273 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
Rmet_0053  CDS  NC_007973  60680  61192  513  rod shape-determining protein MreD  YP_582208  decreased coverage  0.00417177  normal  Cupriavidus metallidurans CH34  Bacteria 
 
 
-
 
Rmet_0055  CDS  NC_007973  63631  64773  1143  rod shape-determining protein RodA  YP_582210  decreased coverage  0.00692025  normal  Cupriavidus metallidurans CH34  Bacteria 
 
 
-
 
Rmet_0387  CDS  NC_007973  414803  415999  1197  acetyl-CoA acetyltransferase  YP_582542  normal  0.618119  decreased coverage  0.00238566  Cupriavidus metallidurans CH34  Bacteria 
 
 
-
 
Rmet_0391  CDS  NC_007973  418454  420346  1893  ABC transporter-related protein  YP_582546  normal  decreased coverage  0.00324467  Cupriavidus metallidurans CH34  Bacteria 
 
 
-
 
Rmet_0392  CDS  NC_007973  420529  421587  1059  twin-arginine translocation pathway signal  YP_582547  normal  decreased coverage  0.00263227  Cupriavidus metallidurans CH34  Bacteria 
 
 
-
 
Rmet_0450  CDS  NC_007973  477549  478436  888  CBS transporter-associated protein  YP_582605  decreased coverage  0.00559232  normal  Cupriavidus metallidurans CH34  Bacteria 
 
 
-
 
Rmet_0514  CDS  NC_007973  550070  551641  1572  secretion protein HlyD  YP_582669  decreased coverage  0.00131685  normal  0.623408  Cupriavidus metallidurans CH34  Bacteria 
 
 
-
 
Rmet_0515  CDS  NC_007973  551784  552518  735  two component transcriptional regulator  YP_582670  decreased coverage  7.67404e-05  normal  0.580599  Cupriavidus metallidurans CH34  Bacteria 
 
 
-
 
Rmet_0516  CDS  NC_007973  552515  553798  1284  periplasmic sensor signal transduction histidine kinase  YP_582671  decreased coverage  0.00170031  normal  0.618297  Cupriavidus metallidurans CH34  Bacteria 
 
 
-
 
Rmet_0608  CDS  NC_007973  659923  661962  2040  3-methylcrotonoyl-CoA carboxylase, subunit alpha  YP_582763  decreased coverage  0.00695575  normal  0.371744  Cupriavidus metallidurans CH34  Bacteria 
 
 
-
 
Rmet_0669  CDS  NC_007973  736238  736741  504  response regulator receiver domain-containing protein  YP_582824  decreased coverage  0.00304574  normal  0.832292  Cupriavidus metallidurans CH34  Bacteria 
 
 
-
 
Rmet_0682  CDS  NC_007973  754836  755483  648  hypothetical protein  YP_582837  decreased coverage  0.00825878  normal  0.45862  Cupriavidus metallidurans CH34  Bacteria 
 
 
-
 
Rmet_0683  CDS  NC_007973  755491  756165  675  Smr protein/MutS2  YP_582838  decreased coverage  0.00169527  normal  0.676514  Cupriavidus metallidurans CH34  Bacteria 
 
 
-
 
Rmet_0684  CDS  NC_007973  756284  757237  954  thioredoxin reductase  YP_582839  decreased coverage  0.00860267  normal  0.703249  Cupriavidus metallidurans CH34  Bacteria 
 
 
-
 
Rmet_0739  CDS  NC_007973  816675  818459  1785  acyl-CoA dehydrogenase-like protein  YP_582894  decreased coverage  0.00752028  normal  Cupriavidus metallidurans CH34  Bacteria 
 
 
-
 
Rmet_0757  CDS  NC_007973  835206  836990  1785  Lipid A export ATP-binding/permease protein MsbA  YP_582912  decreased coverage  0.00726386  normal  Cupriavidus metallidurans CH34  Bacteria 
 
 
-
 
Rmet_0762  CDS  NC_007973  840383  841159  777  phosphonate C-P lyase system protein PhnK  YP_582917  decreased coverage  0.000264723  normal  Cupriavidus metallidurans CH34  Bacteria 
 
