Table 2 Putative cis-elements identified in the PNtGDSL127 sequence
Motif | Sequence | Distance from ATG | Function |
|---|---|---|---|
DPBFCOREDCDC3 | ACACNNG | − 2118, − 1821, − 1270, − 946, − 460, −328, − 292 | Target site for trans-acting StDof1 protein controlling guard cell-specific gene expression |
DOFCOREZM | AAAG | − 2117, − 1957, − 1942, − 1921, − 1854, − 1844, − 1820, − 1638, − 1630, − 1624,-1450, − 1269, − 1220, − 945,-565, − 459,-353, − 327, −291, − 276, − 150 | Core site required for binding of Dof proteins in maize |
ARR1AT | NGATT | − 1919, − 1860,-1477,-986, − 941, − 912, − 899, − 871, − 744, − 489, − 434, − 384, − 148, − 79, − 31 | “ARR1-binding element” found in Arabidopsis |
IBOXCORE | GATAA | − 2079, − 1910, − 1272, − 762, − 726, − 546, − 260 | I box, Conserved sequence upstream of light-regulated genes of both monocots and dicots |
SREATMSD | TTATCC | − 2109, − 1654 | Identification of cis-elements that regulate gene expression during initiation of axillary bud outgrowth in Arabidopsis |
GATABOX | GATA | −2079,-2063, − 1910, − 1415, − 1272,-1091, − 1013, − 762, − 726,-685, − 546, − 299, − 260 | Required for high level, light regulated, and tissue specific expression |
MYBST1 | GGATA | − 2080,-2064, − 1911, − 300 | function as a transcriptional activator |
GTGANTG10 | GTGA | − 1847,-1772, − 1317, − 1255, − 942,-900, − 687, − 660, − 473, − 242, − 14 | cis-regulatory element in the promoter of the tobacco late pollen gene g10 |
CACTFTPPCA1 | YACT | − 2100, − 2030,-2020,-1830, − 1663,-1585, − 1577, − 1406, − 1231, − 1145,-1140,-1072, − 965, − 907, − 629, − 626, − 586, − 418, − 270, − 228,-171, − 126, − 22 | cis-Regulatory elements for mesophyll-specific gene expression in the C4 plant Flaveria trinervia |
MYBCORE | CNGTTR | − 2098,-1825 | Binding site for all animal MYB and at least two plant MYB proteins ATMYB1 and ATMYB2, both isolated from Arabidopsis |
RAV1AAT | CAACA | − 1671, − 1566,-1527, − 1484, − 164 | Binding consensus sequence of Arabidopsis transcription factor, RAV1 |
REBETALGLHCB21 | CGGATA | − 2081 | Required for phytochrome regulation |
GT1CONSENSUS | GRWAAW | −2079,-1910,-1814, − 1289,-1272, −762, − 726,-546, − 529, − 400 | Consensus GT-1 binding site in many light-regulated genes |
BOXIINTPATPB | ATAGAA | − 2062 | “Box II” found in the tobacco plastid atpB gene promoter |
MYBCOREATCYCB1 | AACGG | − 2058 | cis-acting element involved in cell cycle phase-independent activation |
CAREOSREP1 | CAACTC | − 2047 | cis-acting elements necessary and sufficient for gibberellin-upregulated proteinase expression in rice seeds |
MYB1AT | WAACCA | − 2024,-5 | transcriptional activators in abscisic acid signaling |
CARGCW8GAT | CWWWWWWWWG | −2000, − 1796, −624,-416, − 124, − 52,-39 | Binding site selection for the plant MADS domain protein AGL15 |
TATABOX5 | TTATTT | − 1970, − 1883,-363 | cis elements and trans-acting factors affecting regulation of a nonphotosynthetic light-regulated gene |
POLASIG3 | AATAAT | − 1997, − 1342,-543 | consensus sequence for plant polyadenylation signal |
S1FBOXSORPS1L21 | ATGGTA | − 1993 | negative cis-element conserved in plastid-related genes |
DRE2COREZMRAB17 | ACCGAC | − 1976 | Regulatory elements in vivo in the promoter of the abscisic acid responsive gene rab17 from maize |
DRECRTCOREAT | RCCGAC | −1976 | Core motif of transcription activators that function in drought-, high-salt- and cold-responsive gene expression |
CBFHV | RYCGAC | −1976,-786 | Binding site of barley dehydration-responsive element (DRE) binding proteins |
