Genomicus v110.01 - 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 olig4 (ENSCARG00000016897) (Goldfish)		AlignView depth	PhyloView depth
Fungi/Metazoa group	~1500 Mya	399 species
Bilateria	~580 Mya	397 species
Chordata	~550 Mya	393 species
Vertebrata	~550 Mya	389 species
Gnathostomata	~473 Mya	385 species
Euteleostomi	~420 Mya	383 species	157 homologs (oldest homol.)
Actinopterygii	~386 Mya	129 species	145 homologs
Neopterygii	~314 Mya	127 species	143 homologs
Osteoglossocephalai	~267 Mya	125 species	141 homologs
Clupeocephala	~229 Mya	121 species	137 homologs
Otomorpha	~221 Mya	19 species	27 homologs
Otophysi	~152 Mya	15 species	23 homologs
Cyprinoidei	~34 Mya	7 species	15 homologs
Cyprininae	~34 Mya	5 species	13 homologs (dupl. node) 6 homologs
Goldfish	~0 Mya	1 species	2 homologs (dupl. node) 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'