87 decreased-coverage genes were found for selected organism/s



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Locus tag

Gene type

Replicon accession

From

To

Strand

Gene Length

Product

Protein accession

Plasmid clonability

Plasmid unclonability p-value

Fosmid clonability

Fosmid unclonability p-value

Organism name

Kingdom

Coverage Plot

PanDaTox homologs

Experimental validation
Rpic12D_0207  CDS  NC_012856  218003  220915  2913  UvrD/REP helicase  YP_002980188  unclonable  0.00182272  decreased coverage  5.25372e-08  Ralstonia pickettii 12D  Bacteria 
 
 
-
 
Rpic12D_0208  CDS  NC_012856  221352  221747  396  DNA mismatch endonuclease Vsr  YP_002980189  normal  0.221365  decreased coverage  1.21793e-07  Ralstonia pickettii 12D  Bacteria 
 
 
-
 
Rpic12D_0380  CDS  NC_012856  397887  398333  447  OsmC family protein  YP_002980358  decreased coverage  0.00128775  normal  Ralstonia pickettii 12D  Bacteria 
 
 
-
 
Rpic12D_0608  CDS  NC_012856  643573  643830  258  protein of unknown function UPF0153  YP_002980585  decreased coverage  0.00802731  normal  0.548911  Ralstonia pickettii 12D  Bacteria 
 
 
-
 
Rpic12D_0727  CDS  NC_012856  758847  759875  1029  protein TolA  YP_002980700  decreased coverage  0.00429068  normal  0.0892562  Ralstonia pickettii 12D  Bacteria 
 
 
-
 
Rpic12D_0908  CDS  NC_012856  952210  953886  1677  L-lactate transport  YP_002980881  decreased coverage  0.00938786  normal  Ralstonia pickettii 12D  Bacteria 
 
 
-
 
Rpic12D_0945  CDS  NC_012856  995965  996972  1008  Monosaccharide-transporting ATPase  YP_002980917  decreased coverage  0.0035821  normal  0.067207  Ralstonia pickettii 12D  Bacteria 
 
 
-
 
Rpic12D_0991  CDS  NC_012856  1042587  1043480  894  signal peptidase I  YP_002980963  decreased coverage  0.0050867  normal  0.048804  Ralstonia pickettii 12D  Bacteria 
 
 
-
 
Rpic12D_1052  CDS  NC_012856  1105504  1106238  735  protein of unknown function DUF899 thioredoxin family protein  YP_002981016  decreased coverage  7.59433e-05  normal  0.0411864  Ralstonia pickettii 12D  Bacteria 
 
 
-
 
Rpic12D_1166  CDS  NC_012856  1234214  1234963  750  Silent information regulator protein Sir2  YP_002981130  decreased coverage  0.00563616  normal  Ralstonia pickettii 12D  Bacteria 
 
 
-
 
Rpic12D_1168  CDS  NC_012856  1236086  1236772  687  ribose-5-phosphate isomerase A  YP_002981132  decreased coverage  0.00449603  normal  Ralstonia pickettii 12D  Bacteria 
 
 
-
 
Rpic12D_1250  CDS  NC_012856  1321578  1322324  747  NLP/P60 protein  YP_002981211  decreased coverage  0.000552171  normal  0.790948  Ralstonia pickettii 12D  Bacteria 
 
 
-
 
Rpic12D_1309  CDS  NC_012856  1381249  1382628  1380  lysophospholipid transporter LplT  YP_002981270  decreased coverage  0.00718572  normal  0.641684  Ralstonia pickettii 12D  Bacteria 
 
 
-
 
Rpic12D_1348  CDS  NC_012856  1428374  1429564  1191  1-deoxy-D-xylulose 5-phosphate reductoisomerase  YP_002981309  decreased coverage  0.00572511  normal  0.766336  Ralstonia pickettii 12D  Bacteria 
 
 
-
 
Rpic12D_1349  CDS  NC_012856  1429651  1431039  1389  membrane-associated zinc metalloprotease  YP_002981310  decreased coverage  0.00245183  normal  0.774325  Ralstonia pickettii 12D  Bacteria 
 
 
-
 
Rpic12D_1389  CDS  NC_012856  1468299  1469126  828  hypothetical protein  YP_002981349  decreased coverage  0.000372272  normal  0.274021  Ralstonia pickettii 12D  Bacteria 
 
