Clusters of genes with similar expression patterns and regulatory domain structures using data on pkaR-
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Nodes are rules (i.e. descriptions of inferred structure), named in the following form: "cluster #, structure #". This naming follows the same order as which is used in the table below. Two rules are connected if they share at least five genes. Only rules connected with at least one other rule are shown. You can click on nodes.
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Nodes are genes. Two genes are connected if they are described by same rule. Shown are only genes described by at least three rules appearing in the Rule Graph. You can click on nodes.
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Nodes are motifs. Two motifs are connected if they appear in same description of structure. You can click on nodes.
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| cluster # | link(s) to details on inferred structures
that describe the cluster | genes |
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| 1 | structure 1 | 6 genes: JC2V2_0_00340, JC2V2_0_00343, JC2V2_0_00345, JC2V2_0_03115, geneDDB0230165, geneDDB0232259 |
| 2 | structure 1 | 6 genes: JC2V2_0_00337, JC2V2_0_00338, JC2V2_0_00340, JC2V2_0_00343, geneDDB0232259, pakC |
| 3 | structure 1 | 6 genes: BEC6V2_0_01321, JC2V2_0_00337, JC2V2_0_00338, JC2V2_0_00340, JC2V2_0_00343, JC2V2_0_00345 |
| 4 | structure 1 | 6 genes: JC2V2_0_00337, JC2V2_0_00338, JC2V2_0_00340, JC2V2_0_00343, JC3V2_0_00571, geneDDB0232259 |
| 5 | structure 1 | 6 genes: JC2V2_0_00338, JC2V2_0_00340, JC2V2_0_00343, JC2V2_0_00345, JC3V2_0_02325, abcB3 |
| 6 | structure 1 | 6 genes: 5NT, JC1V2_0_00278, JC2V2_0_00939, JC3V2_0_01851, gacX, geneDDB0229296 |
| 7 | structure 1 | 7 genes: JC2V2_0_00337, JC2V2_0_00338, JC2V2_0_00340, JC2V2_0_00345, JC3V2_0_00244, geneDDB0232259, geneDDB0233633 |
| 8 | structure 1 | 6 genes: JC1V2_0_01114, JC2V2_0_00340, JC2V2_0_00345, JC2V2_0_00939, cbpA, geneDDB0233606 |
| 9 | structure 1 | 6 genes: BC4V2_0_00625, BC4V2_0_01781, BC5V2_0_00822, JC1V2_0_01596, JC2V2_0_00939, ak1 |
| 10 | structure 1 | 6 genes: BC5V2_0_00651, JC2V2_0_00338, JC2V2_0_00340, JC2V2_0_00345, cbpA, ecd |
| 11 | structure 1 | 6 genes: BC5V2_0_01370, JC1V2_0_00278, JC2V2_0_00387, cbpC, geneDDB0237733, gxcU |
| 12 | structure 1 | 6 genes: JC1V2_0_00371, JC1V2_0_00372, JC1V2_0_01333, JC2V2_0_00939, exo70, geneDDB0229936 |
| 13 | structure 1 | 6 genes: BEC6V2_0_01328, BEC6V2_0_01372, JC3V2_0_00591, JC3V2_0_00927, JC3V2_0_02019, fnkB |
| 14 | structure 1 | 6 genes: BC4V2_0_00938, BC5V2_0_01051, JC3V2_0_02449, alrA, ndrC, spg1 |