 
-
 
Rmet_0836  CDS  NC_007973  914095  914688  594  hypothetical protein  YP_582991  decreased coverage  0.0056158  normal  0.0202769  Cupriavidus metallidurans CH34  Bacteria 
 
 
-
 
Rmet_0891  CDS  NC_007973  976126  977121  996  molybdenum cofactor sulfurylase  YP_583046  decreased coverage  0.0014359  normal  0.859862  Cupriavidus metallidurans CH34  Bacteria 
 
 
-
 
Rmet_0926  CDS  NC_007973  1011728  1012096  369  preprotein translocase subunit SecG  YP_583081  decreased coverage  0.00206751  normal  Cupriavidus metallidurans CH34  Bacteria 
 
 
-
 
Rmet_0967  CDS  NC_007973  1050834  1051526  693  glutathione S-transferase-like protein  YP_583122  decreased coverage  0.00253605  normal  0.0380102  Cupriavidus metallidurans CH34  Bacteria 
 
 
-
 
Rmet_1016  CDS  NC_007973  1105662  1106294  633  TetR family transcriptional regulator  YP_583171  decreased coverage  0.00988275  normal  0.688061  Cupriavidus metallidurans CH34  Bacteria 
 
 
-
 
Rmet_1025  CDS  NC_007973  1115331  1116551  1221  cysteine desulfurase  YP_583180  decreased coverage  0.00998384  normal  0.30784  Cupriavidus metallidurans CH34  Bacteria 
 
 
-
 
Rmet_1026  CDS  NC_007973  1116608  1117009  402  scaffold protein  YP_583181  decreased coverage  0.00834233  normal  0.269597  Cupriavidus metallidurans CH34  Bacteria 
 
 
-
 
Rmet_1046  CDS  NC_007973  1139122  1139637  516  gluconate kinase  YP_583201  decreased coverage  0.000585509  normal  0.104537  Cupriavidus metallidurans CH34  Bacteria 
 
 
-
 
Rmet_1062  CDS  NC_007973  1155271  1156164  894  alpha/beta hydrolase fold  YP_583217  decreased coverage  0.00192187  normal  Cupriavidus metallidurans CH34  Bacteria 
 
 
-
 
Rmet_1089  CDS  NC_007973  1181621  1182871  1251  aspartate kinase  YP_583244  decreased coverage  2.3583e-09  hitchhiker  0.00464797  Cupriavidus metallidurans CH34  Bacteria 
 
 
-
 
Rmet_1116  CDS  NC_007973  1217577  1218644  1068  ornithine cyclodeaminase  YP_583271  decreased coverage  0.00262553  normal  Cupriavidus metallidurans CH34  Bacteria 
 
 
-
 
Rmet_1117  CDS  NC_007973  1218641  1219666  1026  pyridoxal-5'-phosphate-dependent enzyme, subunit beta  YP_583272  decreased coverage  0.000129584  normal  0.764642  Cupriavidus metallidurans CH34  Bacteria 
 
 
-
 
Rmet_1123  CDS  NC_007973  1229036  1229947  912  extracellular solute-binding protein  YP_583278  decreased coverage  0.00011354  normal  Cupriavidus metallidurans CH34  Bacteria 
 
 
-
 
Rmet_1130  CDS  NC_007973  1236978  1237607  630  flavodoxin/nitric oxide synthase  YP_583285  decreased coverage  0.0057993  normal  Cupriavidus metallidurans CH34  Bacteria 
 
 
-
 
Rmet_1185  CDS  NC_007973  1298144  1299076  933  LysR family transcriptional regulator  YP_583340  decreased coverage  5.37468e-09  normal  Cupriavidus metallidurans CH34  Bacteria 
 
 
-
 
Rmet_1192  CDS  NC_007973  1306839  1307696  858  bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase  YP_583347  decreased coverage  0.000194196  normal  Cupriavidus metallidurans CH34  Bacteria 
 
 
-
 
Rmet_1263  CDS  NC_007973  1384634  1385440  807  transposase/IS protein  YP_583417  decreased coverage  0.00267464  normal  0.0242301  Cupriavidus metallidurans CH34  Bacteria 
 
