Genomicus v89.01 - 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 fgf1a (ENSDARG00000017542) (Zebrafish)		AlignView depth	PhyloView depth
Fungi/Metazoa group	~1500 Mya	130 species
Bilateria	~580 Mya	128 species	274 homologs (oldest homol.)
Olfactores	~550 Mya	124 species	270 homologs
Craniata	~550 Mya	120 species	267 homologs (dupl. node) 244 homologs (dupl. node) 137 homologs
Euteleostomi	~420 Mya	118 species	136 homologs
Neopterygii	~330 Mya	21 species	39 homologs
Clupeocephala	~300 Mya	19 species	37 homologs (dupl. node) 19 homologs
Otophysi	~150 Mya	3 species	3 homologs
Zebrafish	~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