90 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
Smed_0045  CDS  NC_009636  47291  47710  420  XRE family transcriptional regulator  YP_001325740  decreased coverage  7.42068e-06  hitchhiker  6.14145e-11  Sinorhizobium medicae WSM419  Bacteria 
 
 
-
 
Smed_0101  CDS  NC_009636  111629  112858  1230  ROK family protein  YP_001325796  decreased coverage  0.00205324  normal  Sinorhizobium medicae WSM419  Bacteria 
 
 
-
 
Smed_0248  CDS  NC_009636  271834  272481  648  flagellar motor switch protein FliN  YP_001325942  decreased coverage  0.00193923  normal  0.661473  Sinorhizobium medicae WSM419  Bacteria 
 
 
-
 
Smed_0251  CDS  NC_009636  274499  275278  780  hypothetical protein  YP_001325945  decreased coverage  0.00748902  normal  0.467575  Sinorhizobium medicae WSM419  Bacteria 
 
 
-
 
Smed_0353  CDS  NC_009636  378111  378878  768  protein of unknown function DUF899 thioredoxin family protein  YP_001326046  decreased coverage  0.00646248  normal  0.96044  Sinorhizobium medicae WSM419  Bacteria 
 
 
-
 
Smed_0393  CDS  NC_009636  421682  422578  897  LysR family transcriptional regulator  YP_001326085  decreased coverage  0.00156411  normal  0.514567  Sinorhizobium medicae WSM419  Bacteria 
 
 
-
 
Smed_0489  CDS  NC_009636  531702  533798  2097  methyl-accepting chemotaxis sensory transducer  YP_001326181  decreased coverage  0.000832175  normal  Sinorhizobium medicae WSM419  Bacteria 
 
 
-
 
Smed_0628  CDS  NC_009636  674274  674609  336  hypothetical protein  YP_001326319  decreased coverage  0.00633801  normal  Sinorhizobium medicae WSM419  Bacteria 
 
 
-
 
Smed_0734  CDS  NC_009636  788168  789667  1500  replicative DNA helicase  YP_001326425  decreased coverage  0.00267216  normal  0.96044  Sinorhizobium medicae WSM419  Bacteria 
 
 
-
 
Smed_1003  CDS  NC_009636  1076377  1076946  570  30S ribosomal protein S5  YP_001326691  normal  0.0840798  decreased coverage  0.00550147  Sinorhizobium medicae WSM419  Bacteria 
 
 
-
 
Smed_1004  CDS  NC_009636  1076959  1077162  204  50S ribosomal protein L30  YP_001326692  normal  0.0620766  decreased coverage  0.00478074  Sinorhizobium medicae WSM419  Bacteria 
 
 
-
 
Smed_1015  CDS  NC_009636  1086000  1087310  1311  recombination factor protein RarA  YP_001326703  decreased coverage  0.00103733  normal  0.467953  Sinorhizobium medicae WSM419  Bacteria 
 
 
-
 
Smed_1028  CDS  NC_009636  1098221  1099537  1317  hypothetical protein  YP_001326716  decreased coverage  5.62968e-05  normal  Sinorhizobium medicae WSM419  Bacteria 
 
 
-
 
Smed_1201  CDS  NC_009636  1281258  1281884  627  hypothetical protein  YP_001326886  decreased coverage  2.32324e-05  normal  0.882525  Sinorhizobium medicae WSM419  Bacteria 
 
 
-
 
Smed_1264  CDS  NC_009636  1358823  1359368  546  phosphopantetheine adenylyltransferase  YP_001326949  decreased coverage  0.00933319  normal  0.787413  Sinorhizobium medicae WSM419  Bacteria 
 
 
-
 
Smed_1325  CDS  NC_009636  1415302  1415718  417  gene transfer agent  YP_001327010  decreased coverage  0.00376041  normal  Sinorhizobium medicae WSM419  Bacteria 
 
 
-
 
Smed_1437  CDS  NC_009636  1517409  1518161  753  short-chain dehydrogenase/reductase SDR  YP_001327118  normal  0.46093  decreased coverage  1.00027e-06  Sinorhizobium medicae WSM419  Bacteria 
 
 
-
 
Smed_1438  CDS  NC_009636  1518158  1519807  1650  acyl-CoA synthetase  YP_001327119  normal  0.603543  decreased coverage  1.73613e-06  Sinorhizobium medicae WSM419  Bacteria 
 
