Related genomes of genome AMYMS 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.

AMYMS - Amycolatopsis mediterranei (strain S699)

Proteome version: 16-MAY-2014 (Rel. 120, Last updated, Version 6) with 10191 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	AMYMU	Amycolatopsis mediterranei (strain U-32)	9177
2	LENAE	Lentzea aerocolonigenes	3766
3	SACES	Saccharothrix espanaensis (strain ATCC 51144 / DSM 44229 / JCM 9112 / NBRC 15066 / NRRL 15764)	3577
4	ACTMD	Actinosynnema mirum (strain ATCC 29888 / DSM 43827 / JCM 3225 / NBRC 14064 / NCIMB 13271 / NRRL B-12336 / IMRU 3971 / 101)	3166
5	STRBB	Streptomyces bingchenggensis (strain BCW-1)	3107
6	STRLN	Streptomyces lincolnensis	3078
7	SACEN	Saccharopolyspora erythraea (strain ATCC 11635 / DSM 40517 / JCM 4748 / NBRC 13426 / NCIMB 8594 / NRRL 2338)	3009
8	STRHJ	Streptomyces hygroscopicus subsp. jinggangensis (strain 5008)	2956
9	STRRD	Streptosporangium roseum (strain ATCC 12428 / DSM 43021 / JCM 3005 / NI 9100)	2874
10	STRDJ	Streptomyces davaonensis (strain DSM 101723 / JCM 4913 / KCC S-0913 / 768)	2849

Species with least common OMA groups

Nb.	OMA Group	Scientific Name	Nb. orthologous group
1	ENTBH	Enterocytozoon bieneusi (strain H348)	27
2	VITCO	Vittaforma corneae (strain ATCC 50505)	31
3	UC149	Candidatus Huberarchaeum crystalense CG_4_9_14_0_8_um_filter_31_21	32
4	TRYCI	Trypanosoma congolense (strain IL3000)	33
5	EDHAE	Edhazardia aedis (strain USNM 41457)	33
6	TRAHO	Trachipleistophora hominis	36
7	NANEQ	Nanoarchaeum equitans (strain Kin4-M)	37
8	NEMP3	Nematocida parisii (strain ERTm3)	39
9	SPRLO	Spraguea lophii (strain 42_110)	40
10	VAVCU	Vavraia culicis (isolate floridensis)	40