Information of genome Pucciniomycotina

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 Pucciniomycotina

with 7 descendant species and 9869 (6787 well supported) ancestral genes (HOGs).

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Common name:	Pucciniomycotina
NCBI taxonomic identifier:	29000
Number of ancestral genes:	9869 (all HOGs) 6787 (well supported HOGs ?)
Number of ancestral genes included in ancestral contigs:	1992
Number of descendant extant species:	7

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Code	Scientific Name	Common Name	Last Update	# of Sequences	Taxon Id	D.
PUCGT	Puccinia graminis f. sp. tritici (strain CRL 75-36-700-3 / race SCCL)	Black rust	2011-Mar-22	20364	418459	E
PUCGR	Puccinia graminis	Black stem rust fungus	2012-Dec-04	20364	5297	E
PUCT1	Puccinia triticina (isolate 1-1 / race 1 (BBBD))	Brown leaf rust fungus	2020-Nov-16	11638	630390	E
RHOTO	Rhodosporidium toruloides	Yeast	2021-May-02	7538	5286	E
RHOGW	Rhodotorula graminis (strain WP1)		2019-Mar-24	7278	578459	E
USTV1	Microbotryum lychnidis-dioicae (strain p1A1 Lamole / MvSl-1064)	Anther smut fungus	2019-Jan-22	7819	683840	E
MIXOS	Mixia osmundae (strain CBS 9802 / IAM 14324 / JCM 22182 / KY 12970)		2012-Dec-17	6783	764103	E

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