65 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
Rpic_0440  CDS  NC_010682  470844  471803  960  hypothetical protein  YP_001898027  decreased coverage  1.77301e-07  hitchhiker  3.66225e-13  Ralstonia pickettii 12J  Bacteria 
 
 
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Rpic_0772  CDS  NC_010682  817827  818387  561  putative signal peptide protein  YP_001898355  normal  0.253516  decreased coverage  0.00200061  Ralstonia pickettii 12J  Bacteria 
 
 
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Rpic_0773  CDS  NC_010682  818501  819637  1137  phosphoserine aminotransferase  YP_001898356  normal  0.431862  decreased coverage  0.00259178  Ralstonia pickettii 12J  Bacteria 
 
 
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Rpic_0775  CDS  NC_010682  820893  822017  1125  histidinol-phosphate aminotransferase  YP_001898358  normal  decreased coverage  0.00278497  Ralstonia pickettii 12J  Bacteria 
 
 
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Rpic_0845  CDS  NC_010682  897774  898415  642  Glutathione S-transferase domain  YP_001898427  decreased coverage  0.00564189  normal  0.698807  Ralstonia pickettii 12J  Bacteria 
 
 
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Rpic_0898  CDS  NC_010682  950957  952366  1410  putative transmembrane protein  YP_001898480  normal  decreased coverage  0.00755907  Ralstonia pickettii 12J  Bacteria 
 
 
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Rpic_0953  CDS  NC_010682  1009579  1010514  936  transcriptional regulator, LysR family  YP_001898533  normal  0.0145345  decreased coverage  0.00704929  Ralstonia pickettii 12J  Bacteria 
 
 
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Rpic_0955  CDS  NC_010682  1011826  1012593  768  protein of unknown function DUF899 thioredoxin family protein  YP_001898535  decreased coverage  0.000224117  normal  0.0204099  Ralstonia pickettii 12J  Bacteria 
 
 
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Rpic_0962  CDS  NC_010682  1018411  1019223  813  TatD-related deoxyribonuclease  YP_001898542  decreased coverage  0.00454471  normal  0.0309103  Ralstonia pickettii 12J  Bacteria 
 
 
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Rpic_1015  CDS  NC_010682  1074192  1075244  1053  binding-protein-dependent transport systems inner membrane component  YP_001898595  normal  0.939942  decreased coverage  0.0094028  Ralstonia pickettii 12J  Bacteria 
 
 
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Rpic_1052  CDS  NC_010682  1117962  1118825  864  Endonuclease/exonuclease/phosphatase  YP_001898632  decreased coverage  0.00191941  normal  Ralstonia pickettii 12J  Bacteria 
 
 
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Rpic_1158  CDS  NC_010682  1240064  1241098  1035  GDP-mannose 4,6-dehydratase  YP_001898735  decreased coverage  0.00134514  normal  Ralstonia pickettii 12J  Bacteria 
 
 
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Rpic_1294  CDS  NC_010682  1389733  1390608  876  hypothetical protein  YP_001898870  decreased coverage  0.00319958  normal  0.43414  Ralstonia pickettii 12J  Bacteria 
 
 
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Rpic_1308  CDS  NC_010682  1403803  1405422  1620  GMP synthase  YP_001898884  decreased coverage  0.00743911  normal  0.913177  Ralstonia pickettii 12J  Bacteria 
 
 
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Rpic_1309  CDS  NC_010682  1405524  1405736  213  hypothetical protein  YP_001898885  decreased coverage  0.00190583  normal  0.689071  Ralstonia pickettii 12J  Bacteria 
 
 
-
 
Rpic_1310  CDS  NC_010682  1406004  1406207  204  cold-shock DNA-binding domain protein  YP_001898886  decreased coverage  0.00171676  normal  0.537383  Ralstonia pickettii 12J  Bacteria 
 
