Related genomes of genome RETFI 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.

RETFI - Reticulomyxa filosa

Proteome version: Ensembl Protists 31; Reti_assembly1_0; 18-FEB-2016 with 39688 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	BRANA	Brassica napus	749
2	WHEAT	Triticum aestivum	730
3	PAROT	Paramecium octaurelia	690
4	GOSHI	Gossypium hirsutum	673
5	PARTE	Paramecium tetraurelia	671
6	PARPR	Paramecium primaurelia	646
7	TOBAC	Nicotiana tabacum	632
8	SALTR	Salmo trutta	612
9	CYPCA	Cyprinus carpio carpio	611
10	SOYBN	Glycine max	608

Species with least common OMA groups

Nb.	OMA Group	Scientific Name	Nb. orthologous group
1	ZINIC	Zinderia insecticola (strain CARI)	8
2	UC077	Candidatus Microgenomates bacterium NC_groundwater_396_Ag_B-0.1um_42_16	8
3	RALSL	Ralstonia solanacearum	8
4	MYCWM	Mycoplasma wenyonii (strain Massachusetts)	9
5	UC116	Patescibacteria group bacterium E44_bin74	9
6	UC087	Candidatus Pacebacteria bacterium LF-bin-483	10
7	UC184	candidate division WWE3 bacterium RAAC2_WWE3_1	11
8	UC179	candidate division Kazan bacterium GW2011_GWA1_50_15 none	11
9	UC148	bacterium (Candidatus Torokbacteria) CG_4_10_14_0_2_um_filter_35_8	11
10	UC062	bacterium Kalu_18-Q3-R12-55_BAT3C.2_fly	12