GenomicusFish v03.01 - Gene Search

Enter a gene name or a CNE name (Ensembl nomenclature or approved gene symbol)
You can restrict the search to one species (ancestral or modern).

Search by gene name

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Selected examples: fgf1a, LOC106583184, AMCG00015381 More details on examples can be found here

Genomicus is a genome browser that enables users to navigate in genomes in several dimensions: linearly along chromosome axes, transversaly across different species, and chronologicaly along evolutionary time.

Once a query gene has been entered, it is displayed in its genomic context in parallel to the genomic context of all its orthologous and paralogous copies in all the other sequenced metazoan genomes. Moreover, Genomicus stores and displays the predicted ancestral genome structure in all the ancestral species within the phylogenetic range of interest.

All the data on extant species displayed in this browser are from Ensembl, NCBI, GigaDB, and the Genofish project.

Summary statistics of Genomicus version 03.01: (view species tree in pdf or newick)


Number of extant species	101
Number of extant genes	2440510
Number of ancestral species	100
Number of ancestral genes	3018967
Number of ancestral synteny blocks	71737

What's new in version 03.01 ?

Version 03.01 of Genomicus-Genofish
The 74 teleost fish comparative atlas described by Parey, E et al. in "An atlas of fish genome evolution reveals delayed rediploidization following the teleost whole-genome duplication" is available here for browsing or here for download

Other Genomicus Sites

Citing Genomicus:
Genomicus in 2022: comparative tools for thousands of genomes and reconstructed ancestors .
Nga Thi Thuy Nguyen, Pierre Vincens, Jean-Francois Dufayard, Hugues Roest Crollius, Alexandra Louis. Nucleic Acids Research 2021;doi: 10.1093/nar/gkab1091

Advanced Options

-evalue <Real>
 Expectation value (E) threshold for saving hits
 Default = '10'

-word_size <Integer, >=2>
 Word size for wordfinder algorithm
 Default = '3'

-gapopen <Integer>
 Cost to open a gap
 Default = '11'

-gapextend <Integer>
 Cost to extend a gap
 Default = '1'

-matrix <String>
Scoring matrix name (normally BLOSUM62)

-threshold <Real, >=0>
Minimum word score such that the word is added to the BLAST lookup table
 Default = '11'

-window_size <Integer, >=0>
Multiple hits window size, use 0 to specify 1-hit algorithm
 Default = '40'

A more recent version of genomicus is available here