 
-
 
Rmet_1291  CDS  NC_007973  1409022  1409471  450  hydrogenase-1 expression HyaE  YP_583445  decreased coverage  0.000102865  normal  0.731428  Cupriavidus metallidurans CH34  Bacteria 
 
 
-
 
Rmet_1336  CDS  NC_007973  1446803  1447765  963  LysR family transcriptional regulator  YP_583488  decreased coverage  0.00681412  normal  Cupriavidus metallidurans CH34  Bacteria 
 
 
-
 
Rmet_1349  CDS  NC_007973  1458098  1459090  993  conjugal transfer protein TrbG/VirB9/CagX  YP_583501  decreased coverage  9.92515e-06  normal  Cupriavidus metallidurans CH34  Bacteria 
 
 
-
 
Rmet_1350  CDS  NC_007973  1459093  1460364  1272  conjugation TrbI-like protein  YP_583502  decreased coverage  2.74304e-05  normal  Cupriavidus metallidurans CH34  Bacteria 
 
 
-
 
Rmet_1387  CDS  NC_007973  1496857  1497291  435  hypothetical protein  YP_583539  decreased coverage  0.00373989  normal  0.527764  Cupriavidus metallidurans CH34  Bacteria 
 
 
-
 
Rmet_1424  CDS  NC_007973  1537892  1539124  1233  succinyldiaminopimelate transaminase  YP_583576  decreased coverage  0.000365494  normal  0.0284066  Cupriavidus metallidurans CH34  Bacteria 
 
 
-
 
Rmet_1439  CDS  NC_007973  1559846  1560616  771  undecaprenyl pyrophosphate synthetase  YP_583591  normal  decreased coverage  0.000108865  Cupriavidus metallidurans CH34  Bacteria 
 
 
-
 
Rmet_1440  CDS  NC_007973  1560659  1561480  822  phosphatidate cytidylyltransferase  YP_583592  normal  decreased coverage  0.000100946  Cupriavidus metallidurans CH34  Bacteria 
 
 
-
 
Rmet_1441  CDS  NC_007973  1561512  1562690  1179  1-deoxy-D-xylulose 5-phosphate reductoisomerase  YP_583593  normal  decreased coverage  0.000100102  Cupriavidus metallidurans CH34  Bacteria 
 
 
-
 
Rmet_1442  CDS  NC_007973  1562732  1564123  1392  peptidase RseP  YP_583594  normal  decreased coverage  0.000104376  Cupriavidus metallidurans CH34  Bacteria 
 
 
-
 
Rmet_1443  CDS  NC_007973  1564200  1566575  2376  surface antigen (D15)  YP_583595  normal  0.680805  decreased coverage  0.000148941  Cupriavidus metallidurans CH34  Bacteria 
 
 
-
 
Rmet_1449  CDS  NC_007973  1570802  1571482  681  ribonuclease HII  YP_583601  decreased coverage  1.43368e-05  normal  0.271939  Cupriavidus metallidurans CH34  Bacteria 
 
 
-
 
Rmet_1492  CDS  NC_007973  1614223  1615083  861  fructose-bisphosphate aldolase  YP_583644  decreased coverage  0.00472623  normal  0.0479815  Cupriavidus metallidurans CH34  Bacteria 
 
 
-
 
Rmet_1501  CDS  NC_007973  1620446  1621867  1422  ribulose bisophosphate carboxylase  YP_583653  decreased coverage  0.0011462  normal  0.0288871  Cupriavidus metallidurans CH34  Bacteria 
 
 
-
 
Rmet_1510  CDS  NC_007973  1631163  1631861  699  ribulose-5-phosphate 3-epimerase  YP_583662  decreased coverage  4.72426e-08  decreased coverage  6.66279e-05  Cupriavidus metallidurans CH34  Bacteria 
 
 
-
 
Rmet_1511  CDS  NC_007973  1632041  1633138  1098  D-fructose 1,6-bisphosphatase  YP_583663  decreased coverage  4.22669e-08  decreased coverage  8.00022e-05  Cupriavidus metallidurans CH34  Bacteria 
 
 
-
 
Rmet_1512  CDS  NC_007973  1633171  1634055  885  phosphoribulokinase/uridine kinase  YP_583664  hitchhiker  8.7167e-07  decreased coverage  7.73868e-05  Cupriavidus metallidurans CH34  Bacteria 
 