 
-
 
Smed_1439  CDS  NC_009636  1519804  1520973  1170  acetyl-CoA acetyltransferase  YP_001327120  normal  0.557152  decreased coverage  2.85125e-07  Sinorhizobium medicae WSM419  Bacteria 
 
 
-
 
Smed_1443  CDS  NC_009636  1523785  1525653  1869  TRAP C4-dicarboxylate transport system permease DctM subunit  YP_001327124  decreased coverage  0.000367169  hitchhiker  0.000267752  Sinorhizobium medicae WSM419  Bacteria 
 
 
-
 
Smed_1444  CDS  NC_009636  1526132  1526383  252  hypothetical protein  YP_001327125  decreased coverage  3.67868e-05  hitchhiker  0.00032465  Sinorhizobium medicae WSM419  Bacteria 
 
 
-
 
Smed_1452  CDS  NC_009636  1532678  1534480  1803  single-stranded-DNA-specific exonuclease RecJ  YP_001327132  decreased coverage  0.00256801  hitchhiker  0.00132955  Sinorhizobium medicae WSM419  Bacteria 
 
 
-
 
Smed_1575  CDS  NC_009636  1672262  1674157  1896  hypothetical protein  YP_001327251  decreased coverage  0.00305451  normal  0.645388  Sinorhizobium medicae WSM419  Bacteria 
 
 
-
 
Smed_1614  CDS  NC_009636  1709504  1709893  390  thioesterase superfamily protein  YP_001327290  decreased coverage  0.00678446  normal  0.171125  Sinorhizobium medicae WSM419  Bacteria 
 
 
-
 
Smed_1728  CDS  NC_009636  1808944  1810179  1236  extracellular solute-binding protein  YP_001327398  decreased coverage  0.00458236  normal  0.504509  Sinorhizobium medicae WSM419  Bacteria 
 
 
-
 
Smed_1795  CDS  NC_009636  1877988  1878812  825  response regulator receiver protein  YP_001327465  decreased coverage  0.00918371  hitchhiker  0.000651153  Sinorhizobium medicae WSM419  Bacteria 
 
 
-
 
Smed_1799  CDS  NC_009636  1882263  1882901  639  integral membrane protein TerC  YP_001327469  normal  0.916732  decreased coverage  0.000172581  Sinorhizobium medicae WSM419  Bacteria 
 
 
-
 
Smed_1863  CDS  NC_009636  1936118  1936855  738  necrosis-inducing protein  YP_001327532  decreased coverage  0.00488772  normal  0.370608  Sinorhizobium medicae WSM419  Bacteria 
 
 
-
 
Smed_1925  CDS  NC_009636  1980412  1981419  1008  phage recombination protein Bet  YP_001327594  decreased coverage  0.00134749  normal  Sinorhizobium medicae WSM419  Bacteria 
 
 
-
 
Smed_2041  CDS  NC_009636  2093525  2094469  945  ABC transporter binding protein  YP_001327709  decreased coverage  0.00512093  normal  0.331849  Sinorhizobium medicae WSM419  Bacteria 
 
 
-
 
Smed_2084  CDS  NC_009636  2141181  2142572  1392  UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase  YP_001327752  normal  0.0517095  decreased coverage  0.000454332  Sinorhizobium medicae WSM419  Bacteria 
 
 
-
 
Smed_2085  CDS  NC_009636  2142578  2143678  1101  phospho-N-acetylmuramoyl-pentapeptide- transferase  YP_001327753  normal  0.0499582  decreased coverage  0.000454332  Sinorhizobium medicae WSM419  Bacteria 
 
 
-
 
Smed_2170  CDS  NC_009636  2240929  2241747  819  binding-protein-dependent transport systems inner membrane component  YP_001327838  decreased coverage  0.00609739  normal  Sinorhizobium medicae WSM419  Bacteria 
 
 
-
 
Smed_2179  CDS  NC_009636  2252422  2253531  1110  binding-protein-dependent transport systems inner membrane component  YP_001327847  decreased coverage  0.00925001  normal  0.561279  Sinorhizobium medicae WSM419  Bacteria 
 
 
-
 
Smed_2192  CDS  NC_009636  2268614  2270788  2175  ferrioxamine B receptor precursor protein  YP_001327860  normal  0.411084  decreased coverage  0.00773577  Sinorhizobium medicae WSM419  Bacteria 
 
