Genomicus v98.01 - Gene Search

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 PSMD11 (ENSEASG00005010909) (Donkey)		AlignView depth	PhyloView depth
Fungi/Metazoa group	~1500 Mya	373 species	970 homologs (oldest homol.)
Bilateria	~580 Mya	371 species	968 homologs (dupl. node) 954 homologs (dupl. node) 712 homologs (dupl. node) 259 homologs
Chordata	~550 Mya	367 species	258 homologs
Vertebrata	~550 Mya	363 species	257 homologs
Gnathostomata	~473 Mya	359 species	256 homologs
Euteleostomi	~420 Mya	357 species	254 homologs
Sarcopterygii	~400 Mya	241 species	253 homologs
Tetrapoda	~359 Mya	239 species	251 homologs
Amniota	~326 Mya	237 species	249 homologs
Mammalia	~184 Mya	169 species	188 homologs
Theria	~166 Mya	167 species	187 homologs
Eutheria	~102 Mya	158 species	178 homologs
Boreoeutheria	~95 Mya	149 species	169 homologs
Laurasiatheria	~88 Mya	44 species	44 homologs
Equus	~7 Mya	3 species	3 homologs
Donkey	~0 Mya	1 species	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