Orthologous Genes/Proteins
COG analysis
Clusters of Orthologous Groups - COG protein database was generated by comparing predicted and known proteins in all completely sequenced microbial genomes to infer sets of orthologs. Each COG consists of a group of proteins found to be orthologous across at least three lineages and likely corresponds to an ancient conserved domain. Sites which offer this analysis include:
RAST, BASys, and JGI IMG
RAST
(Reference: Aziz RK et al. 2008. BMC Genomics 9:75),
and
BASys
Bacterial Annotation System;
(Reference: Van Domselaar GH et al. 2005. Nucleic
Acids Res. 33(Web Server issue):W455-459.)
and
JGI IMG
Integrated Microbial Genomes;
(Reference: Markowitz VM et al. 2014. Nucl. Acids
Res. 42: D560-D567. )
Other sites:
EggNOG
EggNOG
- A database of orthologous groups and functional annotation that derives
Nonsupervised Orthologous Groups (NOGs) from complete genomes, and then
applies a comprehensive characterization and analysis pipeline to the
resulting gene families.
(Reference: Powell S et al. 2014. Nucleic Acids Res.
42 (D1): D231-D239)
KAAS
KAAS
(KEGG Automatic Annotation Server) provides functional annotation of
genes by BLAST or GHOST comparisons against the manually curated KEGG
GENES database. The result contains KO (KEGG Orthology) assignments and
automatically generated KEGG pathways.
(Reference: Moriya Y et al. 2007. Nucleic Acids Res.
35(Web Server issue):W182-185).
PHROGS
PHROGS
- (PHage Remote Orthologous GroupS) - is a library of 38,880 viral
protein families generated using a new clustering approach based on
remote homology detection by HMM profile-profile comparisons.
(Reference: Tersian P et al. 2021. NAR Genom
Bioinform. 3(3): lqab067).
Updated: December, 2025