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Sept 01, 2021

You will find a search box in the header of every page, in the main body of Home page, and in the navigation side bar on Search Result page. Type in one or more terms in the search box to find gene families. The search is case-insensitive. Partial string matches or adaptations to misspelling are currently NOT supported. 

Looking for a gene family that contains a specific gene

You can use a UniProt ID (i.e. Q9KN15), Gene symbol (i.e. DET2), or Gene ID (i.e. AT1G63910, GLYMA_02G081100) as your query term. 
Only exact matches to a UniProt ID, Gene symbol or Gene ID are returned.

  • An UniProt ID is a distinct protein ID in the UniProt database (https://www.uniprot.org/). 

  • A gene symbol is a gene name that is extracted from the GeneName filed of a fasta header in the UniProt protein fasta file (https://www.uniprot.org/help/fasta-headers)

  • A gene ID is a canonical accession extracted from the Reference Proteomes gene2acc gene mapping file (https://www.ebi.ac.uk/reference_proteomes). Some examples of gene IDs for plant genomes in the current PhyloGenes release (version 1.0) are:

AMTR_s00095p00129960

Amborella trichopoda

AT5G40340

Arabidopsis thaliana

BRADI1G05340

Brachypodium distachyon (purple false brome)

Bra028346

Brassica rapa subsp. Pekinensis (Chinese cabbage)

CHLREDRAFT_100021

Chlamydomonas reinhardtii 

CISIN_1g031659mg

Citrus sinensis (orange)

Csa_2G193310

Cucumis sativus (cucumber)

MIMGU_mgv1a015586mg

Erythranthe guttata (yellow monkey flower)

GLYMA_19G186800

Glycine max (soybean)

LOC107928983

Gossypium hirsutum (cotton)

HannXRQ_Chr17g0538971

Helianthus annuus (sunflower)

HORVU1Hr1G078150

Hordeum vulgare (barley)

MTR_7g106780

Medicago truncatula (barrelclover)

GSMUA_Achr5G22230_001

Musa acuminata (banana)

LOC107769479

Nicotiana tabacum (tobacco)

Os05g0149200

Oryza sativa (rice)

OT_ostta12g02680

Ostreococcus tauri 

LOC103716570

Phoenix dactylifera (date palm)

PHYPADRAFT_101994

Physcomitrella patens

POPTR_0013s13320, POPTR_012G081500v3

Populus trichocarpa (black cottonwood)

PRUPE_6G345200

Prunus persica (peach)

RCOM_0992390

Ricinus communis (castor bean)

Si023517m.g

Setaria italica (foxtail millet)

Solyc02g086750.1

Solanum lycopersicum (tomato)

SORBI_3009G191200

Sorghum bicolor (sorghum)

TCM_046274

Theobroma cacao (cocoa)

TRIAE_CS42_2BS_TGACv1_146026_AA0453440

Triticum aestivum (wheat)

VIT_07s0141g00710

Vitis vinifera (grape)

Zm00001d007662

Zea mays (corn)

Looking for a gene family that includes genes sharing a specific function 

You can use one or more keywords that describe a function. For example, "omega-3 desaturase", or "myb". 
Matches that contain ALL terms in your query are returned. Here we define a term as a string of characters that are NOT separated by any space or common dividers (i.e. a dash). For the example, if you query "omega-3 desaturase", a match could be "omega-3 desaturase" or "omega 3 desaturase", "omega 3 desaturase-like", but NOT "omega desaturase".

If your query didn't return any matches, try a new query with fewer terms.