 
-
 
Rmet_1513  CDS  NC_007973  1634055  1636109  2055  transketolase  YP_583665  hitchhiker  0.00869632  decreased coverage  0.000119249  Cupriavidus metallidurans CH34  Bacteria 
 
 
-
 
Rmet_1514  CDS  NC_007973  1636111  1636842  732  phosphoglycolate phosphatase  YP_583666  hitchhiker  0.00414525  decreased coverage  7.36152e-05  Cupriavidus metallidurans CH34  Bacteria 
 
 
-
 
Rmet_1515  CDS  NC_007973  1636839  1637846  1008  glyceraldehyde-3-phosphate dehydrogenase  YP_583667  normal  0.0102249  decreased coverage  8.48331e-05  Cupriavidus metallidurans CH34  Bacteria 
 
 
-
 
Rmet_1516  CDS  NC_007973  1637843  1639033  1191  phosphoglycerate kinase  YP_583668  normal  0.0183024  decreased coverage  8.00022e-05  Cupriavidus metallidurans CH34  Bacteria 
 
 
-
 
Rmet_1517  CDS  NC_007973  1639030  1639848  819  HAD family hydrolase  YP_583669  hitchhiker  0.00550293  decreased coverage  6.88846e-05  Cupriavidus metallidurans CH34  Bacteria 
 
 
-
 
Rmet_1518  CDS  NC_007973  1639908  1640945  1038  fructose-1,6-bisphosphate aldolase  YP_583670  hitchhiker  9.80725e-05  decreased coverage  7.6105e-05  Cupriavidus metallidurans CH34  Bacteria 
 
 
-
 
Rmet_1519  CDS  NC_007973  1640960  1642378  1419  pyruvate kinase  YP_583671  normal  0.0210693  decreased coverage  9.76418e-05  Cupriavidus metallidurans CH34  Bacteria 
 
 
-
 
Rmet_1520  CDS  NC_007973  1642414  1643232  819  triosephosphate isomerase  YP_583672  normal  0.0128427  decreased coverage  8.34169e-05  Cupriavidus metallidurans CH34  Bacteria 
 
 
-
 
Rmet_1521  CDS  NC_007973  1643232  1643891  660  ribose-5-phosphate isomerase A  YP_583673  hitchhiker  0.00414948  decreased coverage  8.20366e-05  Cupriavidus metallidurans CH34  Bacteria 
 
 
-
 
Rmet_1522  CDS  NC_007973  1644017  1645825  1809  respiratory-chain NADH dehydrogenase domain-containing protein  YP_583674  decreased coverage  0.000148322  hitchhiker  0.000569435  Cupriavidus metallidurans CH34  Bacteria 
 
 
-
 
Rmet_1523  CDS  NC_007973  1645822  1646532  711  ferredoxin  YP_583675  decreased coverage  1.71825e-05  hitchhiker  0.00403982  Cupriavidus metallidurans CH34  Bacteria 
 
 
-
 
Rmet_1525  CDS  NC_007973  1647176  1648642  1467  nickel-dependent hydrogenase, large subunit  YP_583677  decreased coverage  8.94187e-06  hitchhiker  0.00486844  Cupriavidus metallidurans CH34  Bacteria 
 
 
-
 
Rmet_1526  CDS  NC_007973  1648626  1649132  507  HoxW protein  YP_583678  decreased coverage  9.60813e-06  hitchhiker  0.00380568  Cupriavidus metallidurans CH34  Bacteria 
 
 
-
 
Rmet_1527  CDS  NC_007973  1649145  1649648  504  cyclic nucleotide-binding domain-containing protein  YP_583679  decreased coverage  1.28576e-05  hitchhiker  0.00383137  Cupriavidus metallidurans CH34  Bacteria 
 
 
-
 
Rmet_1539  CDS  NC_007973  1659525  1660667  1143  hydrogenase expression/formation protein HypD  YP_583691  decreased coverage  0.000400183  normal  0.116221  Cupriavidus metallidurans CH34  Bacteria 
 