 
-
 
Rpic12D_1390  CDS  NC_012856  1469130  1469828  699  DSBA oxidoreductase  YP_002981350  decreased coverage  0.00141956  normal  0.259625  Ralstonia pickettii 12D  Bacteria 
 
 
-
 
Rpic12D_1409  CDS  NC_012856  1489455  1489922  468  hypothetical protein  YP_002981369  decreased coverage  0.000519507  normal  0.115817  Ralstonia pickettii 12D  Bacteria 
 
 
-
 
Rpic12D_1429  CDS  NC_012856  1511554  1512042  489  benzoate 1,2-dioxygenase, small subunit  YP_002981389  decreased coverage  0.0021557  normal  0.293585  Ralstonia pickettii 12D  Bacteria 
 
 
-
 
Rpic12D_1446  CDS  NC_012856  1526337  1526984  648  3-isopropylmalate dehydratase, small subunit  YP_002981405  decreased coverage  0.00452839  normal  0.703119  Ralstonia pickettii 12D  Bacteria 
 
 
-
 
Rpic12D_1488  CDS  NC_012856  1568852  1570933  2082  3-hydroxyacyl-CoA dehydrogenase NAD-binding  YP_002981447  decreased coverage  0.00162023  normal  0.0186497  Ralstonia pickettii 12D  Bacteria 
 
 
-
 
Rpic12D_1498  CDS  NC_012856  1583579  1583965  387  methionine sulfoxide reductase B  YP_002981457  decreased coverage  0.0060677  normal  Ralstonia pickettii 12D  Bacteria 
 
 
-
 
Rpic12D_1524  CDS  NC_012856  1610472  1611686  1215  beta-lactamase  YP_002981482  decreased coverage  0.00136534  normal  0.421597  Ralstonia pickettii 12D  Bacteria 
 
 
-
 
Rpic12D_1552  CDS  NC_012856  1646649  1647401  753  Asp/Glu/hydantoin racemase  YP_002981509  decreased coverage  0.00579321  normal  0.227664  Ralstonia pickettii 12D  Bacteria 
 
 
-
 
Rpic12D_1567  CDS  NC_012856  1662868  1664505  1638  Protein of unknown function DUF1800  YP_002981523  decreased coverage  0.00854272  normal  0.266743  Ralstonia pickettii 12D  Bacteria 
 
 
-
 
Rpic12D_1591  CDS  NC_012856  1689094  1690206  1113  pseudouridine synthase, RluA family  YP_002981547  normal  0.150486  decreased coverage  0.00904495  Ralstonia pickettii 12D  Bacteria 
 
 
-
 
Rpic12D_1592  CDS  NC_012856  1690222  1691079  858  outer membrane assembly lipoprotein YfiO  YP_002981548  normal  0.0525454  decreased coverage  0.00850682  Ralstonia pickettii 12D  Bacteria 
 
 
-
 
Rpic12D_1614  CDS  NC_012856  1713086  1713667  582  phasin family protein  YP_002981570  decreased coverage  4.49838e-05  normal  Ralstonia pickettii 12D  Bacteria 
 
 
-
 
Rpic12D_1654  CDS  NC_012856  1757587  1758132  546  transcriptional regulator, LuxR family  YP_002981609  decreased coverage  0.00914552  normal  0.0273292  Ralstonia pickettii 12D  Bacteria 
 
 
-
 
Rpic12D_1679  CDS  NC_012856  1783898  1787044  3147  type VI secretion system Vgr family protein  YP_002981634  normal  decreased coverage  0.00352314  Ralstonia pickettii 12D  Bacteria 
 
 
-
 
Rpic12D_1711  CDS  NC_012856  1819008  1821218  2211  polyphosphate kinase  YP_002981666  decreased coverage  0.00451534  normal  0.547143  Ralstonia pickettii 12D  Bacteria 
 
 
-
 
Rpic12D_1712  CDS  NC_012856  1821295  1822623  1329  PAS/PAC sensor signal transduction histidine kinase  YP_002981667  decreased coverage  0.000310244  normal  0.666466  Ralstonia pickettii 12D  Bacteria 
 
 
-
 
Rpic12D_1731  CDS  NC_012856  1844396  1845235  840  hydroxyacylglutathione hydrolase  YP_002981686  decreased coverage  0.00595225  normal  0.648796  Ralstonia pickettii 12D  Bacteria 
 
