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2024-04-29 17:46:04

Gene list

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COG category: Replication, recombination and repair
Organism: Phage Gifsy-1

Number of genes found: 214

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Phage Gifsy-1
NameLocus tagProduct / DescriptionGenomic elementTypeBeginLengthStrandGC-content
NA SC1895 putative cytoplasmic proteinchromosome CDS2005314 402 + 0.504975
NA SC1146 putative cytoplasmic proteinchromosome CDS1261848 402 + 0.504975
NA SC1005 ISSfl3 orfC,Dchromosome CDS1121821 249 + 0.558233
NA SC0937 putative cytoplasmic proteinchromosome CDS1051963 402 + 0.504975
NA SC2689 large repetitive proteinchromosome CDS2844757 558 + 0.539427
NA SC1208 hypothetical proteinchromosome CDS1322370 183 + 0.480874
NA SC3583 putative cytoplasmic proteinchromosome CDS3788396 402 + 0.504975
NA SC4375 putative cytoplasmic proteinchromosome CDS4683121 402 - 0.504975
NA SC0902 probable integrase remnantchromosome CDS1010568 378 - 0.457672
NA SC2882 putative cytoplasmic proteinchromosome CDS3047938 402 + 0.504975
NA SC2404 putative cytoplasmic proteinchromosome CDS2530743 402 - 0.504975
NA SC3139 putative cytoplasmic proteinchromosome CDS3318657 402 + 0.504975
NA SC2146 hypothetical proteinchromosome CDS2249113 534 - 0.337079
NA SC3986 putative cytoplasmic proteinchromosome CDS4239137 402 + 0.504975
NA SC3675 hypothetical proteinchromosome CDS3890842 507 - 0.512821
NA SC1383 putative cytoplasmic proteinchromosome CDS1481795 402 - 0.504975
NA SC3103 putative cytoplasmic proteinchromosome CDS3280415 402 + 0.504975
NA SC0033 putative cytoplasmic proteinchromosome CDS38504 1254 + 0.501595
NA SC2855 putative cytoplasmic proteinchromosome CDS3019921 402 - 0.504975
NA SC2004 hypothetical proteinchromosome CDS2105173 171 + 0.48538
NA SC4352 hypothetical proteinchromosome CDS4655773 2088 + 0.340996
NA SC0327 hypothetical proteinchromosome CDS376118 462 - 0.480519
NA SC0291 putative integrase core domainchromosome CDS335820 282 + 0.450355
NA SC2009 Hypothetical proteinchromosome CDS2107730 249 + 0.46988
NA SC3730 putative cytoplasmic proteinchromosome CDS3949839 402 - 0.504975
NA SC2699 reverse transcriptase-like proteinchromosome CDS2863501 960 + 0.41875
TnpA SC4196 TnpAchromosome CDS4498629 180 - 0.483333
TnpR SC0584 transposase of Tn10chromosome CDS649958 1209 - 0.448304
TnpR SC0853 transposase of Tn10chromosome CDS958616 1209 - 0.448304
TnpR SC3541 transposase of Tn10chromosome CDS3738634 1209 - 0.448304
TnpR SC4068 transposase of Tn10chromosome CDS4345931 1209 + 0.448304
ada SC2269 O6-methylguanine-DNA methyltransferase; transcription activator/repressor (AraC/Xyl family)chromosome CDS2377418 1062 - 0.610169
alkA SC2127 3-methyl-adenine DNA glycosylase II, induciblechromosome CDS2223962 870 - 0.611494
alkB SC2268 DNA repair system specific for alkylated DNAchromosome CDS2376765 651 - 0.588326
cho SC1330 putative nuclease subunit of the excinuclease complexchromosome CDS1427780 909 - 0.551155
dam SC3416 DNA adenine methylasechromosome CDS3592180 837 - 0.491039
dbpA SC1650 ATP-dependent RNA helicase, stimulated by 23S rRNAchromosome CDS1761471 1374 - 0.547307
dcm SC1995 DNA cytosine methylasechromosome CDS2096090 1431 - 0.538085
deaD SC3221 cysteine sulfinate desulfinasechromosome CDS3402212 1956 - 0.576176
dinG SC0818 LexA regulated (SOS) repair enzymechromosome CDS915751 2145 + 0.545455
dinP SC0314 DNA polymerase IV, devoid of proofreading, damage-inducible protein Pchromosome CDS361755 1056 + 0.517992
dnaA SC3756 DNA replication initiator proteinchromosome CDS3982617 1401 - 0.526767
dnaB SC4125 putative replicative DNA helicase;chromosome replication; chain elongationchromosome CDS4401209 1416 + 0.550141
dnaC SC4395 chromosome replication; initiation and chain elongationchromosome CDS4705102 738 - 0.51355
dnaC SC2631 Gifsy-1 prophage DnaCchromosome CDS2784193 750 - 0.529333
dnaE SC0231 DNA polymerase III, alpha subunitchromosome CDS265542 3483 + 0.560149
dnaG SC3157 DNA biosynthesis; DNA primasechromosome CDS3336580 1746 + 0.516609
dnaN SC3755 DNA polymerase III, beta-subunitchromosome CDS3981512 1101 - 0.565849
