Related genomes of genome RAMTT based on shared OMA groups

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.

RAMTT - Ramlibacter tataouinensis (strain ATCC BAA-407 / DSM 14655 / LMG 21543 / TTB310)

Proteome version: 28-SEP-2011 (Rel. 110, Last updated, Version 2) with 3880 proteins.

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Genome information
Chromosome viewer
List genes
Related Species

Based on number of:

Shared OMA groups

Shared HOGs
Synteny

Species with most common OMA groups

Nb.	OMA Group	Scientific Name	Nb. orthologous group
1	VARPE	Variovorax paradoxus (strain EPS)	2137
2	VARPS	Variovorax paradoxus (strain S110)	2128
3	POLSJ	Polaromonas sp. (strain JS666 / ATCC BAA-500)	2069
4	DELSC	Delftia sp. (strain Cs1-4)	1868
5	ACIAP	Acidovorax avenae (strain ATCC 19860 / DSM 7227 / CCUG 15838 / JCM 20985 / LMG 2117 / NCPPB 1011)	1867
6	DELAS	Delftia acidovorans (strain DSM 14801 / SPH-1)	1850
7	POLNA	Polaromonas naphthalenivorans (strain CJ2)	1809
8	ACIAC	Acidovorax citrulli (strain AAC00-1)	1804
9	CUPNN	Cupriavidus necator (strain ATCC 43291 / DSM 13513 / CCUG 52238 / LMG 8453 / N-1)	1797
10	CUPNH	Cupriavidus necator (strain ATCC 17699 / DSM 428 / KCTC 22496 / NCIMB 10442 / H16 / Stanier 337)	1764

Species with least common OMA groups

Nb.	OMA Group	Scientific Name	Nb. orthologous group
1	VITCO	Vittaforma corneae (strain ATCC 50505)	16
2	ENTBH	Enterocytozoon bieneusi (strain H348)	18
3	TRAHO	Trachipleistophora hominis	21
4	EDHAE	Edhazardia aedis (strain USNM 41457)	21
5	NEMS1	Nematocida sp. 1 (strain ERTm2 / ATCC PRA-371)	24
6	NEMP3	Nematocida parisii (strain ERTm3)	24
7	NOSCE	Nosema ceranae (strain BRL01)	25
8	VAVCU	Vavraia culicis (isolate floridensis)	27
9	UC149	Candidatus Huberarchaeum crystalense CG_4_9_14_0_8_um_filter_31_21	29
10	TRYCI	Trypanosoma congolense (strain IL3000)	30