 
-
 
Smed_2193  CDS  NC_009636  2270794  2271549  756  ferric iron reductase  YP_001327861  normal  0.544293  decreased coverage  0.00470622  Sinorhizobium medicae WSM419  Bacteria 
 
 
-
 
Smed_2343  CDS  NC_009636  2419789  2420220  432  hypothetical protein  YP_001328010  decreased coverage  0.00267953  normal  Sinorhizobium medicae WSM419  Bacteria 
 
 
-
 
Smed_2352  CDS  NC_009636  2427810  2428478  669  HAD family hydrolase  YP_001328019  decreased coverage  0.00492029  normal  Sinorhizobium medicae WSM419  Bacteria 
 
 
-
 
Smed_2395  CDS  NC_009636  2470532  2471419  888  ABC transporter related  YP_001328062  normal  decreased coverage  0.00705338  Sinorhizobium medicae WSM419  Bacteria 
 
 
-
 
Smed_2396  CDS  NC_009636  2471419  2472804  1386  inner-membrane translocator  YP_001328063  normal  decreased coverage  0.00825655  Sinorhizobium medicae WSM419  Bacteria 
 
 
-
 
Smed_2397  CDS  NC_009636  2472809  2473711  903  inner-membrane translocator  YP_001328064  normal  decreased coverage  0.00620383  Sinorhizobium medicae WSM419  Bacteria 
 
 
-
 
Smed_2507  CDS  NC_009636  2605432  2605860  429  hypothetical protein  YP_001328172  decreased coverage  0.00622099  normal  0.253692  Sinorhizobium medicae WSM419  Bacteria 
 
 
-
 
Smed_2836  CDS  NC_009636  2960806  2961918  1113  4-hydroxyphenylpyruvate dioxygenase  YP_001328501  decreased coverage  1.34458e-05  normal  Sinorhizobium medicae WSM419  Bacteria 
 
 
-
 
Smed_2837  CDS  NC_009636  2961997  2962785  789  response regulator receiver protein  YP_001328502  decreased coverage  3.11945e-06  normal  0.812847  Sinorhizobium medicae WSM419  Bacteria 
 
 
-
 
Smed_3112  CDS  NC_009636  3259740  3260309  570  CarD family transcriptional regulator  YP_001328773  decreased coverage  5.22164e-05  normal  Sinorhizobium medicae WSM419  Bacteria 
 
 
-
 
Smed_3481  CDS  NC_009636  3688834  3689454  621  transglutaminase family protein cysteine peptidase BTLCP  YP_001329134  decreased coverage  0.00539194  normal  Sinorhizobium medicae WSM419  Bacteria 
 
 
-
 
Smed_3572  CDS  NC_009636  3779120  3779896  777  ubiquinone/menaquinone biosynthesis methyltransferase  YP_001329222  normal  decreased coverage  3.45623e-05  Sinorhizobium medicae WSM419  Bacteria 
 
 
-
 
Smed_3573  CDS  NC_009636  3780080  3781000  921  formamidopyrimidine-DNA glycosylase  YP_001329223  normal  decreased coverage  3.76379e-05  Sinorhizobium medicae WSM419  Bacteria 
 
 
-
 
Smed_3574  CDS  NC_009636  3781073  3781846  774  enoyl-CoA hydratase  YP_001329224  normal  decreased coverage  4.15637e-05  Sinorhizobium medicae WSM419  Bacteria 
 
 
-
 
Smed_3676  CDS  NC_009620  115816  116439  624  TetR family transcriptional regulator  YP_001312422  normal  0.508637  decreased coverage  0.00105541  Sinorhizobium medicae WSM419  Bacteria 
 
 
-
 
Smed_3710  CDS  NC_009620  151577  152872  1296  extracellular solute-binding protein  YP_001312456  decreased coverage  0.00279907  normal  Sinorhizobium medicae WSM419  Bacteria 
 
 
-
 
Smed_3755  CDS  NC_009620  200255  201055  801  inositol-phosphate phosphatase  YP_001312501  decreased coverage  0.00081783  normal  Sinorhizobium medicae WSM419  Bacteria 
 
 
-
 
Smed_3888  CDS  NC_009620  345706  346827  1122  NAD-dependent epimerase/dehydratase  YP_001312633  decreased coverage  0.00197458  normal  Sinorhizobium medicae WSM419  Bacteria 
 
 
-
 
Smed_3906  CDS  NC_009620  359037  359438  402  cupin 2 domain-containing protein  YP_001312649  decreased coverage  0.000227782  normal  Sinorhizobium medicae WSM419  Bacteria 
 