| 15 | structure 1 | 6 genes: BC4V2_0_00680, JC3V2_0_01851, dymA, geneDDB0237745, mybO, rabG2 |
| 16 | structure 1 | 6 genes: JC2V2_0_01356, JC3V2_0_01553, geneDDB0232098, geneDDB0232104, geneDDB0233464, geneDDB0237706 |
| 17 | structure 1 | 6 genes: BC5V2_0_01370, JC1V2_0_00314, geneDDB0231729, geneDDB0232156, geneDDB0234232, gxcU |
| 18 | structure 1 | 6 genes: BC4V2_0_01091, JC3V2_0_01840, dicA1, geneDDB0232075, phbA, rcdBB |
| 19 | structure 1 | 6 genes: BC5V2_0_01405, JC1V2_0_01539, geneDDB0230173, mfsd1, phbA, rcdBB |
| 20 | structure 1 | 6 genes: BC4V2_0_01654, JC1V2_0_00512, JC1V2_0_01043, dimA, geneDDB0231480, geneDDB0232159 |
| 21 | structure 1, structure 2 | 8 genes: BC5V2_0_00499, BC5V2_0_00904, JC2V2_0_00939, JC2V2_0_03281, JC3V2_0_01851, exo70, geneDDB0219997, thoc2 |
| 22 | structure 1 | 8 genes: BC4V2_0_00625, BC4V2_0_01781, BC5V2_0_00651, BC5V2_0_00822, JC1V2_0_01596, JC2V2_0_00939, ak1, tagB |
| 23 | structure 1 | 6 genes: BC4V2_0_01781, BC5V2_0_00822, JC1V2_0_00314, ecmD, expl3, geneDDB0231588 |
| 24 | structure 1 | 6 genes: BC5V2_0_00904, JC2V2_0_00939, JC2V2_0_03281, geneDDB0219997, sf3a1, thoc2 |
| 25 | structure 1 | 6 genes: BC4V2_0_00208, BC4V2_0_01609, JC2V2_0_00939, exo70, geneDDB0220097, sf3a1 |
| 26 | structure 1 | 6 genes: JC1V2_0_00296, JC1V2_0_00406, JC2V2_0_00939, JC3V2_0_02019, geneDDB0219997, nhe1 |
| 27 | structure 1 | 6 genes: BC4V2_0_01954, BEC6V2_0_01080, Contig2546_00001, JC2V2_0_02141, cnbA, geneDDB0231731 |
| 28 | structure 1 | 6 genes: JC3V2_0_00848, apm1, geneDDB0233476, gxcJJ, limE, rac1A |
| 29 | structure 1 | 6 genes: H4b, JC2V2_0_02474, JC3V2_0_00248, abnB, geneDDB0233241, rps6 |
| 30 | structure 1 | 6 genes: JC1V2_0_00724, JC2V2_0_02329, colC, ecmD, geneDDB0231588, geneDDB0233646 |
| 31 | structure 1, structure 2 | 6 genes: BC5V2_0_00426, BC5V2_0_01454, JC3V2_0_01941, cenA, geneDDB0216422, hatB |
| 32 | structure 1, structure 2 | 6 genes: BC4V2_0_01615, BC5V2_0_00568, JC3V2_0_01851, geneDDB0232937, geneDDB0237733, pks15 |
| 33 | structure 1 | 6 genes: BC5V2_0_00161, BC5V2_0_00651, JC2V2_0_00338, JC2V2_0_00340, geneDDB0233762, osbA |
| 34 | structure 1 | 6 genes: BC4V2_0_00625, BC5V2_0_00822, BC5V2_0_01190, cbpA, geneDDB0233606, rcdK |
| 35 | structure 1 | 6 genes: BC5V2_0_00620, JC3V2_0_00253, JC3V2_0_01553, geneDDB0232098, geneDDB0232104, geneDDB0233464 |
| 36 | structure 1 | 6 genes: BEC6V2_0_01328, BEC6V2_0_01372, DG1098, JC3V2_0_00591, JC3V2_0_02019, geneDDB0233892 |
| 37 | structure 1 | 6 genes: JC2V2_0_00939, JC2V2_0_01229, JC3V2_0_00287, exo70, sf3a1, sigF |
| 38 | structure 1, structure 2 | 6 genes: BC4V2_0_01154, BC5V2_0_01278, JC3V2_0_01840, abnB, geneDDB0216435, phbA |
