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 Eef1d (ENSPEMG00000012989) (Northern American deer mouse)		AlignView depth	PhyloView depth
Fungi/Metazoa group	~1500 Mya	399 species	1730 homologs (oldest homol.)
Bilateria	~580 Mya	397 species	1728 homologs
Chordata	~550 Mya	393 species	1721 homologs
Vertebrata	~550 Mya	389 species	1714 homologs (dupl. node) 1711 homologs (dupl. node) 998 homologs
Gnathostomata	~473 Mya	385 species	994 homologs (dupl. node) 667 homologs (dupl. node) 426 homologs
Euteleostomi	~420 Mya	383 species	424 homologs
Sarcopterygii	~400 Mya	253 species	412 homologs
Tetrapoda	~359 Mya	251 species	410 homologs
Amniota	~326 Mya	247 species	406 homologs
Mammalia	~184 Mya	193 species	348 homologs
Theria	~166 Mya	191 species	346 homologs
Eutheria	~102 Mya	181 species	332 homologs
Boreoeutheria	~95 Mya	171 species	324 homologs
Euarchontoglires	~90 Mya	95 species	225 homologs (dupl. node) 29 homologs (dupl. node) 12 homologs
Euarchontoglires_A	~90 Mya	47 species	11 homologs
Glires	~81 Mya	45 species	10 homologs
Rodentia	~80 Mya	41 species	9 homologs
Rodentia_B	~80 Mya	25 species	8 homologs
Myomorpha	~51 Mya	23 species	7 homologs
Muroidea	~44 Mya	21 species	6 homologs
Muroidea_A	~44 Mya	19 species	5 homologs
Cricetidae	~20 Mya	7 species	4 homologs
Cricetidae_B	~18 Mya	3 species	3 homologs
Northern American deer 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'