 
-
 
Smed_3963  CDS  NC_009620  411388  413238  1851  binding-protein-dependent transport systems inner membrane component  YP_001312705  decreased coverage  0.0013556  normal  Sinorhizobium medicae WSM419  Bacteria 
 
 
-
 
Smed_4196  CDS  NC_009620  677611  678135  525  hypothetical protein  YP_001312934  decreased coverage  0.00164803  normal  Sinorhizobium medicae WSM419  Bacteria 
 
 
-
 
Smed_4197  CDS  NC_009620  678214  678885  672  RNA polymerase sigma factor  YP_001312935  decreased coverage  0.00284291  normal  Sinorhizobium medicae WSM419  Bacteria 
 
 
-
 
Smed_4334  CDS  NC_009620  832116  834053  1938  asparagine synthase (glutamine-hydrolyzing)  YP_001313072  normal  0.969348  decreased coverage  0.00494377  Sinorhizobium medicae WSM419  Bacteria 
 
 
-
 
Smed_4350  CDS  NC_009620  847106  847948  843  HemK family modification methylase  YP_001313088  decreased coverage  0.00937671  normal  0.450648  Sinorhizobium medicae WSM419  Bacteria 
 
 
-
 
Smed_4469  CDS  NC_009620  950746  951738  993  oxidoreductase domain-containing protein  YP_001313202  decreased coverage  0.00179754  normal  Sinorhizobium medicae WSM419  Bacteria 
 
 
-
 
Smed_4666  CDS  NC_009620  1177390  1178352  963  phosphonate ABC transporter, inner membrane subunit  YP_001313396  normal  decreased coverage  0.00096025  Sinorhizobium medicae WSM419  Bacteria 
 
 
-
 
Smed_4667  CDS  NC_009620  1178508  1179413  906  phosphonate ABC transporter, periplasmic phosphonate-binding protein  YP_001313397  normal  0.263075  decreased coverage  0.00095425  Sinorhizobium medicae WSM419  Bacteria 
 
 
-
 
Smed_4668  CDS  NC_009620  1179501  1180403  903  phosphonate ABC transporter, ATPase subunit  YP_001313398  normal  0.621423  decreased coverage  0.000827837  Sinorhizobium medicae WSM419  Bacteria 
 
 
-
 
Smed_4671  CDS  NC_009620  1182856  1184043  1188  acyl-CoA dehydrogenase domain-containing protein  YP_001313401  decreased coverage  0.0018836  normal  0.0173504  Sinorhizobium medicae WSM419  Bacteria 
 
 
-
 
Smed_4740  CDS  NC_009620  1262311  1263294  984  periplasmic binding protein/LacI transcriptional regulator  YP_001313470  normal  decreased coverage  0.00130889  Sinorhizobium medicae WSM419  Bacteria 
 
 
-
 
Smed_4741  CDS  NC_009620  1263518  1264570  1053  periplasmic binding protein/LacI transcriptional regulator  YP_001313471  normal  decreased coverage  0.00115423  Sinorhizobium medicae WSM419  Bacteria 
 
 
-
 
Smed_4742  CDS  NC_009620  1264619  1264954  336  cupin 2 domain-containing protein  YP_001313472  normal  decreased coverage  0.000930389  Sinorhizobium medicae WSM419  Bacteria 
 
 
-
 
Smed_4743  CDS  NC_009620  1264964  1265728  765  2-deoxy-D-gluconate 3-dehydrogenase  YP_001313473  normal  decreased coverage  0.00112688  Sinorhizobium medicae WSM419  Bacteria 
 
 
-
 
Smed_4744  CDS  NC_009620  1265725  1266570  846  5-keto-4-deoxyuronate isomerase  YP_001313474  normal  decreased coverage  0.00116126  Sinorhizobium medicae WSM419  Bacteria 
 
 
-
 
Smed_4745  CDS  NC_009620  1266688  1267437  750  GntR domain-containing protein  YP_001313475  normal  decreased coverage  0.00100625  Sinorhizobium medicae WSM419  Bacteria 
 
 
-
 
Smed_4746  CDS  NC_009620  1267446  1268729  1284  TRAP dicarboxylate transporter, DctM subunit  YP_001313476  normal  decreased coverage  0.001349  Sinorhizobium medicae WSM419  Bacteria 
 