LTRECOREATCOR15 | CCGAC | − 1975 | Core of low temperature responsive element (LTRE) of cor15a gene in Arabidopsis |
ANAERO1CONSENSUS | AAACAAA | − 1966 | motifs in promoters of anaerobically induced genes of different plant species |
POLLEN1LELAT52 | AGAAA | − 1944,-1448, − 563, − 401 | required for pollen specific expression |
NODCON1GM | AAAGAT | −1921, −150 | nodule specificity of cis-acting regulatory elements in the soybean leghemoglobin |
WBOXHVISO1 | TGACT | − 1890,-1151,-960,-379 | sugar-responsive element |
WRKY71OS | TGAC | −1890, − 2828, − 1254, − 1206, − 1151, − 1122, − 1033, − 960, − 379 | transcriptional repressor of the gibberellin signaling pathway in aleurone cells |
WBOXNTERF3 | TGACY | − 2374,-1254,-1206,-1151,-1122, − 960, − 379 | involved in activation of ERF3 gene by wounding |
TATABOX2 | TATAAAT | −123 | Sequences responsible for the tissue specific promoter activity of a pea legumin gene |
EECCRCAH1 | GANTTNC | − 1868, − 1476, − 911, − 658, − 391,-147 | cis-acting elements and DNA-binding proteins involved in CO2-responsive transcriptional activation of Cah1 |
INRNTPSADB | YTCANTYY | − 1600,-41 | Light-responsive transcription of psaDb |
CAATBOX1 | CAAT | − 1649,-1515, − 1329, − 863,-633, − 502,-176, − 70, − 66 | CAAT promoter consensus sequence |
SORLIP1AT | GCCAC | − 1233 | involved in the network of phytochrome A-regulated gene expression |
MYB2AT | TAACTG | − 889 | MYB recognition sequence |
MYB2CONSENSUSAT | YAACKG | − 1429,-1210,-889 | MYB recognition site found in the promoters of the dehydration-responsive gene rd22 and many other genes in Arabidopsis |
POLASIG1 | AATAAA | − 280,-196 | Putative polyadenylation signals in nuclear genes of higher plants |
CCAATBOX1 | CCAAT | − 1650 | “CCAAT box” found in the promoter of heat shock protein genes |
CGACGOSAMY3 | CGACG | − 1742, − 1739 | cis-element required for rice alpha-amylase Amy3D expression during sugar starvation |
NODCON2GM | CTCTT | − 1719,-1404, − 1070, − 268 | nodulin consensus sequences |
PYRIMIDINEBOXOSRAMY1A | CCTTTT | − 1710 | Gibberellin-respons cis-element of GARE |
L1BOXATPDF1 | TAAATGYA | − 1683 | a cis-regulatory element for L1 layer-specific gene expression |
TBOXATGAPB | ACTTTG | − 964,-958 | reductions of light-activated gene transcription |
-300ELEMENT | TGHAAARK | − 1634 | an enhancer element for the endosperm-specific expression of high molecular weight glutenin |
CARGATCONSENSUS | CCWWWWWWGG | − 1558 | component of the MADS-box flowering-time gene |
CPBCSPOR | TATTAG | −405 | Cis-Element Exhibiting Cytokinin-Dependent Protein Binding in Vitro |
GT1GMSCAM4 | GAAAAA | − 1543,-1400, − 983, − 140 | Plays a role in pathogen- and salt-induced SCaM-4 gene expression |
RHERPATEXPA7 | KCACGW | − 1419,-517, − 106 | Root Hair Cell-Specific cis-Element |
SEF4MOTIFGM7S | AACAAAC | − 1483 | minimal cis-element requirements for endosperm-specific gene expression |
MYCCONSENSUSAT | CANNTG | −1429,-1210, − 1001 | MYC recognition site found in the promoters of the dehydration-responsive gene rd22 and many other genes in Arabidopsis |
CIACADIANLELHC | CAANNNNATC | −1429 | Region necessary for circadian expression of tomato Lhc gene |
CURECORECR | GTAC | − 1332, − 310, − 172 | core of a CuRE (copper-response element) found in Cyc6 and Cpx1 genes in Chlamydomonas |
NTBBF1ARROLB | ACTTTA | − 625, − 417 | NtBBF1 binding site in Agrobacterium rhizogenes rolB gene; Required for tissue-specific expression and auxin induction |
QELEMENTZMZM13 | AGGTCA | −1254 | pollen-specific |
WBOXATNPR1 | TTGAC | − 961, − 380 | WRKY binding sites |
ACGTABOX | TACGTA | −1021, − 309 | sugar repression |