 
-
 
Rpic12D_1842  CDS  NC_012856  1961622  1962794  1173  putative aminotransferase  YP_002981795  normal  decreased coverage  0.00218837  Ralstonia pickettii 12D  Bacteria 
 
 
-
 
Rpic12D_1844  CDS  NC_012856  1963578  1965086  1509  3-hydroxy-acyl-CoA dehydrogenase  YP_002981797  normal  0.865565  decreased coverage  0.00599728  Ralstonia pickettii 12D  Bacteria 
 
 
-
 
Rpic12D_1845  CDS  NC_012856  1965113  1965892  780  enoyl-CoA hydratase  YP_002981798  normal  0.068213  decreased coverage  0.00498054  Ralstonia pickettii 12D  Bacteria 
 
 
-
 
Rpic12D_1846  CDS  NC_012856  1965905  1966639  735  Phosphoglycerate mutase  YP_002981799  normal  0.0565276  decreased coverage  0.00463993  Ralstonia pickettii 12D  Bacteria 
 
 
-
 
Rpic12D_1847  CDS  NC_012856  1966687  1967775  1089  aminoglycoside phosphotransferase  YP_002981800  normal  0.126827  decreased coverage  0.00532112  Ralstonia pickettii 12D  Bacteria 
 
 
-
 
Rpic12D_1848  CDS  NC_012856  1967789  1968190  402  hypothetical protein  YP_002981801  normal  0.480851  decreased coverage  0.0044175  Ralstonia pickettii 12D  Bacteria 
 
 
-
 
Rpic12D_1918  CDS  NC_012856  2033596  2036130  2535  protein of unknown function DUF214  YP_002981871  decreased coverage  0.00532118  normal  Ralstonia pickettii 12D  Bacteria 
 
 
-
 
Rpic12D_2074  CDS  NC_012856  2210084  2211352  1269  D-amino acid dehydrogenase small subunit  YP_002982025  decreased coverage  0.00739126  normal  Ralstonia pickettii 12D  Bacteria 
 
 
-
 
Rpic12D_2092  CDS  NC_012856  2233981  2236011  2031  GAF modulated sigma54 specific transcriptional regulator, Fis family  YP_002982041  decreased coverage  0.000637573  normal  Ralstonia pickettii 12D  Bacteria 
 
 
-
 
Rpic12D_2134  CDS  NC_012856  2273674  2273841  168  hypothetical protein  YP_002982080  decreased coverage  0.00838213  normal  Ralstonia pickettii 12D  Bacteria 
 
 
-
 
Rpic12D_2136  CDS  NC_012856  2274322  2274828  507  hypothetical protein  YP_002982082  decreased coverage  0.00810665  normal  Ralstonia pickettii 12D  Bacteria 
 
 
-
 
Rpic12D_2280  CDS  NC_012856  2412767  2413063  297  hypothetical protein  YP_002982226  decreased coverage  2.4016e-06  hitchhiker  9.15951e-09  Ralstonia pickettii 12D  Bacteria 
 
 
-
 
Rpic12D_2281  CDS  NC_012856  2413077  2413469  393  hypothetical protein  YP_002982227  decreased coverage  3.53153e-06  hitchhiker  1.03262e-08  Ralstonia pickettii 12D  Bacteria 
 
 
-
 
Rpic12D_2476  CDS  NC_012856  2593619  2594332  714  transcriptional regulator, histidine utilization repressor, GntR family  YP_002982420  decreased coverage  0.00699876  normal  Ralstonia pickettii 12D  Bacteria 
 
 
-
 
Rpic12D_2654  CDS  NC_012856  2798149  2799273  1125  gamma-glutamyl kinase  YP_002982597  decreased coverage  0.00506525  normal  Ralstonia pickettii 12D  Bacteria 
 
 
-
 
Rpic12D_2782  CDS  NC_012856  2948821  2949399  579  transcriptional regulator, MarR family  YP_002982725  decreased coverage  0.00307717  normal  0.0921189  Ralstonia pickettii 12D  Bacteria 
 
 
-
 
Rpic12D_2944  CDS  NC_012856  3092498  3093292  795  30S ribosomal protein S3  YP_002982886  normal  0.012288  decreased coverage  1.33007e-07  Ralstonia pickettii 12D  Bacteria 
 
 
-
 
Rpic12D_2945  CDS  NC_012856  3093302  3093631  330  50S ribosomal protein L22  YP_002982887  normal  0.0396583  decreased coverage  1.12482e-07  Ralstonia pickettii 12D  Bacteria 
 
