Related genomes of genome THECC 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.

THECC - Theobroma cacao

Proteome version: Ensembl Plants 23; GCA_000403535.1; 19-JUL-2014 with 29131 genes / 29646 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	GOSHI	Gossypium hirsutum	16184
2	POPTR	Populus trichocarpa	13334
3	SOYBN	Glycine max	12613
4	TOBAC	Nicotiana tabacum	12445
5	BRANA	Brassica napus	12297
6	GOSRA	Gossypium raimondii	12240
7	GOSAR	Gossypium arboreum	12148
8	RICCO	Ricinus communis	11969
9	QUELO	Quercus lobata	11917
10	PRUDU	Prunus dulcis	11775

Species with least common OMA groups

Nb.	OMA Group	Scientific Name	Nb. orthologous group
1	RALSL	Ralstonia solanacearum	38
2	ZINIC	Zinderia insecticola (strain CARI)	41
3	UC116	Patescibacteria group bacterium E44_bin74	42
4	MYCHA	Mycoplasma haemolamae (strain Purdue)	46
5	MYCWM	Mycoplasma wenyonii (strain Massachusetts)	48
6	MYCS3	Mycoplasma suis (strain KI_3806)	51
7	MYCSL	Mycoplasma suis (strain Illinois)	52
8	UC149	Candidatus Huberarchaeum crystalense CG_4_9_14_0_8_um_filter_31_21	56
9	MYCCR	Mycoplasma conjunctivae (strain ATCC 25834 / HRC/581 / NCTC 10147)	56
10	MYCHN	Mycoplasma haemocanis (strain Illinois)	56