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 p3h4 (ENSMZEG00005022778) (Zebra mbuna)		AlignView depth	PhyloView depth
Fungi/Metazoa group	~1500 Mya	350 species
Bilateria	~580 Mya	348 species	767 homologs (oldest homol.)
Chordata	~550 Mya	344 species	764 homologs
Vertebrata	~550 Mya	340 species	757 homologs
Euteleostomi	~420 Mya	336 species	747 homologs (dupl. node) 406 homologs
Neopterygii	~314 Mya	95 species	170 homologs
Osteoglossocephalai	~267 Mya	93 species	168 homologs
Clupeocephala	~229 Mya	89 species	164 homologs (dupl. node) 90 homologs
Euteleosteomorpha	~206 Mya	81 species	82 homologs
Acanthomorphata	~148 Mya	79 species	80 homologs
Percomorphaceae	~128 Mya	77 species	78 homologs
Percomorphaceae_A	~128 Mya	75 species	76 homologs
Percomorphaceae_B	~128 Mya	73 species	74 homologs
NAME_3	~128 Mya	63 species	64 homologs
Ovalentaria	~111 Mya	49 species	48 homologs
NAME_9	~128 Mya	21 species	21 homologs
Cichlidae	~95 Mya	13 species	13 homologs
Pseudocrenilabrinae	~22 Mya	11 species	11 homologs
NAME_10	~22 Mya	9 species	9 homologs
Haplochromini	~6 Mya	7 species	7 homologs
NAME_11	~6 Mya	5 species	5 homologs
NAME_12	~5 Mya	3 species	3 homologs
Zebra mbuna	~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