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 FRK (ENSOPRG00000005984) (Pika)		AlignView depth	PhyloView depth
Fungi/Metazoa group	~1500 Mya	373 species
Bilateria	~580 Mya	371 species
Chordata	~550 Mya	367 species
Vertebrata	~550 Mya	363 species	398 homologs (oldest homol.)
Gnathostomata	~473 Mya	359 species	387 homologs
Euteleostomi	~420 Mya	357 species	385 homologs
Sarcopterygii	~400 Mya	241 species	247 homologs
Tetrapoda	~359 Mya	239 species	245 homologs
Amniota	~326 Mya	237 species	243 homologs
Mammalia	~184 Mya	169 species	173 homologs
Theria	~166 Mya	167 species	167 homologs
Eutheria	~102 Mya	158 species	158 homologs
Boreoeutheria	~95 Mya	149 species	149 homologs
Euarchontoglires	~90 Mya	104 species	104 homologs
Glires	~81 Mya	57 species	57 homologs
Lagomorpha	~48 Mya	3 species	3 homologs
Pika	~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