| 39 | structure 1, structure 2 | 6 genes: BEC6V2_0_01341, JC3V2_0_01553, fnkB, geneDDB0232098, geneDDB0232104, geneDDB0233464 |
| 40 | structure 1 | 6 genes: BC5V2_0_01650, JC1V2_0_00296, JC2V2_0_00939, JC2V2_0_02292, geneDDB0233904, gxcU |
| 41 | structure 1 | 7 genes: BC5V2_0_01326, BC5V2_0_01964, JC2V2_0_01630, JC3V2_0_01526, geneDDB0232156, svkA, usp52 |
| 42 | structure 1 | 7 genes: BC4V2_0_00222, BC4V2_0_00625, BC5V2_0_00822, JC2V2_0_01259, JC3V2_0_01851, pkgB, rcdK |
| 43 | structure 1 | 6 genes: JC3V2_0_01553, JC3V2_0_01560, geneDDB0232098, geneDDB0232104, geneDDB0232949, geneDDB0233464 |
| 44 | structure 1 | 6 genes: JC2V2_0_01355, PFP1, apm1, ndkC, rab21, scfd1 |
| 45 | structure 1 | 6 genes: BC4V2_0_00117, BC4V2_0_00208, BC5V2_0_00803, JC3V2_0_00571, cstf2, exo70 |
| 46 | structure 1 | 6 genes: 5NT, BC5V2_0_01508, BEC6V2_0_01386, JC1V2_0_01585, geneDDB0229936, tubA |
| 47 | structure 1 | 6 genes: JC2V2_0_00337, JC2V2_0_00338, JC2V2_0_00345, JC2V2_0_01229, csbA, geneDDB0233633 |
| 48 | structure 1 | 6 genes: JC3V2_0_01553, abcG7, geneDDB0232102, geneDDB0232104, geneDDB0233464, geneDDB0235350 |
| 49 | structure 1 | 6 genes: BC5V2_0_00057, JC1V2_0_00256, JC2V2_0_03038, geneDDB0234027, hemA, rsmJ |
| 50 | structure 1 | 6 genes: BEC6V2_0_00830, JC2V2_0_02561, JC3V2_0_01872, magoh, rab1D, spg1 |
| 51 | structure 1 | 6 genes: BC4V2_0_00625, BC4V2_0_01781, BC5V2_0_01190, cap, mppB, pkgB |
| 52 | structure 1 | 6 genes: BC5V2_0_00822, JC2V2_0_00493, cigA, geneDDB0230165, geneDDB0232259, ino80 |
| 53 | structure 1 | 6 genes: BC4V2_0_01781, BC5V2_0_00651, BC5V2_0_01747, cap, ctxA, mppB |
| 54 | structure 1 | 6 genes: BC4V2_0_01781, abpD, cbpC, cbpD1, geneDDB0232156, geneDDB0237763 |
| 55 | structure 1 | 6 genes: BC5V2_0_00415, BEC6V2_0_01033, JC1V2_0_00444, abcG14, ndrC, rab7A |
| 56 | structure 1 | 6 genes: BEC6V2_0_01328, JC3V2_0_00591, JC3V2_0_00927, JC3V2_0_01807, JC3V2_0_02019, gefE |
| 57 | structure 1 | 6 genes: BEC6V2_0_00101, JC2V2_0_01918, JC2V2_0_03048, arpC, geneDDB0233278, rab1D |
| 58 | structure 1 | 6 genes: BC4V2_0_00553, BC4V2_0_01781, JC2V2_0_00212, JC2V2_0_00306, ctxA, rngB |
| 59 | structure 1, structure 2 | 6 genes: JC3V2_0_00455, JC3V2_0_01840, phbA, psaA, rpl8, rpsA |
| 60 | structure 1 | 6 genes: JC1V2_0_00724, JC2V2_0_02329, dstC, ecmD, geneDDB0231588, geneDDB0233646 |
| 61 | structure 1 | 6 genes: geneDDB0229989, geneDDB0229996, geneDDB0229998, geneDDB0230143, geneDDB0230144, geneDDB0231561 |
| 62 | structure 1 | 6 genes: BC5V2_0_01638, BC5V2_0_01712, BC5V2_0_01886, JC2V2_0_00939, geneDDB0220482, gpt1 |
| 63 | structure 1 | 6 genes: BEC6V2_0_00780, JC1V2_0_01043, cnbA, gpdA, mybG, ponD |
| 64 | structure 1 | 6 genes: BC4V2_0_01781, cap, ecmD, erkA, geneDDB0233397, stlB |