 
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Rpic_1318  CDS  NC_010682  1412771  1413520  750  protocatechuate 3,4-dioxygenase, beta subunit  YP_001898893  decreased coverage  0.00387688  normal  0.761807  Ralstonia pickettii 12J  Bacteria 
 
 
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Rpic_1319  CDS  NC_010682  1413520  1414215  696  protocatechuate 3,4-dioxygenase, alpha subunit  YP_001898894  decreased coverage  0.00316133  normal  0.770369  Ralstonia pickettii 12J  Bacteria 
 
 
-
 
Rpic_1352  CDS  NC_010682  1447845  1448651  807  molybdopterin dehydrogenase FAD-binding  YP_001898926  decreased coverage  0.000618101  normal  0.152626  Ralstonia pickettii 12J  Bacteria 
 
 
-
 
Rpic_1369  CDS  NC_010682  1467388  1468584  1197  benzoate transporter  YP_001898943  decreased coverage  0.00588057  normal  0.16803  Ralstonia pickettii 12J  Bacteria 
 
 
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Rpic_1370  CDS  NC_010682  1468652  1468813  162  hypothetical protein  YP_001898944  decreased coverage  0.000494892  normal  0.129115  Ralstonia pickettii 12J  Bacteria 
 
 
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Rpic_1394  CDS  NC_010682  1486217  1486525  309  hypothetical protein  YP_001898967  decreased coverage  0.00101002  normal  0.503719  Ralstonia pickettii 12J  Bacteria 
 
 
-
 
Rpic_1457  CDS  NC_010682  1550162  1550548  387  methionine sulfoxide reductase B  YP_001899030  decreased coverage  0.00518905  hitchhiker  5.1953e-05  Ralstonia pickettii 12J  Bacteria 
 
 
-
 
Rpic_1580  CDS  NC_010682  1669589  1671511  1923  hypothetical protein  YP_001899151  decreased coverage  0.00525053  normal  Ralstonia pickettii 12J  Bacteria 
 
 
-
 
Rpic_1655  CDS  NC_010682  1740340  1740639  300  YHS domain protein  YP_001899225  decreased coverage  4.68344e-06  normal  Ralstonia pickettii 12J  Bacteria 
 
 
-
 
Rpic_1855  CDS  NC_010682  1946746  1947306  561  hypothetical protein  YP_001899423  decreased coverage  0.00770378  hitchhiker  3.48752e-13  Ralstonia pickettii 12J  Bacteria 
 
 
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Rpic_1885  CDS  NC_010682  1985621  1986088  468  putative transmembrane protein  YP_001899453  decreased coverage  0.00765988  normal  0.505321  Ralstonia pickettii 12J  Bacteria 
 
 
-
 
Rpic_1886  CDS  NC_010682  1986106  1986885  780  ApbE family lipoprotein  YP_001899454  decreased coverage  0.00789462  normal  0.699766  Ralstonia pickettii 12J  Bacteria 
 
 
-
 
Rpic_1942  CDS  NC_010682  2048255  2048836  582  phasin family protein  YP_001899509  decreased coverage  0.000889348  hitchhiker  0.00205341  Ralstonia pickettii 12J  Bacteria 
 
 
-
 
Rpic_1946  CDS  NC_010682  2052360  2054033  1674  dihydrolipoamide acetyltransferase  YP_001899513  normal  0.017866  decreased coverage  0.000672984  Ralstonia pickettii 12J  Bacteria 
 
 
-
 
Rpic_2157  CDS  NC_010682  2268850  2269248  399  hypothetical protein  YP_001899723  decreased coverage  0.00412694  normal  Ralstonia pickettii 12J  Bacteria 
 
 
-
 
Rpic_2170  CDS  NC_010682  2283431  2284165  735  Phosphoglycerate mutase  YP_001899736  decreased coverage  0.00522572  normal  0.0339926  Ralstonia pickettii 12J  Bacteria 
 
 
-
 
Rpic_2621  CDS  NC_010682  2735351  2735989  639  Cobyrinic acid ac-diamide synthase  YP_001900180  decreased coverage  0.00296988  normal  Ralstonia pickettii 12J  Bacteria 
 