 
-
 
Rpic12D_2946  CDS  NC_012856  3093641  3093916  276  30S ribosomal protein S19  YP_002982888  normal  0.0382693  decreased coverage  1.16532e-07  Ralstonia pickettii 12D  Bacteria 
 
 
-
 
Rpic12D_2947  CDS  NC_012856  3093938  3094768  831  50S ribosomal protein L2  YP_002982889  normal  0.0126826  decreased coverage  1.7325e-07  Ralstonia pickettii 12D  Bacteria 
 
 
-
 
Rpic12D_2949  CDS  NC_012856  3095082  3095702  621  50S ribosomal protein L4  YP_002982891  hitchhiker  3.39858e-05  decreased coverage  1.35415e-07  Ralstonia pickettii 12D  Bacteria 
 
 
-
 
Rpic12D_2950  CDS  NC_012856  3095714  3096367  654  50S ribosomal protein L3  YP_002982892  unclonable  2.76942e-07  decreased coverage  1.34206e-07  Ralstonia pickettii 12D  Bacteria 
 
 
-
 
Rpic12D_2951  CDS  NC_012856  3096653  3096964  312  30S ribosomal protein S10  YP_002982893  decreased coverage  1.33875e-06  hitchhiker  7.22255e-07  Ralstonia pickettii 12D  Bacteria 
 
 
-
 
Rpic12D_3472  CDS  NC_012857  15754  16893  1140  efflux transporter, RND family, MFP subunit  YP_002983407  decreased coverage  0.000321827  normal  0.111591  Ralstonia pickettii 12D  Bacteria 
 
 
-
 
Rpic12D_3721  CDS  NC_012857  275636  275926  291  histone family protein nucleoid-structuring protein H-NS  YP_002983652  decreased coverage  0.00112888  normal  0.513312  Ralstonia pickettii 12D  Bacteria 
 
 
-
 
Rpic12D_3964  CDS  NC_012857  541766  542638  873  transcriptional regulator, LysR family  YP_002983892  decreased coverage  0.00150668  normal  0.033592  Ralstonia pickettii 12D  Bacteria 
 
 
-
 
Rpic12D_4322  CDS  NC_012857  938243  938815  573  lipoprotein signal peptide  YP_002984237  normal  decreased coverage  0.00684015  Ralstonia pickettii 12D  Bacteria 
 
 
-
 
Rpic12D_4447  CDS  NC_012857  1087588  1087863  276  plasmid stabilization system  YP_002984361  decreased coverage  0.00132305  normal  0.136677  Ralstonia pickettii 12D  Bacteria 
 
 
-
 
Rpic12D_4448  CDS  NC_012857  1087863  1088126  264  transcriptional regulator, CopG family  YP_002984362  decreased coverage  0.00107538  normal  0.141055  Ralstonia pickettii 12D  Bacteria 
 
 
-
 
Rpic12D_4478  CDS  NC_012857  1113099  1116128  3030  transposase Tn3 family protein  YP_002984392  normal  decreased coverage  6.50614e-10  Ralstonia pickettii 12D  Bacteria 
 
 
-
 
Rpic12D_4479  CDS  NC_012857  1116125  1116718  594  Resolvase domain protein  YP_002984393  normal  decreased coverage  1.47912e-10  Ralstonia pickettii 12D  Bacteria 
 
 
-
 
Rpic12D_4480  CDS  NC_012857  1116957  1117235  279  hypothetical protein  YP_002984394  normal  decreased coverage  1.18504e-10  Ralstonia pickettii 12D  Bacteria 
 
 
-
 
Rpic12D_4510  CDS  NC_012857  1147758  1149314  1557  thymidine phosphorylase  YP_002984424  decreased coverage  0.00125183  normal  0.427324  Ralstonia pickettii 12D  Bacteria 
 
 
-
 
Rpic12D_4536  CDS  NC_012857  1173800  1175617  1818  ribonucleotide reductase-like protein  YP_002984449  decreased coverage  0.0042263  normal  0.026709  Ralstonia pickettii 12D  Bacteria 
 
 
-
 
Rpic12D_4541  CDS  NC_012857  1180572  1181363  792  polysaccharide deacetylase  YP_002984454  normal  decreased coverage  0.00515582  Ralstonia pickettii 12D  Bacteria 
 
 
-
 
Rpic12D_4542  CDS  NC_012857  1181416  1182009  594  Rhomboid family protein  YP_002984455  normal  decreased coverage  0.00483276  Ralstonia pickettii 12D  Bacteria 
 