 
-
 
Smed_4748  CDS  NC_009620  1269479  1270456  978  TRAP dicarboxylate transporter, DctP subunit  YP_001313478  decreased coverage  0.00048921  hitchhiker  0.00325994  Sinorhizobium medicae WSM419  Bacteria 
 
 
-
 
Smed_4873  CDS  NC_009620  1377033  1378706  1674  Na+cotransporter  YP_001313590  decreased coverage  0.00339774  normal  0.833034  Sinorhizobium medicae WSM419  Bacteria 
 
 
-
 
Smed_4936  CDS  NC_009620  1446421  1448241  1821  ABC transporter  YP_001313651  decreased coverage  0.00595955  normal  0.404726  Sinorhizobium medicae WSM419  Bacteria 
 
 
-
 
Smed_5002  CDS  NC_009620  1518056  1520416  2361  TPR repeat-containing protein  YP_001313716  normal  decreased coverage  0.000902541  Sinorhizobium medicae WSM419  Bacteria 
 
 
-
 
Smed_5003  CDS  NC_009620  1520763  1521545  783  ABC-2 type transporter  YP_001313717  normal  0.501886  decreased coverage  0.000172705  Sinorhizobium medicae WSM419  Bacteria 
 
 
-
 
Smed_5113  CDS  NC_009621  62783  65998  3216  diguanylate cyclase/phosphodiesterase with PAS/PAC and GAF sensor(s)  YP_001313823  normal  decreased coverage  0.00592248  Sinorhizobium medicae WSM419  Bacteria 
 
 
-
 
Smed_5114  CDS  NC_009621  66185  66877  693  two component LuxR family transcriptional regulator  YP_001313824  normal  decreased coverage  0.00554548  Sinorhizobium medicae WSM419  Bacteria 
 
 
-
 
Smed_5456  CDS  NC_009621  422750  423856  1107  alanine racemase  YP_001314150  decreased coverage  0.000537083  normal  0.747323  Sinorhizobium medicae WSM419  Bacteria 
 
 
-
 
Smed_5711  CDS  NC_009621  684593  684901  309  hypothetical protein  YP_001314367  decreased coverage  0.00260452  normal  Sinorhizobium medicae WSM419  Bacteria 
 
 
-
 
Smed_5793  CDS  NC_009621  764776  765744  969  binding-protein-dependent transport systems inner membrane component  YP_001314430  hitchhiker  0.000255832  decreased coverage  0.000142665  Sinorhizobium medicae WSM419  Bacteria 
 
 
-
 
Smed_5794  CDS  NC_009621  765805  767367  1563  extracellular solute-binding protein  YP_001314431  decreased coverage  0.000436692  decreased coverage  0.000177852  Sinorhizobium medicae WSM419  Bacteria 
 
 
-
 
Smed_5795    NC_009621  767635  769120  1486      decreased coverage  0.000250107  decreased coverage  0.000209549  Sinorhizobium medicae WSM419  Bacteria 
 
 
-
 
Smed_6005  CDS  NC_009621  961354  962661  1308  glutamine synthetase catalytic region  YP_001314611  normal  0.0483742  decreased coverage  0.00440887  Sinorhizobium medicae WSM419  Bacteria 
 
 
-
 
Smed_6007  CDS  NC_009621  964091  964777  687  glutamate synthase alpha subunit  YP_001314613  normal  0.607641  decreased coverage  0.00322278  Sinorhizobium medicae WSM419  Bacteria 
 
 
-
 
Smed_6008  CDS  NC_009621  964811  965716  906  glutamine amidotransferase class-II  YP_001314614  normal  0.362161  decreased coverage  0.00354269  Sinorhizobium medicae WSM419  Bacteria 
 
 
-
 
Smed_6038    NC_009621  987596  987778  183      decreased coverage  0.00867154  normal  0.479159  Sinorhizobium medicae WSM419  Bacteria 
 
 
-
 
Smed_6039    NC_009621  987780  987914  135      decreased coverage  0.00791241  normal  0.468441  Sinorhizobium medicae WSM419  Bacteria 
 
 
-
 
Smed_6159  CDS  NC_009621  1083205  1085574  2370  type IV secretion system protein VirB4  YP_001314718  decreased coverage  0.0089682  normal  Sinorhizobium medicae WSM419  Bacteria 
 
 
-
 
Smed_R0032  tRNA  NC_009636  1532539  1532614  76  tRNA-Glu    decreased coverage  0.00151707  hitchhiker  0.000680514  Sinorhizobium medicae WSM419  Bacteria 
 
 
-
 
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