 
-
 
Rmet_1540  CDS  NC_007973  1660741  1661790  1050  hydrogenase expression/formation protein HypE  YP_583692  decreased coverage  8.83886e-06  normal  0.111823  Cupriavidus metallidurans CH34  Bacteria 
 
 
-
 
Rmet_1541  CDS  NC_007973  1661889  1663628  1740  formyl transferase-like protein  YP_583693  decreased coverage  0.00137712  normal  0.223229  Cupriavidus metallidurans CH34  Bacteria 
 
 
-
 
Rmet_1542  CDS  NC_007973  1663625  1664554  930  response regulator receiver domain-containing protein  YP_583694  decreased coverage  0.000150385  normal  0.319028  Cupriavidus metallidurans CH34  Bacteria 
 
 
-
 
Rmet_1550  CDS  NC_007973  1672583  1673659  1077  type II secretion system protein E  YP_583702  decreased coverage  0.00260971  normal  0.700306  Cupriavidus metallidurans CH34  Bacteria 
 
 
-
 
Rmet_1556  CDS  NC_007973  1677817  1679202  1386  conjugal transfer protein TrbL  YP_583708  decreased coverage  0.000247967  normal  Cupriavidus metallidurans CH34  Bacteria 
 
 
-
 
Rmet_1583  CDS  NC_007973  1703543  1704670  1128  asparaginase  YP_583735  decreased coverage  0.000246256  normal  0.508617  Cupriavidus metallidurans CH34  Bacteria 
 
 
-
 
Rmet_1586  CDS  NC_007973  1708847  1710004  1158  methylcitrate synthase  YP_583738  decreased coverage  0.000154256  normal  0.49975  Cupriavidus metallidurans CH34  Bacteria 
 
 
-
 
Rmet_1587  CDS  NC_007973  1710063  1710971  909  2-methylisocitrate lyase  YP_583739  decreased coverage  0.000235696  normal  0.470108  Cupriavidus metallidurans CH34  Bacteria 
 
 
-
 
Rmet_1588  CDS  NC_007973  1711364  1713265  1902  putative PAS/PAC sensor protein  YP_583740  decreased coverage  0.00103997  normal  0.3831  Cupriavidus metallidurans CH34  Bacteria 
 
 
-
 
Rmet_1615  CDS  NC_007973  1741484  1742506  1023  binding-protein-dependent transport systems inner membrane component  YP_583767  decreased coverage  0.00450006  normal  Cupriavidus metallidurans CH34  Bacteria 
 
 
-
 
Rmet_1640  CDS  NC_007973  1772607  1773845  1239  putative UreA/short-chain amide ABC transporter  YP_583792  decreased coverage  0.000640664  normal  Cupriavidus metallidurans CH34  Bacteria 
 
 
-
 
Rmet_1684  CDS  NC_007973  1821753  1824512  2760  response regulator receiver domain-containing protein  YP_583834  decreased coverage  0.00676218  normal  Cupriavidus metallidurans CH34  Bacteria 
 
 
-
 
Rmet_1697  CDS  NC_007973  1839378  1840331  954  histidine kinase  YP_583847  decreased coverage  8.28952e-05  normal  Cupriavidus metallidurans CH34  Bacteria 
 
 
-
 
Rmet_1698  CDS  NC_007973  1840342  1840917  576  two component LuxR family transcriptional regulator  YP_583848  decreased coverage  0.000145996  normal  Cupriavidus metallidurans CH34  Bacteria 
 
 
-
 
Rmet_1706  CDS  NC_007973  1848904  1849290  387  hypothetical protein  YP_583856  decreased coverage  0.00508842  normal  Cupriavidus metallidurans CH34  Bacteria 
 
 
-
 
Rmet_1738  CDS  NC_007973  1883223  1885199  1977  glycosyl transferase family protein  YP_583886  decreased coverage  0.0016739  normal  Cupriavidus metallidurans CH34  Bacteria 
 
 
-
 
Rmet_1739  CDS  NC_007973  1885214  1886569  1356  hypothetical protein  YP_583887  decreased coverage  0.000894405  normal  0.770244  Cupriavidus metallidurans CH34  Bacteria 
 
