| Linkage Group | Locus /Gene Name | Probe, Gene or Gene Product | References | Accession # |
| IV | TUA2 | alpha2-tubulin | Silflow et al. (1985) | M11448 |
| IV | GP54 | random genomic fragment | This study | |
| IV | BLD1 | intraflagellar transport protein 52 | Brazelton et al. (2001); Deane et al.(2001) | AF397450 |
| IV | COX3 | cytochrome c oxidase subunit III | Perez-Martinez et al. (2000) | AF233515 |
| IV | PF20 | protein required for flagellar central pair microtubule assembly | Smith and Lefebvre (1997) | U78547 |