TABLE 1:
Analysis of foregut epithelial genes for PHA-4 binding.
| Gene | PHA-4 bound? | Location of peak(s) | Expression pattern |
|---|---|---|---|
| afd-1 | Yes | Upstream, at TSS, and/or intronic, depending on isoform | Epithelial |
| ajm-1 | Yes | Intronic | Epithelial |
| cdh-4 | Yes | Intronic | Epithelial |
| crb-1 | Yes | Intronic | Epithelial |
| crb-3 | Yes | Upstream | Epithelial |
| dlg-1 | Yes | Upstream at TSS, intronic | Epithelial |
| eat-20 | Yes | Upstream, at TSS, intronic | Epithelial |
| erm-1 | Yes | Upstream, intronic | Epithelial |
| hmp-1 | Yes | Upstream at TSS | Epithelial |
| hmp-2 | Yes (operon) | Upstream at TSS of operon | Epithelial |
| hmr-1 | Yes | Upstream, at TSS, intronic | Epithelial |
| jac-1 | Yes | Upstream, intronic | Epithelial |
| lam-1 | Yes | Upstream at TSS | Epithelial |
| lam-2 | Yes | Upstream at TSS | Epithelial |
| lam-3 | Yes | Upstream | Epithelial |
| let-413 | Yes | Upstream at TSS | Epithelial |
| let-502 | Yes | Upstream at TSS | Epithelial |
| let-805 | Yes | Upstream and within gene body | Epithelial |
| lgl-1 | Yes | Upstream at TSS | Epithelial |
| magi-1 | Yes | Upstream near TSS, intronic | Epithelial |
| mel-11 | Yes | Upstream TSS | Epithelial |
| par-3 | Yes | Upstream and at TSS of smaller, epithelial isoform | Epithelial |
| par-6 | Yes (operon) | Upstream at TSS of operon | Epithelial |
| pat-3 | Yes | Upstream at TSS | Epithelial |
| pkc-3 | Yes | Upstream at TSS | Epithelial |
| sax-7 | Yes | Upstream, intronic | Epithelial |
| vab-9 | Yes | Upstream, at TSS | Epithelial |
| cdc-42 | Yes | Upstream at TSS | Broad |
| die-1 | Yes | Upstream, at TSS, intronic | Broad |
| ifa-1 | Yes | Upstream at TSS and intronic | Broad |
| ifb-1 | Yes | Intronic | Broad |
| let-858 | Yes | Upstream at TSS | Broad |
| mig-10 | Yes | Upstream/intronic, depending on isoform | Broad |
| pix-1 | Yes | Upstream at TSS, intronic | Broad |
| srgp-1 | Yes | Upstream at TSS | Broad |
| unc-34 | Yes | Within first intron; also one several kilobases upstream | Broad |
| unc-94 | Yes | Within large introns 1 and 3 (or upstream of smaller isoform at TSS) | Broad |
| vab-10 | Yes | Upstream, at TSS, intronic | Broad |
| vab-19 | Yes | Upstream | Broad |
| wsp-1 | Yes | Upstream, intronic | Broad |
| eps-8 | Yes | Upstream, at TSS, intronic | Broad |
| cyk-4 | Yes | Upstream at TSS | Ubiquitous |
| gex-2 | Yes | Upstream at TSS (potentially at bidirectional promoter) | Ubiquitous |
| gex-3 | Yes | Upstream at TSS | Ubiquitous |
| rho-1 | Yes | Upstream at TSS | Ubiquitous |
| spc-1 | Yes | Upstream at TSS | Ubiquitous |
| toca-1 | Yes | Upstream, at TSS, intronic | Ubiquitous |
| unc-70 | Yes | Upstream at TSS, intronic | Ubiquitous |
| wve-1 | Yes | Upstream at TSS (potentially at bidirectional promoter) | Ubiquitous |
| zen-4 | Yes | Upstream at TSS | Ubiquitous |
| abi-1 | Yes | Upstream at TSS (potentially at bidirectional promoter) | Unknown |
| apr-1 | No | n/a | Ubiquitous |
| ced-10 | No | n/a | Ubiquitous |
| ect-2 | No | n/a | Ubiquitous |
| mig-2 | No | n/a | Ubiquitous |
| toca-2 | No | n/a | Ubiquitous |
| clc-1 | No | n/a | Unknown |
| rac-2 | No | n/a | Unknown |
Fifty-seven C. elegans genes that have roles and/or are expressed in epithelial cells, including those of the foregut. Of these, 50 have an associated PHA-4 ChIP peak. The location of the ChIP peaks (the majority of which are at the TSS of the bound genes) and expression pattern of the genes are also shown.