| 65 | structure 1 | 6 genes: JC3V2_0_01553, cotB, geneDDB0230001, geneDDB0232098, geneDDB0232104, geneDDB0233464 |
| 66 | structure 1 | 6 genes: BC5V2_0_01190, H2AX, cap, ecmD, geneDDB0233646, mppB |
| 67 | structure 1 | 6 genes: JC3V2_0_00813, JC3V2_0_01502, ahhA, gadA, geneDDB0230087, geneDDB0238123 |
| 68 | structure 1 | 6 genes: BC4V2_0_01091, JC2V2_0_00212, JC2V2_0_02875, cap, ctxA, mppB |
| 69 | structure 1 | 6 genes: BC4V2_0_01578, BC5V2_0_01190, BEC6V2_0_01085, cap, cbpF, geneDDB0216320 |
| 70 | structure 1 | 6 genes: BEC6V2_0_01000, JC2V2_0_00574, JC3V2_0_00848, limE, rpl18, rtnlc |
| 71 | structure 1 | 7 genes: BEC6V2_0_00906, BEC6V2_0_01244, ctxA, geneDDB0231194, gpaB, masA, rps6 |
| 72 | structure 1 | 6 genes: BC4V2_0_01091, BC5V2_0_01405, JC3V2_0_02472, geneDDB0201634, geneDDB0233646, rsmJ |
| 73 | structure 1 | 6 genes: BC4V2_0_01091, BC5V2_0_01517, EFTUD1, JC2V2_0_01924, JC3V2_0_00823, snpA |
| 74 | structure 1 | 7 genes: BC4V2_0_01298, JC3V2_0_00455, JC3V2_0_01491, bzpP, proB, rps27, rps28 |
| 75 | structure 1 | 6 genes: JC1V2_0_00734, JC3V2_0_00732, JC3V2_0_01553, cotB, geneDDB0232104, geneDDB0233464 |
| 76 | structure 1 | 6 genes: JC2V2_0_03038, abnB, geneDDB0231194, geneDDB0233646, rsmJ, syn8B |
| 77 | structure 1 | 6 genes: JC1V2_0_00865, JC3V2_0_00455, dscA, geneDDB0233601, rps4, rpsA |
| 78 | structure 1 | 6 genes: BC4V2_0_01091, JC2V2_0_00212, JC3V2_0_01502, carB, geneDDB0231388, geneDDB0233809 |
| 79 | structure 1 | 6 genes: BC4V2_0_01072, BC5V2_0_01109, JC3V2_0_00455, eIF3s5, pufA, uap56 |
| 80 | structure 1 | 8 genes: BC5V2_0_00185, BC5V2_0_00742, BC5V2_0_00822, cbpA, ecd, geneDDB0229296, geneDDB0231516, geneDDB0233606 |
| 81 | structure 1 | 6 genes: BC5V2_0_00191, BC5V2_0_00426, EFTUD1, cnbA, geneDDB0238123, hatB |
| 82 | structure 1, structure 2 | 8 genes: BC4V2_0_00264, geneDDB0229987, geneDDB0229989, geneDDB0229996, geneDDB0229998, geneDDB0230143, geneDDB0230144, geneDDB0231561 |
| 83 | structure 1 | 6 genes: JC2V2_0_00595, JC2V2_0_02912, crlC, ecmA, rpl4, usp14 |
| 84 | structure 1 | 6 genes: JC3V2_0_00629, apm1, dicA1, fadA, geneDDB0234027, ksrA |
| 85 | structure 1 | 6 genes: BC5V2_0_01388, BC5V2_0_01507, JC2V2_0_03148, JC3V2_0_00394, geneDDB0235378, trxE |
| 86 | structure 1 | 6 genes: BC4V2_0_00899, BC5V2_0_01503, JC3V2_0_02472, ctxA, gpaB, masA |
| 87 | structure 1 | 6 genes: JC2V2_0_01218, JC2V2_0_02254, cct2, geneDDB0229454, geneDDB0230112, geneDDB0232382 |
| 88 | structure 1 | 6 genes: CYP514A1, geneDDB0230072, geneDDB0231199, idhB, snpA, uap56 |
| 89 | structure 1 | 9 genes: BC4V2_0_00264, geneDDB0229987, geneDDB0229989, geneDDB0229996, geneDDB0229998, geneDDB0230143, geneDDB0230144, geneDDB0231561, numA |
