Table 2.
Examples of GFP+ Clones That Align With the Region 500bp Upstream of the Transcription Start Sites of Refgenes
| Clone ID | Refgene ID | Gene name | Position | CpG island | Validation | |||||
|---|---|---|---|---|---|---|---|---|---|---|
| GFP+ low sequences | ||||||||||
| SKA13-H04 | NM_017584 | aldehyde reductase-like 6 | (-245, +88) | + | nt | |||||
| SKA05-G11 | NM_007058 | calpain 11 | (-628, -327) | + | nt | |||||
| SKA14-C06 | NM_016011 | CGI-63 protein | (-418, +35) | - | nt | |||||
| SKG03-E09 | NM_005227 | ephrin-A4 | (-335, -42) | + | LUC+++ | |||||
| SKT01-D1 | NM_000153 | galactosylceramidase | (-171, +123) | - | nt | |||||
| SKT02-B4 | NM_005517 | high mobility group protein 17 | (-5, +256) | - | LUC++ | |||||
| SKT04-A11 | NM_017721 | hypothetical protein FLJ20241 | (-552, -36) | - | LUC++ | |||||
| SKT06-B3 | NM_024643 | hypothetical protein FLJ23093 | (-264, +100) | + | LUC++ | |||||
| SKT02-C4 | NM_021732 | hypothetical protein PP5395 | (-361, +100) | + | nt | |||||
| SKA05-E05 | NM_017566 | hypothetical protein DKFZp434G0522 | (-792, -447) | - | nt | |||||
| SKT01-B3 | NM_024055 | hypothetical protein MGC5499 | (-274, +223) | + | βGAL+ | |||||
| SK04-H9 | NM_022151 | MAP-1 protein | (-448, -80) | + | nt | |||||
| SKT06-A8 | NM_002513 | non-metastatic cells 3 protein | (-829, -343) | + | nt | |||||
| SKT01-F12 | NM_012392 | peflin | (-508, -214) | + | nt | |||||
| SKA08-D03 | NM_005777 | RNA binding motif protein 6 | (-361, -90) | - | nt | |||||
| SKG04-E05 | NM_003420 | zinc finger protein 35 | (-8, +412) | + | LUC- | |||||
| GFP+ high sequences
|
||||||||||
| SKT08-B3 | NM-001628 | aldo-keto reductase 1 | (-268, +154) | - | LUC- | |||||
| SKG01-H10 | NM_016039 | CGI-99 protein | (-98, +284) | + | βGAL++ | |||||
| RM1-E06 | NM_021254 | chromosome 21 open reading frame 59 | (-176, +96) | + | LUC++ | |||||
| SKG01-E02 | NM_004373 | cytochrome c oxidase Vla 1 | (-315, -65) | + | nt | |||||
| SKA02-B12 | NM_005226 | endothelial diff. sphingolipid GPCR3 | (-247, +70) | - | LUC++ | |||||
| SKG01-F06 | NM_003827 | ethylmaleimide sens factor attach protein | (-595, -296) | + | nt | |||||
| SKA10-D10 | NM_007267 | expressed in activated T/LAK cells | (-429, -115) | + | nt | |||||
| SKA03-C09 | NM_005766 | Ferm, Rhogef, Pleckstrin DM protein | (-396, +94) | - | LUC++ | |||||
| SKG01-H12 | NM_020150 | GTP-binding protein SAR 1 | (-16, +190) | - | LUC++ | |||||
| RM2-A03 | NM_003516 | H2A histone family, member O | (-650, -311) | - | nt | |||||
| SKA04-G10 | NM_015699 | hypothetical protein (DJ159A19.3) | (-496, -198) | - | nt | |||||
| SKT05-C12 | NM_015383 | hypothetical protein DJ328E19C1.1 | (-124, +142) | - | LUC+ | |||||
| SKT03-B7 | NM_031904 | hypothetical protein FKSG44 | (-209, +269) | + | βGAL+++ | |||||
| SKA02-E08 | NM_017977 | hypothetical protein FLJ10040 | (-733, -442) | - | nt | |||||
| SKG02-C07 | NM_032678 | hypothetical protein FLJ13142 | (-473, -217) | + | LUC- | |||||
| SKT03-C7 | NM_024771 | hypothetical protein FLJ13848 | (-405, -59) | + | nt | |||||
| SKG01-A07 | NM_017721 | hypothetical protein FLJ20241 | (-552, -36) | - | nt | |||||
| SKT03-D8 | NM_024643 | hypothetical protein FLJ23093 | (-264, +100) | + | LUC+++ | |||||
| RM2-H12 | NM_024084 | hypothetical protein MGC3196 | (-125, +293) | + | nt | |||||
| RM4-H07 | NM_024516 | hypothetical protein MGC4606 | (-37, +384) | + | nt | |||||
| SKT08-E4 | NM_021732 | hypothetical protein PP5395 | (-361, +100) | + | nt | |||||
| SKA01-E03 | NM_014717 | KIAA0390 gene product | (-58, +169) | - | nt | |||||
| SKT08-G3 | NM_003201 | mitochondria transcription factor 6-like | (-319, -79) | + | LUC+ | |||||
| SKT07-F6 | NM_002633 | phosphoglucomutase 1 | (-330, +94) | + | βGAL++ | |||||
| SKT07-E4 | NM_007182 | Ras association domain family 1 | (-344, -16) | + | βGAL+++ | |||||
| SKG01-A09 | NM_000999 | ribosomal protein L38 | (-85, +261) | + | LUC+ | |||||
| SKA09-B10 | NM_033022 | ribosomal protein S24 | (-254, +109) | + | LUC+++ | |||||
| SKT08-D4 | NM_002966 | S100 calcium binding protein A10 | (-321, -22) | + | LUC++ | |||||
| SKT03-H6 | NM_013444 | ubiquilin 2 | (-235, +104) | + | LUC++ | |||||
| SKT05-H3 | NM_052821 | WD repeat domain 5 variant 2 | (-191, +344) | - | LUC++ | |||||
Position of clone is shown relative to transcription start site, which is at position 0. +, overlap and -, no overlap with a CpG island. Functional validation in transient transfection β-galactosidase (βGAL) and luciferase (LUC) assays: fold activity, +, 3-10; ++, 10-50; +++, >50; -, negative; nt, not tested