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 akap1b (ENSCCRG00000026347) (Common carp reference)		AlignView depth	PhyloView depth
Fungi/Metazoa group	~1500 Mya	399 species
Bilateria	~580 Mya	397 species	496 homologs (oldest homol.)
Chordata	~550 Mya	393 species	492 homologs
Vertebrata	~550 Mya	389 species	487 homologs
Gnathostomata	~473 Mya	385 species	482 homologs
Euteleostomi	~420 Mya	383 species	480 homologs
Actinopterygii	~386 Mya	129 species	212 homologs
Neopterygii	~314 Mya	127 species	210 homologs
Osteoglossocephalai	~267 Mya	125 species	208 homologs (dupl. node) 190 homologs (dupl. node) 139 homologs
Clupeocephala	~229 Mya	121 species	135 homologs
Otomorpha	~221 Mya	19 species	24 homologs
Otophysi	~152 Mya	15 species	20 homologs
Cyprinoidei	~34 Mya	7 species	12 homologs
Cyprininae	~34 Mya	5 species	10 homologs (dupl. node) 5 homologs
Cyprininae_a	~34 Mya	3 species	3 homologs
Common carp reference	~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'