Genomicus v110.01 - 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 Nkx3-1 (ENSMUSG00000022061) (Mouse)		AlignView depth	PhyloView depth
Fungi/Metazoa group	~1500 Mya	399 species
Bilateria	~580 Mya	397 species
Chordata	~550 Mya	393 species
Vertebrata	~550 Mya	389 species
Gnathostomata	~473 Mya	385 species
Euteleostomi	~420 Mya	383 species	348 homologs (oldest homol.)
Sarcopterygii	~400 Mya	253 species	234 homologs
Tetrapoda	~359 Mya	251 species	233 homologs
Amniota	~326 Mya	247 species	230 homologs
Mammalia	~184 Mya	193 species	184 homologs
Theria	~166 Mya	191 species	182 homologs
Eutheria	~102 Mya	181 species	173 homologs
Boreoeutheria	~95 Mya	171 species	163 homologs
Euarchontoglires	~90 Mya	95 species	92 homologs
Euarchontoglires_A	~90 Mya	47 species	46 homologs
Glires	~81 Mya	45 species	44 homologs
Rodentia	~80 Mya	41 species	40 homologs
Rodentia_B	~80 Mya	25 species	25 homologs
Myomorpha	~51 Mya	23 species	23 homologs
Muroidea	~44 Mya	21 species	21 homologs
Muroidea_A	~44 Mya	19 species	19 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'