Genomicus v105.01 - 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 Tram2 (ENSMUSG00000041779) (Mouse)		AlignView depth	PhyloView depth
Fungi/Metazoa group	~1500 Mya	396 species
Bilateria	~580 Mya	394 species	1252 homologs (oldest homol.)
Chordata	~550 Mya	390 species	1248 homologs
Vertebrata	~550 Mya	386 species	1244 homologs (dupl. node) 1193 homologs (dupl. node) 407 homologs
Gnathostomata	~473 Mya	382 species	406 homologs
Euteleostomi	~420 Mya	380 species	405 homologs
Sarcopterygii	~400 Mya	250 species	251 homologs
Tetrapoda	~359 Mya	248 species	249 homologs
Amniota	~326 Mya	244 species	245 homologs
Mammalia	~184 Mya	190 species	191 homologs
Theria	~166 Mya	188 species	189 homologs
Eutheria	~102 Mya	178 species	179 homologs
Boreoeutheria	~95 Mya	168 species	169 homologs
Euarchontoglires	~90 Mya	92 species	94 homologs
Glires	~81 Mya	43 species	45 homologs
Rodentia	~80 Mya	39 species	41 homologs
Sciurognathi	~79 Mya	31 species	31 homologs
Myomorpha	~51 Mya	22 species	22 homologs
Muroidea	~44 Mya	20 species	20 homologs
Murinae	~20 Mya	11 species	11 homologs
Mus	~7 Mya	9 species	9 homologs
Mus_A	~6 Mya	7 species	7 homologs
Mus_B	~2 Mya	5 species	5 homologs
Mouse	~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