings and leave free floating or anchor into the substrate as needed. Size: up to 24. Light: Low to High.

plants.ensembl.org plants.ensembl.org

Ensembl Plants

Beta vulgaris subsp. vulgaris. Nicotiana attenuata str. UT. Hv IBSC PGSB v2. For easy access to commonly used genomes, drag from the bottom list to the top one. Select a species -. View full list of all Ensembl Plants species. What's New in Release 38. You can search the Track Hub Registry. To find more than 1,400 public RNA-Seq studies aligned to plants ( read more. Cucumber, GCA 000004075.2. White Guinea yam, GCA 002240015.2. Cotton, GCA 000327365.1. Common sunflower, GCA 002127325.1. Http:/ oct2017-pr...

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EVL Nursery

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Plants.ExB – carnivorous plants, notes and photography

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Plants decor

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