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 nubp2 (ENSTRUG00000014539) (Fugu)		AlignView depth	PhyloView depth
Fungi/Metazoa group	~1500 Mya	350 species	1088 homologs (oldest homol.)
Bilateria	~580 Mya	348 species	1084 homologs (dupl. node) 1067 homologs (dupl. node) 704 homologs (dupl. node) 344 homologs
Chordata	~550 Mya	344 species	341 homologs
Vertebrata	~550 Mya	340 species	335 homologs
Euteleostomi	~420 Mya	336 species	332 homologs
Neopterygii	~314 Mya	95 species	97 homologs
Osteoglossocephalai	~267 Mya	93 species	95 homologs
Clupeocephala	~229 Mya	89 species	91 homologs
Euteleosteomorpha	~206 Mya	81 species	83 homologs
Acanthomorphata	~148 Mya	79 species	81 homologs
Percomorphaceae	~128 Mya	77 species	79 homologs
Percomorphaceae_A	~128 Mya	75 species	77 homologs
Percomorphaceae_B	~128 Mya	73 species	75 homologs
Eupercaria	~110 Mya	9 species	11 homologs
Tetraodontiformes	~77 Mya	5 species	7 homologs
Tetraodontidae	~51 Mya	3 species	3 homologs
Fugu	~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