Set 1 genes regulated by Smad7 in isolated ectoderm
| Clone . | Identity . | Increase in array . | RT-PCR analysis* . | Whole-mount in situ hybridization† . |
|---|---|---|---|---|
| 28-A12 | Cytokeratin- type II‡ | Four- to fivefold | Downregulated | Epidermis |
| 45-A6 | Hypothetical protein. DKFZp586 G1123 | Sixfold | Upregulated | Dorsal-neural |
| 45-G5 | Steroidogenic acute regulatory protein-related (STAR) protein | Fourfold | N/D | N/D |
| 45-G6 | Xenopus cold-inducible RNA-binding protein 2 (CIRP-2) | Three- to sevenfold | Unchanged | Neural |
| 45-H5 | Pro-/Para-thymosin alpha homolog | Eightfold | Upregulated | Neural |
| 46-E2 | FUSE/KH-binding protein | Fourfold | Upregulated | Dorsal-neural |
| 46-G6 | No matches | Threefold | N/D | N/D |
| 47-A4 | CTP synthase II | Fourfold | Upregulated | N/D |
| 47-B11 | Plexin/Semaphorin receptor | Fourfold | Upregulated | Dorsal-neural |
| 47-F3 | No matches | Fivefold | Unchanged | Neural |
| 47-F5 | High-mobility-group (HMG)-like protein | Four- to fivefold | Upregulated | N/D |
| 47-G3 | Human hypothetical protein. | Threefold | Upregulated | Dorsal/anterior neural |
| 47-G6 | DG-42‡ | 4.5-fold | Downregulated | Ventral/epidermal |
| 47-G10 | N-acetyl glucosamine transporter | Fourfold | N/D | N/D |
| 48-A2 | Xenopus tight junction TM-protein; Claudin 3 | Fourfold | Upregulated | Published neural |
| 48-F11 | Hypothetical protein. | Fourfold | Downregulated | Dorsal-neural |
| 49-B2 | Xenopus cold-inducible RNA-binding protein 1 (CIRP-1) | 3.5-fold | Unchanged | N/D |
| 51-A10 | Hypothetical protein | 3.5-fold | Unchanged | Neural |
| 51-E6 | Human, mouse hnRNP-D-like protein | 3.5-fold | Upregulated | Neural |
| 52-E10 | No matches | Fivefold | Upregulated | N/D |
| 52-G11 | Non-receptor protein phosphatase | Fourfold | Unchanged | N/D |
| 54-B3 | βPLC-C/cathepsin-L | Sixfold | Upregulated | Neural |
| 55-H2 | IkB-ϵ | Sixfold | N/D | Neural |
| 56-G6 | Xenopus High-mobility-group (HMG)-X | Fourfold | Unchanged | Published neural |
| 57-D10 | Histone H2A-Z12 | Fivefold | Upregulated | Neural |
| 57-E10 | Clathrin coat adaptor protein complex AP-2 | 3.5-fold | N/D | Published neural |
| 57-G10 | TGFβ activating kinase binding protein 3 | Fourfold | Upregulated | Dorsal/Anterior neural |
| 61-B12 | EF1α | Fourfold | N/D | N/D |
| 61-G10 | Microtubule-associated protein | Threefold | N/D | Published neural |
| 69-F3 | No matches | Sixfold | N/D | N/D |
| M13-1-G10 | PNK-2 | Fourfold | N/D | N/D |
| pBS-G7 | Activin-Bc | Fivefold | N/D | Published neural |
| pBS-G8 | Alk5 | Fivefold | N/D | N/D |
| Clone . | Identity . | Increase in array . | RT-PCR analysis* . | Whole-mount in situ hybridization† . |
|---|---|---|---|---|
| 28-A12 | Cytokeratin- type II‡ | Four- to fivefold | Downregulated | Epidermis |
| 45-A6 | Hypothetical protein. DKFZp586 G1123 | Sixfold | Upregulated | Dorsal-neural |
| 45-G5 | Steroidogenic acute regulatory protein-related (STAR) protein | Fourfold | N/D | N/D |
| 45-G6 | Xenopus cold-inducible RNA-binding protein 2 (CIRP-2) | Three- to sevenfold | Unchanged | Neural |
| 45-H5 | Pro-/Para-thymosin alpha homolog | Eightfold | Upregulated | Neural |
| 46-E2 | FUSE/KH-binding protein | Fourfold | Upregulated | Dorsal-neural |
| 46-G6 | No matches | Threefold | N/D | N/D |
| 47-A4 | CTP synthase II | Fourfold | Upregulated | N/D |
| 47-B11 | Plexin/Semaphorin receptor | Fourfold | Upregulated | Dorsal-neural |
| 47-F3 | No matches | Fivefold | Unchanged | Neural |
| 47-F5 | High-mobility-group (HMG)-like protein | Four- to fivefold | Upregulated | N/D |
| 47-G3 | Human hypothetical protein. | Threefold | Upregulated | Dorsal/anterior neural |
| 47-G6 | DG-42‡ | 4.5-fold | Downregulated | Ventral/epidermal |
| 47-G10 | N-acetyl glucosamine transporter | Fourfold | N/D | N/D |
| 48-A2 | Xenopus tight junction TM-protein; Claudin 3 | Fourfold | Upregulated | Published neural |
| 48-F11 | Hypothetical protein. | Fourfold | Downregulated | Dorsal-neural |
| 49-B2 | Xenopus cold-inducible RNA-binding protein 1 (CIRP-1) | 3.5-fold | Unchanged | N/D |
| 51-A10 | Hypothetical protein | 3.5-fold | Unchanged | Neural |
| 51-E6 | Human, mouse hnRNP-D-like protein | 3.5-fold | Upregulated | Neural |
| 52-E10 | No matches | Fivefold | Upregulated | N/D |
| 52-G11 | Non-receptor protein phosphatase | Fourfold | Unchanged | N/D |
| 54-B3 | βPLC-C/cathepsin-L | Sixfold | Upregulated | Neural |
| 55-H2 | IkB-ϵ | Sixfold | N/D | Neural |
| 56-G6 | Xenopus High-mobility-group (HMG)-X | Fourfold | Unchanged | Published neural |
| 57-D10 | Histone H2A-Z12 | Fivefold | Upregulated | Neural |
| 57-E10 | Clathrin coat adaptor protein complex AP-2 | 3.5-fold | N/D | Published neural |
| 57-G10 | TGFβ activating kinase binding protein 3 | Fourfold | Upregulated | Dorsal/Anterior neural |
| 61-B12 | EF1α | Fourfold | N/D | N/D |
| 61-G10 | Microtubule-associated protein | Threefold | N/D | Published neural |
| 69-F3 | No matches | Sixfold | N/D | N/D |
| M13-1-G10 | PNK-2 | Fourfold | N/D | N/D |
| pBS-G7 | Activin-Bc | Fivefold | N/D | Published neural |
| pBS-G8 | Alk5 | Fivefold | N/D | N/D |
The nearest homologs of these clones are listed. Five clones showed no matches in database searches. Four clones have been described in genome-wide sequencing projects as hypothetical proteins. The majority of known clones were full length.
N/D, not determined.
RT-PCR analysis performed during neurula stages (stage 15) (see alsoFig. 2 and text for discussion).
Whole-mount in situ hybridization data are based on neurula-stage embryos. Neural implies expression detected in the nervous system, although not necessarily restricted to it (see also Fig. 4).
Genes identified as downregulated genes. All other genes represent upregulated clones identified in the microarray.