| Gene Id | Definition |
| CT037 | hypothetical protein (basic) |
| CT081 | chlamydial T2 protein (basic) |
| CT115 | hypothetical protein (basic) |
| CT116 | hypothetical protein |
| CT117 | hypothetical protein |
| CT118 | hypothetical protein |
| CT119 | inclusion membrane protein A |
| CT120 | hypothetical protein |
| CT134 | hypothetical protein |
| CT156 | hypothetical protein (basic) |
| CT159 | hypothetical protein |
| CT160 | hypothetical protein |
| CT161 | hypothetical protein (basic) |
| CT162 | hypothetical protein |
| CT163 | hypothetical protein (basic) |
| CT164 | hypothetical protein |
| CT165 | hypothetical protein (basic) |
| CT166 | toxin B-related protein |
| CT167 | hypothetical protein |
| CT168 | hypothetical protein |
| CT169 | Trp operon repressor |
| CT170 | tryptophan synthase beta subunit |
| CT171 | tryptophan synthase alpha chain |
| CT172 | hypothetical protein |
| CT173 | hypothetical protein (basic) |
| CT174 | hypothetical protein (basic) |
| CT192 | hypothetical protein (acidic) |
| CT196 | hypothetical protein |
| CT214 | hypothetical protein (basic) |
| CT224 | hypothetical protein (acidic) |
| CT225 | hypothetical protein |
| CT227 | hypothetical protein |
| CT249 | hypothetical protein |
| CT300 | hypothetical protein (basic) |
| CT327 | phosphoribosylanthranilate isomerase |
| CT352 | hypothetical protein (basic) |
| CT357 | hypothetical protein (basic) |
| CT357R | hypothetical protein (basic) |
| CT358 | hypothetical protein (acidic) |
| CT359 | probable biotin synthase |
| CT631 | hypothetical protein |
| CT694 | hypothetical protein |
| CT793 | hypothetical protein (basic) |
| CT867 | conserved hypothetical protein (acidic) (possible thiol protease) |
| CT873 | hypothetical protein |
| CT875 | hypothetical protein |
| pCT02 | plasmid virulence factor pGP2-D |
| pCT03 | plasmid virulence factor PGP3-D. |
| pCT04 | plasmid virulence factor PGP4-D |
| pCT07 | plasmid virulence factor PGP7-D |