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 lefty1 (ENSORLG00015001203) (Japanese Medaka HSOK)		AlignView depth	PhyloView depth
Fungi/Metazoa group	~1500 Mya	350 species
Bilateria	~580 Mya	348 species
Chordata	~550 Mya	344 species	466 homologs (oldest homol.)
Vertebrata	~550 Mya	340 species	462 homologs
Euteleostomi	~420 Mya	336 species	458 homologs
Neopterygii	~314 Mya	95 species	107 homologs
Osteoglossocephalai	~267 Mya	93 species	105 homologs
Clupeocephala	~229 Mya	89 species	97 homologs
Euteleosteomorpha	~206 Mya	81 species	83 homologs
Acanthomorphata	~148 Mya	79 species	79 homologs
Percomorphaceae	~128 Mya	77 species	77 homologs
Percomorphaceae_A	~128 Mya	75 species	75 homologs
Percomorphaceae_B	~128 Mya	73 species	73 homologs
NAME_3	~128 Mya	63 species	63 homologs
Ovalentaria	~111 Mya	49 species	49 homologs
Atherinomorphae	~93 Mya	27 species	27 homologs
Oryzias	~10 Mya	7 species	7 homologs
Oryzias latipes	~2 Mya	5 species	5 homologs
Japanese Medaka HSOK	~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