Information of genome Oomycota

How does the search work?

Input a query in the search field. Everytime you press Space or Enter after a word, a token will be created. The token is composed of a prefix describing how the query should be treated and the actual query itself.

What are the different types of tokens?

Each token represents either a Gene, HOG, OMA group, or Taxon. Prefixes are used to specify which category to associate with the query term.

Category	Prefixes
Genes	id, go, ec, description, domain, sequence
HOGs	hog, sequence
OMA Groups	omagroup, fingerprint, sequence
Taxon	species, taxid, taxon

For example, the token [go:4225] will search for genes in the OMA database annotated with the GO:0004225 gene ontology term.
How to search for a multi-word query?

If your query term is composed of multiple words (e.g homo sapiens), use " " to encapsulate it.

How many tokens can I have?

There is no limit on the number of tokens. It is not possible to enter multiple tokens of different categories, except taxon, which can be combined with other categories. For example, you can search for 'hog:60627 species:HUMAN' to return human genes found in HOG:606207.

How to edit/delete a token?

To edit a query, click on it to modify the input field. To edit a prefix, click on the dropdown icon to select another one. To remove a token, click on the x to delete it.

Autosuggest

Typing a query without hitting enter or space will prompt an autosuggestion for the identifier after a few seconds.

Search

How does the search work?

Input a query in the search field. Everytime you press Space or Enter after a word, a token will be created. The token is composed of a prefix describing how the query should be treated and the actual query itself.

What are the different types of tokens?

Each token represents either a Gene, HOG, OMA group, or Taxon. Prefixes are used to specify which category to associate with the query term.

Category	Prefixes
Genes	id, go, ec, description, domain, sequence
HOGs	hog, sequence
OMA Groups	omagroup, fingerprint, sequence
Taxon	species, taxid, taxon

For example, the token [go:4225] will search for genes in the OMA database annotated with the GO:0004225 gene ontology term.
How to search for a multi-word query?

If your query term is composed of multiple words (e.g homo sapiens), use " " to encapsulate it.

How many tokens can I have?

There is no limit on the number of tokens. It is not possible to enter multiple tokens of different categories, except taxon, which can be combined with other categories. For example, you can search for 'hog:60627 species:HUMAN' to return human genes found in HOG:606207.

How to edit/delete a token?

To edit a query, click on it to modify the input field. To edit a prefix, click on the dropdown icon to select another one. To remove a token, click on the x to delete it.

Autosuggest

Typing a query without hitting enter or space will prompt an autosuggestion for the identifier after a few seconds.

Ancestral genome of Oomycota

with 11 descendant species and 16506 (9659 well supported) ancestral genes (HOGs).

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Common name:	Oomycota
NCBI taxonomic identifier:	4762
Number of ancestral genes:	16506 (all HOGs) 9659 (well supported HOGs ?)
Number of ancestral genes included in ancestral contigs:	7763
Number of descendant extant species:	11

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Code	Scientific Name	Common Name	Last Update	# of Sequences	Taxon Id	D.
SAPPC	Saprolegnia parasitica (strain CBS 223.65)		2016-Jul-12	19853	695850	E
SAPDV	Saprolegnia diclina (strain VS20)		2022-Sep-19	18229	1156394	E
PLAHL	Plasmopara halstedii	Downy mildew of sunflower	2019-Sep-22	15469	4781	E
PHYNI	Phytophthora nicotianae	Buckeye rot agent	2017-Aug-12	17348	4790	E
PHYPN	Phytophthora parasitica (strain INRA-310)		2018-Jul-08	27942	761204	E
PHYPR	Phytophthora parasitica	Potato buckeye rot agent	2017-Aug-12	25125	4792	E
PHYRM	Phytophthora ramorum	Sudden oak death agent	2017-Nov-13	15605	164328	E
PHYIT	Phytophthora infestans (strain T30-4)	Potato late blight fungus	2012-Nov-12	17792	403677	E
PHYSP	Phytophthora sojae (strain P6497)	Soybean stem and root rot agent	2019-Mar-25	26489	1094619	E
HYAAE	Hyaloperonospora arabidopsidis (strain Emoy2)	Downy mildew agent	2016-Jul-03	13293	559515	E
GLOUD	Globisporangium ultimum (strain ATCC 200006 / CBS 805.95 / DAOM BR144)		2022-Mar-27	15322	431595	E

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