 
-
 
Rpic_2622  CDS  NC_010682  2735986  2736249  264  hypothetical protein  YP_001900181  decreased coverage  0.0019898  normal  Ralstonia pickettii 12J  Bacteria 
 
 
-
 
Rpic_2623  CDS  NC_010682  2736246  2736779  534  hypothetical protein  YP_001900182  decreased coverage  0.00370788  normal  Ralstonia pickettii 12J  Bacteria 
 
 
-
 
Rpic_2729  CDS  NC_010682  2844930  2845508  579  protein of unknown function DUF218  YP_001900286  decreased coverage  0.00326918  normal  Ralstonia pickettii 12J  Bacteria 
 
 
-
 
Rpic_2730  CDS  NC_010682  2845658  2846863  1206  bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase  YP_001900287  decreased coverage  0.00984234  normal  0.557925  Ralstonia pickettii 12J  Bacteria 
 
 
-
 
Rpic_2805  CDS  NC_010682  2915580  2916200  621  MotA/TolQ/ExbB proton channel  YP_001900361  decreased coverage  0.00166663  normal  Ralstonia pickettii 12J  Bacteria 
 
 
-
 
Rpic_2806  CDS  NC_010682  2916229  2916657  429  Biopolymer transport protein ExbD/TolR  YP_001900362  decreased coverage  0.0047121  normal  Ralstonia pickettii 12J  Bacteria 
 
 
-
 
Rpic_3171  CDS  NC_010682  3321984  3322454  471  hypothetical protein  YP_001900725  decreased coverage  0.00448166  unclonable  1.30626e-14  Ralstonia pickettii 12J  Bacteria 
 
 
-
 
Rpic_3176  CDS  NC_010682  3330252  3331763  1512  N-6 DNA methylase  YP_001900730  decreased coverage  0.00238415  unclonable  3.09055e-14  Ralstonia pickettii 12J  Bacteria 
 
 
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Rpic_3177  CDS  NC_010682  3331760  3332551  792  hypothetical protein  YP_001900731  decreased coverage  1.04058e-07  unclonable  1.81804e-14  Ralstonia pickettii 12J  Bacteria 
 
 
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Rpic_3286  CDS  NC_010682  3429209  3429517  309  50S ribosomal protein L24  YP_001900840  unclonable  7.51448e-10  decreased coverage  5.09284e-07  Ralstonia pickettii 12J  Bacteria 
 
 
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Rpic_3287  CDS  NC_010682  3429529  3429897  369  50S ribosomal protein L14  YP_001900841  unclonable  1.57529e-09  decreased coverage  5.79661e-07  Ralstonia pickettii 12J  Bacteria 
 
 
-
 
Rpic_3290  CDS  NC_010682  3430639  3431055  417  50S ribosomal protein L16  YP_001900844  hitchhiker  4.83098e-05  decreased coverage  5.29176e-07  Ralstonia pickettii 12J  Bacteria 
 
 
-
 
Rpic_3302  CDS  NC_010682  3439860  3440237  378  30S ribosomal protein S12  YP_001900856  decreased coverage  1.19116e-07  hitchhiker  0.00857233  Ralstonia pickettii 12J  Bacteria 
 
 
-
 
Rpic_3519  CDS  NC_010682  3689970  3690518  549  hypothetical protein  YP_001901071  normal  0.32738  decreased coverage  2.13039e-05  Ralstonia pickettii 12J  Bacteria 
 
 
-
 
Rpic_3520  CDS  NC_010682  3690868  3691779  912  parB-like partition protein  YP_001901072  normal  decreased coverage  2.43626e-05  Ralstonia pickettii 12J  Bacteria 
 
 
-
 
Rpic_3586  CDS  NC_010682  3753181  3754281  1101  RelA/SpoT domain protein  YP_001901137  decreased coverage  4.08505e-07  normal  Ralstonia pickettii 12J  Bacteria 
 
