Genomicus v96.01 - 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 ENSPSIG00000002105 (Chinese turtle)		AlignView depth	PhyloView depth
Fungi/Metazoa group	~1500 Mya	350 species
Bilateria	~580 Mya	348 species	1730 homologs (oldest homol.)
Chordata	~550 Mya	344 species	1727 homologs
Vertebrata	~550 Mya	340 species	1724 homologs (dupl. node) 873 homologs
Euteleostomi	~420 Mya	336 species	870 homologs (dupl. node) 440 homologs
Sarcopterygii	~400 Mya	240 species	342 homologs
Tetrapoda	~359 Mya	238 species	340 homologs
Amniota	~326 Mya	236 species	338 homologs
Sauria	~267 Mya	67 species	116 homologs (dupl. node) 92 homologs
Archelosauria	~250 Mya	57 species	72 homologs
Cryptodira	~161 Mya	7 species	16 homologs
Chinese turtle	~0 Mya	1 species	2 homologs (dupl. node) 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