Genomicus v97.01 - 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 ENSCING00000005360 (Ciona intestinalis)		AlignView depth	PhyloView depth
Fungi/Metazoa group	~1500 Mya	358 species	2770 homologs (oldest homol. - dupl. node) 1984 homologs
Bilateria	~580 Mya	356 species	1982 homologs (dupl. node) 1019 homologs (dupl. node) 499 homologs
Chordata	~550 Mya	352 species	494 homologs
Ciona	~100 Mya	3 species	3 homologs
Ciona intestinalis	~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