 
-
 
Rpic_3809  CDS  NC_010678  57801  58388  588  Fimbrial protein  YP_001892352  decreased coverage  0.00136767  normal  0.0813635  Ralstonia pickettii 12J  Bacteria 
 
 
-
 
Rpic_4223  CDS  NC_010678  505450  506982  1533  RND efflux system, outer membrane lipoprotein, NodT family  YP_001892747  decreased coverage  0.00337155  normal  Ralstonia pickettii 12J  Bacteria 
 
 
-
 
Rpic_4350  CDS  NC_010678  653239  654120  882  hypothetical protein  YP_001892872  decreased coverage  0.00630082  normal  Ralstonia pickettii 12J  Bacteria 
 
 
-
 
Rpic_4467  CDS  NC_010678  784430  785002  573  putative transmembrane protein  YP_001892987  decreased coverage  0.00546453  normal  0.335651  Ralstonia pickettii 12J  Bacteria 
 
 
-
 
Rpic_4669  CDS  NC_010678  999638  1003375  3738  nitrate reductase, alpha subunit  YP_001893181  decreased coverage  0.00847712  normal  Ralstonia pickettii 12J  Bacteria 
 
 
-
 
Rpic_4707  CDS  NC_010678  1050910  1051689  780  Enoyl-CoA hydratase/isomerase  YP_001893218  normal  0.287025  decreased coverage  0.00358317  Ralstonia pickettii 12J  Bacteria 
 
 
-
 
Rpic_4708  CDS  NC_010678  1051686  1052120  435  transcriptional regulator, MarR family  YP_001893219  normal  0.155133  decreased coverage  0.00302291  Ralstonia pickettii 12J  Bacteria 
 
 
-
 
Rpic_4709  CDS  NC_010678  1052117  1053004  888  alpha/beta hydrolase-like protein  YP_001893220  normal  0.0396894  decreased coverage  0.00396778  Ralstonia pickettii 12J  Bacteria 
 
 
-
 
Rpic_4713  CDS  NC_010678  1056033  1056707  675  Phosphoglycerate mutase  YP_001893224  normal  0.119868  decreased coverage  0.00406557  Ralstonia pickettii 12J  Bacteria 
 
 
-
 
Rpic_4714  CDS  NC_010678  1056771  1057535  765  short chain dehydrogenase  YP_001893225  normal  0.0274692  decreased coverage  0.00406557  Ralstonia pickettii 12J  Bacteria 
 
 
-
 
Rpic_4715  CDS  NC_010678  1057608  1058525  918  beta-lactamase domain protein  YP_001893226  normal  0.515009  decreased coverage  0.00436912  Ralstonia pickettii 12J  Bacteria 
 
 
-
 
Rpic_4760  CDS  NC_010678  1097864  1098466  603  hypothetical protein  YP_001893271  decreased coverage  0.00298673  normal  Ralstonia pickettii 12J  Bacteria 
 
 
-
 
Rpic_4912  CDS  NC_010678  1263058  1264428  1371  Carbohydrate-selective porin OprB  YP_001893423  decreased coverage  0.00363735  normal  Ralstonia pickettii 12J  Bacteria 
 
 
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Rpic_4913  CDS  NC_010678  1264460  1265467  1008  D-xylose ABC transporter, periplasmic substrate-binding protein  YP_001893424  decreased coverage  0.00296988  normal  Ralstonia pickettii 12J  Bacteria 
 
 
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Rpic_4985  CDS  NC_010683  34318  37485  3168  heavy metal efflux pump, CzcA family  YP_001901346  normal  decreased coverage  0.00799341  Ralstonia pickettii 12J  Bacteria 
 
 
-
 
Rpic_4992  CDS  NC_010683  44304  45800  1497  Carbohydrate-selective porin OprB  YP_001901353  decreased coverage  2.30615e-14  hitchhiker  0.00966153  Ralstonia pickettii 12J  Bacteria 
 
 
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