 
-
 
Rmet_1753  CDS  NC_007973  1903173  1903475  303  hypothetical protein  YP_583901  normal  decreased coverage  0.00772918  Cupriavidus metallidurans CH34  Bacteria 
 
 
-
 
Rmet_1779  CDS  NC_007973  1931328  1932491  1164  hypothetical protein  YP_583927  decreased coverage  0.00148709  normal  Cupriavidus metallidurans CH34  Bacteria 
 
 
-
 
Rmet_1780  CDS  NC_007973  1932494  1933090  597  methyltransferase type 11  YP_583928  decreased coverage  0.0020102  normal  0.965795  Cupriavidus metallidurans CH34  Bacteria 
 
 
-
 
Rmet_1796  CDS  NC_007973  1948343  1950220  1878  fusaric acid resistance protein region  YP_583944  decreased coverage  0.00451003  normal  Cupriavidus metallidurans CH34  Bacteria 
 
 
-
 
Rmet_1815  CDS  NC_007973  1968868  1969845  978  hypothetical protein  YP_583963  decreased coverage  0.00540737  normal  0.0160042  Cupriavidus metallidurans CH34  Bacteria 
 
 
-
 
Rmet_1819  CDS  NC_007973  1973011  1975239  2229  TonB-dependent siderophore receptor  YP_583967  normal  0.258829  decreased coverage  0.00296293  Cupriavidus metallidurans CH34  Bacteria 
 
 
-
 
Rmet_1820  CDS  NC_007973  1975331  1976533  1203  phosphoribosylglycinamide formyltransferase 2  YP_583968  normal  decreased coverage  0.00220765  Cupriavidus metallidurans CH34  Bacteria 
 
 
-
 
Rmet_1821  CDS  NC_007973  1976611  1977954  1344  MscS mechanosensitive ion channel  YP_583969  normal  0.626552  decreased coverage  0.00243652  Cupriavidus metallidurans CH34  Bacteria 
 
 
-
 
Rmet_1831  CDS  NC_007973  1986764  1987054  291  hypothetical protein  YP_583979  decreased coverage  0.00125408  normal  0.187704  Cupriavidus metallidurans CH34  Bacteria 
 
 
-
 
Rmet_1841  CDS  NC_007973  1995729  1996166  438  4-hydroxybenzoyl-CoA thioesterase  YP_583989  decreased coverage  0.00333557  normal  0.105066  Cupriavidus metallidurans CH34  Bacteria 
 
 
-
 
Rmet_1842  CDS  NC_007973  1996227  1997210  984  twin-arginine translocation pathway signal  YP_583990  decreased coverage  0.00400007  normal  0.117909  Cupriavidus metallidurans CH34  Bacteria 
 
 
-
 
Rmet_1877  CDS  NC_007973  2037881  2039170  1290  FAD dependent oxidoreductase  YP_584025  decreased coverage  0.000325686  normal  Cupriavidus metallidurans CH34  Bacteria 
 
 
-
 
Rmet_1934  CDS  NC_007973  2103010  2103897  888  binding-protein-dependent transport systems inner membrane component  YP_584082  decreased coverage  0.00302437  normal  0.783819  Cupriavidus metallidurans CH34  Bacteria 
 
 
-
 
Rmet_1939  CDS  NC_007973  2107731  2108669  939  LysR family transcriptional regulator  YP_584087  decreased coverage  1.0986e-05  normal  0.809393  Cupriavidus metallidurans CH34  Bacteria 
 
 
-
 
Rmet_1956  CDS  NC_007973  2128466  2129701  1236  acetylornithine deacetylase  YP_584104  decreased coverage  2.05463e-05  normal  Cupriavidus metallidurans CH34  Bacteria 
 
 
-
 
Rmet_1957  CDS  NC_007973  2129989  2131839  1851  gamma-glutamyltranspeptidase  YP_584105  decreased coverage  0.000150594  normal  0.152366  Cupriavidus metallidurans CH34  Bacteria 
 
 
-
 
Rmet_1965  CDS  NC_007973  2140320  2141765  1446  threonine synthase  YP_584113  decreased coverage  6.23225e-05  normal  0.345947  Cupriavidus metallidurans CH34  Bacteria 
 
 
-
 
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