| 90 | structure 1 | 7 genes: BC5V2_0_00426, JC1V2_0_01634, JC3V2_0_01229, JC3V2_0_01441, ahhA, cenA, hatB |
| 91 | structure 1, structure 2 | 8 genes: BC4V2_0_01786, BEC6V2_0_00971, BEC6V2_0_01296, JC2V2_0_02369, JC3V2_0_00455, lst8, rpl12, rpl5 |
| 92 | structure 1 | 6 genes: BC4V2_0_01737, geneDDB0229987, geneDDB0229996, geneDDB0229998, geneDDB0230144, geneDDB0231561 |
| 93 | structure 1 | 6 genes: BC5V2_0_01190, cad2, cap, cbpA, geneDDB0233551, geneDDB0233606 |
| 94 | structure 1 | 8 genes: JC3V2_0_01840, fray2, phbA, psaA, purA, rps15, rps28, snrpD2 |
| 95 | structure 1 | 6 genes: JC3V2_0_00369, geneDDB0230165, geneDDB0232104, geneDDB0232259, geneDDB0233904, geneDDB0237802 |
| 96 | structure 1 | 6 genes: CSN4, JC2V2_0_00931, JC2V2_0_02912, JC3V2_0_00455, ecmA, usp14 |
| 97 | structure 1 | 6 genes: BC5V2_0_01235, JC3V2_0_00591, JC3V2_0_01375, cap, geneDDB0231480, geneDDB0235188 |
| 98 | structure 1 | 7 genes: BC5V2_0_01644, JC2V2_0_00556, JC2V2_0_02286, arrF, eifE, geneDDB0201634, hemA |
| 99 | structure 1 | 6 genes: BEC6V2_0_01372, JC2V2_0_00522, JC2V2_0_01630, JC3V2_0_00927, JC3V2_0_02019, ponH |
| 100 | structure 1 | 6 genes: H4b, JC1V2_0_00165, dst4, geneDDB0233921, gxcJ, scsA |
| 101 | structure 1 | 6 genes: BC5V2_0_00426, BC5V2_0_00692, BEC6V2_0_00675, JC1V2_0_01426, JC3V2_0_02532, geneDDB0234091 |
| 102 | structure 1 | 6 genes: BC4V2_0_01939, JC1V2_0_01954, JC2V2_0_02250, geneDDB0232198, grxA, uap56 |
| 103 | structure 1 | 6 genes: BC5V2_0_00944, JC1V2_0_01223, JC2V2_0_02141, JC2V2_0_02325, rabK2, rasS |
| 104 | structure 1 | 6 genes: CSN4, JC2V2_0_00466, JC2V2_0_00931, aarA, cofC, geneDDB0234069 |
| 105 | structure 1, structure 2, structure 3 | 6 genes: BC4V2_0_00264, JC3V2_0_00354, abpD, ecmD, geneDDB0237763, psmD2 |
| 106 | structure 1 | 6 genes: JC2V2_0_00337, JC2V2_0_00338, JC2V2_0_00340, JC3V2_0_02433, geneDDB0231749, geneDDB0233633 |
| 107 | structure 1 | 8 genes: JC2V2_0_02912, JC3V2_0_02281, NGAP, psmA6, purH, rps3a, rps4, sigK |
| 108 | structure 1, structure 2 | 6 genes: erkA, geneDDB0229869, geneDDB0232155, geneDDB0233322, geneDDB0237680, geneDDB0237733 |
| 109 | structure 1 | 6 genes: JC1V2_0_00785, JC3V2_0_00620, geneDDB0232098, geneDDB0232102, geneDDB0233464, sf3a1 |
| 110 | structure 1 | 6 genes: BC4V2_0_00187, BC5V2_0_00415, JC3V2_0_00813, JC3V2_0_01206, geneDDB0231494, sigE |
| 111 | structure 1 | 8 genes: BC4V2_0_00899, CSN4, JC1V2_0_00865, JC1V2_0_01634, JC2V2_0_02951, JC3V2_0_00455, JC3V2_0_02449, crlD |
| 112 | structure 1 | 6 genes: BC5V2_0_01078, JC1V2_0_01880, JC2V2_0_02254, geneDDB0233920, nup210, rpl17 |