 
-
 
Rpic12D_4543  CDS  NC_012857  1182190  1183938  1749  PHP domain protein  YP_002984456  normal  decreased coverage  0.00710379  Ralstonia pickettii 12D  Bacteria 
 
 
-
 
Rpic12D_4544  CDS  NC_012857  1184100  1184417  318  ribosomal subunit interface protein  YP_002984457  normal  decreased coverage  0.00451099  Ralstonia pickettii 12D  Bacteria 
 
 
-
 
Rpic12D_4545  CDS  NC_012857  1184441  1185187  747  acetoacetyl-CoA reductase  YP_002984458  normal  decreased coverage  0.00570408  Ralstonia pickettii 12D  Bacteria 
 
 
-
 
Rpic12D_4546  CDS  NC_012857  1185195  1185698  504  hypothetical protein  YP_002984459  normal  decreased coverage  0.0051838  Ralstonia pickettii 12D  Bacteria 
 
 
-
 
Rpic12D_4547  CDS  NC_012857  1185707  1186360  654  nitroreductase  YP_002984460  normal  decreased coverage  0.00573594  Ralstonia pickettii 12D  Bacteria 
 
 
-
 
Rpic12D_4548  CDS  NC_012857  1186408  1187475  1068  Alcohol dehydrogenase GroES domain protein  YP_002984461  normal  decreased coverage  0.00643704  Ralstonia pickettii 12D  Bacteria 
 
 
-
 
Rpic12D_4729  CDS  NC_012855  71710  72123  414  hypothetical protein  YP_002979620  decreased coverage  0.0039354  normal  0.208766  Ralstonia pickettii 12D  Bacteria 
 
 
-
 
Rpic12D_4970  CDS  NC_012855  260586  262619  2034  ATP-dependent OLD family endonuclease  YP_002979858  normal  decreased coverage  0.00358529  Ralstonia pickettii 12D  Bacteria 
 
 
-
 
Rpic12D_4971  CDS  NC_012855  262601  264358  1758  DNA helicase II  YP_002979859  normal  decreased coverage  0.00146307  Ralstonia pickettii 12D  Bacteria 
 
 
-
 
Rpic12D_4972  CDS  NC_012855  264604  264831  228  hypothetical protein  YP_002979860  normal  0.258575  decreased coverage  0.00230592  Ralstonia pickettii 12D  Bacteria 
 
 
-
 
Rpic12D_4973  CDS  NC_012855  264957  265472  516  hypothetical protein  YP_002979861  normal  0.0434846  decreased coverage  0.00239058  Ralstonia pickettii 12D  Bacteria 
 
 
-
 
Rpic12D_4982  CDS  NC_012855  272214  272972  759  Phosphatidylserine/phosphatidylglycerophosphate/ cardiolipin synthase-like protein  YP_002979870  normal  decreased coverage  0.00261395  Ralstonia pickettii 12D  Bacteria 
 
 
-
 
Rpic12D_5108  CDS  NC_012849  11200  12102  903  transcriptional regulator, LysR family  YP_002973586  normal  decreased coverage  0.00133603  Ralstonia pickettii 12D  Bacteria 
 
 
-
 
Rpic12D_5353  CDS  NC_012849  242784  243857  1074  lipoprotein signal peptidase  YP_002973821  decreased coverage  0.00779044  normal  Ralstonia pickettii 12D  Bacteria 
 
 
-
 
Rpic12D_R0014  tRNA  NC_012856  1106278  1106368  91  tRNA-Leu    decreased coverage  9.12382e-06  normal  0.0597094  Ralstonia pickettii 12D  Bacteria 
 
 
-
 
Rpic12D_R0015  tRNA  NC_012856  1106448  1106523  76  tRNA-Asn    decreased coverage  9.0416e-06  normal  0.096467  Ralstonia pickettii 12D  Bacteria 
 
 
-
 
Rpic12D_R0018  tRNA  NC_012856  1174535  1174610  76  tRNA-Glu    decreased coverage  1.28898e-06  normal  0.570463  Ralstonia pickettii 12D  Bacteria 
 
 
-
 
Rpic12D_R0019  tRNA  NC_012856  1174674  1174750  77  tRNA-Asp    decreased coverage  1.39043e-06  normal  0.566857  Ralstonia pickettii 12D  Bacteria 
 
 
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