GenomicusPlants v41.01

Here you can choose the oldest ancestor of your phylogenetic range of interest and the view you want to display by clicking on one of the following links.

PhyloView will show the conservation of the neighbourhood of the reference gene in the other species, according to the gene phylogenetic tree.
AlignView will align the gene order of the selected species, according to the species phylogenetic tree.

Root species for TUBG2 (Zm00001d037582) (Zea mays)		AlignView depth	PhyloView depth
Eukaryota	~10 Mya	114 species	170 homologs (oldest homol. - dupl. node) 151 homologs
Viridiplantae	~10 Mya	99 species	150 homologs
Embryophyta	~10 Mya	95 species	146 homologs (dupl. node) 138 homologs
Tracheophyta	~10 Mya	93 species	137 homologs
Magnoliophyta	~10 Mya	91 species	136 homologs
Mesangiospermae	~10 Mya	89 species	130 homologs
Petrosaviidae	~10 Mya	45 species	52 homologs
commelinids	~10 Mya	43 species	50 homologs
Poaceae	~10 Mya	41 species	48 homologs
Panicoideae	~10 Mya	5 species	9 homologs
Andropogoneae	~10 Mya	3 species	7 homologs
Zea mays	~0 Mya	1 species	5 homologs (dupl. node) 4 homologs (dupl. node) 1 homolog

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