| 113 | structure 1 | 9 genes: BC5V2_0_00557, JC1V2_0_01050, JC2V2_0_01355, JC2V2_0_02212, cnrO, forD, ndkC, odhA, rab7A |
| 114 | structure 1 | 7 genes: BC5V2_0_00620, BC5V2_0_01045, BEC6V2_0_00409, JC2V2_0_02393, JC3V2_0_01399, exo70, gacII |
| 115 | structure 1 | 6 genes: AF279134_1, BC4V2_0_00782, BEC6V2_0_01162, carD, geneDDB0220100, hemB |
| 116 | structure 1 | 6 genes: BEC6V2_0_01251, BEC6V2_0_01328, JC3V2_0_02019, geneDDB0237745, manF, mkpA |
| 117 | structure 1 | 8 genes: BC5V2_0_00822, JC3V2_0_01618, cap, geneDDB0231588, geneDDB0232083, geneDDB0233646, pks29, sonA |
| 118 | structure 1 | 8 genes: BC4V2_0_01615, CSN2, JC2V2_0_00341, JC2V2_0_00343, geneDDB0230165, geneDDB0232259, geneDDB0233869, pakC |
| 119 | structure 1 | 7 genes: BC4V2_0_00117, JC1V2_0_01921, JC2V2_0_00939, JC3V2_0_00272, exo70, geneDDB0231749, rabggtb |
| 120 | structure 1 | 6 genes: JC1V2_0_00282, JC3V2_0_00143, alg7, dcd2B, geneDDB0220482, geneDDB0231577 |
| 121 | structure 1 | 11 genes: BC4V2_0_00984, BC4V2_0_01781, BC5V2_0_00822, BC5V2_0_01112, JC1V2_0_00314, JC2V2_0_01259, JC3V2_0_00354, bzpP, gefQ, geneDDB0231729, geneDDB0237763 |
| 122 | structure 1 | 7 genes: BC4V2_0_00899, BC5V2_0_00921, CSN4, JC2V2_0_00931, JC3V2_0_00455, SRPR, usp14 |
| 123 | structure 1 | 6 genes: BC4V2_0_00619, BEC6V2_0_01213, JC1V2_0_01744, cmr, mpi, sgcA |
| 124 | structure 1 | 6 genes: JC1V2_0_00314, dhkL, geneDDB0216320, geneDDB0229296, geneDDB0233955, orfR1062 |
| 125 | structure 1 | 8 genes: BC5V2_0_00689, JC1V2_0_01056, JC2V2_0_00939, JC3V2_0_00287, crlA, ddx41, exo70, sf3a1 |
| 126 | structure 1 | 6 genes: AY007802, JC1V2_0_01848, JC2V2_0_00373, JC3V2_0_01189, JC3V2_0_01294, rabA |
| 127 | structure 1 | 6 genes: BC5V2_0_00673, BC5V2_0_01553, BC5V2_0_01867, JC2V2_0_02474, pigW, sun1 |
| 128 | structure 1 | 6 genes: BC4V2_0_01578, BC5V2_0_01190, JC2V2_0_00647, cbpF, cigA, nek2 |
| 129 | structure 1 | 6 genes: BC4V2_0_01696, geneDDB0232095, geneDDB0232102, geneDDB0232104, geneDDB0233464, geneDDB0235350 |
| 130 | structure 1 | 14 genes: BC5V2_0_01474, BEC6V2_0_00428, JC2V2_0_00462, JC2V2_0_00518, JC2V2_0_01114, JC2V2_0_02286, argJ, arpB, fntB, geneDDB0237901, guaB, hspJ, masA, pkiA |
| 131 | structure 1 | 8 genes: BC5V2_0_01464, JC2V2_0_00718, JC2V2_0_01218, JC3V2_0_00029, JC3V2_0_01412, gchA, kil1, spkA_1 |
| 132 | structure 1 | 9 genes: BC4V2_0_00640, BC5V2_0_00837, BC5V2_0_01051, BC5V2_0_01104, JC1V2_0_01461, apnA, cct3, fadA, geneDDB0233278 |
| 133 | structure 1 | 6 genes: JC1V2_0_01493, JC2V2_0_00473, arpB, psmB2, rps20, sigG |
| 134 | structure 1 | 9 genes: ctxA, eIF3s5, geneDDB0231194, geneDDB0231389, geneDDB0234208, gpaB, masA, plbD, rsmJ |
Number of genes listed: 506
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