dnaQ SC0260 DNA polymerase III, epsilon subunit, 3-5 exonucleolytic proofreading functionchromosome CDS299302 741 + 0.516869
dnaX SC0525 DNA polymerase III, tau and gamma subunits; DNA elongation factor IIIchromosome CDS585264 1929 + 0.590461
endA SC3033 DNA-specific endonuclease Ichromosome CDS3214895 708 + 0.564972
exo SC2911 exonuclease IX, 5'-3' exonucleasechromosome CDS3083304 816 + 0.556373
exoX SC1883 DNA exonuclease X, degrades ss and ds DNA with 3'-5' polaritychromosome CDS1992331 699 + 0.516452
fis SC3323 DNA-binding protein fischromosome CDS3510997 297 + 0.464646
gipA SC1223 Gifsy-1 prophage GlpAchromosome CDS1333322 1131 - 0.54023
gyrA SC2275 DNA gyrase, subunit A, type II topoisomerasechromosome CDS2387994 2637 - 0.555556
gyrB SC3753 DNA gyrase, subunit B (type II topoisomerase)chromosome CDS3977848 2415 - 0.553623
helD SC1027 DNA helicase IVchromosome CDS1147048 2055 + 0.549878
hepA SC0091 RNA polymerase associated protein, putative SNF2 family RNA helicasechromosome CDS104220 2907 - 0.570691
himA SC1358 integration host factor (IHF), alpha subunitchromosome CDS1455175 300 + 0.483333
himD SC0936 integration host factor (IHF), beta subunit; site-specific recombinationchromosome CDS1051566 285 + 0.501754
hin SC2702 H inversion: regulation of flagellar gene expression by site-specific inversion of DNAchromosome CDS2869796 573 - 0.464223
holA SC0676 DNA polymerase III, delta subunitchromosome CDS750036 1032 - 0.575581
holB SC1151 DNA polymerase III, delta prime subunitchromosome CDS1265635 1005 + 0.58806
holC SC4332 DNA polymerase III, chi subunitchromosome CDS4633821 444 - 0.54955
hrpA SC1636 helicase, ATP-dependentchromosome CDS1744490 3903 - 0.537535
hrpB SC0189 helicase, ATP-dependentchromosome CDS214415 2475 + 0.593939
hupA SC4051 DNA-binding protein HU-alpha (HU-2)chromosome CDS4320284 273 + 0.47619
hupB SC0493 DNA-binding protein HU-beta, NS1 (HU-1)chromosome CDS552463 273 + 0.494505
insA SC1833 Insertion element IS1 1/2/3/5/6 protein insAchromosome CDS1951664 276 + 0.532609
insB SC1834 IS1 transposasechromosome CDS1951858 504 + 0.547619
insF SC0371 putative IS3 transposasechromosome CDS413672 864 - 0.543981
insF SC2505 putative IS3-like transposasechromosome CDS2639743 345 - 0.481159
insF SC4193 Transposase insF for insertion sequence IS3A/B/C/Dchromosome CDS4496512 309 + 0.556634
insK SC3588 Putative transposase insK for insertion sequence echromosome CDS3791407 192 - 0.375
insM SC2698 conserved hypothetical proteinchromosome CDS2862036 840 + 0.519048
insN SC2697 Transposase insN for insertion sequence element ISchromosome CDS2861671 339 + 0.457227
int SC2641 Gifsy-1 prophage Intchromosome CDS2792811 903 - 0.491694
int SC2854 putative integrase proteinchromosome CDS3019067 684 - 0.501462
int SC0324 Intchromosome CDS372847 1164 - 0.487972
int SC2883 putative integrase proteinchromosome CDS3048510 684 + 0.501462
int SC2005 putative P4-type integrasechromosome CDS2105357 189 + 0.502645
int SC2507 site-specific recombinase, phage integrase familychromosome CDS2642981 261 - 0.475096
int SC1876 putative phage integrase proteinchromosome CDS1988441 741 + 0.483131
intE SC1190 Prophage lambda integrase (Int(Lambda))chromosome CDS1307027 1128 - 0.475177
intQ SC0963 Gifsy-2 prophage integrasechromosome CDS1083517 1278 - 0.485915
intR SC1648 Putative lambdoid prophage Rac integrasechromosome CDS1760300 141 + 0.482269
istB SC0299 hypothetical proteinchromosome CDS344862 267 - 0.531835
lig SC2425 DNA ligasechromosome CDS2554602 2016 - 0.571925
mfd SC1166 transcription-repair coupling factorchromosome CDS1280258 3447 - 0.570641
mod SC0398 DNA methylase; restriction systemchromosome CDS447872 1959 + 0.466054
mta SC4351 hypothetical proteinchromosome CDS4654491 1272 + 0.323113
mug SC3159 DNA glycosylase, G/U mismatch specificchromosome CDS3340439 507 - 0.530572
mutH SC2944 methyl-directed mismatch repair proteinchromosome CDS3123074 696 + 0.579023
mutL SC4235 enzyme in methyl-directed mismatch repair, stimulates binding of Vsr and MutS to heteroduplex DNAchromosome CDS4536395 1857 + 0.581583
mutM SC3649 formamidopyrimidine DNA glycosylasechromosome CDS3863431 810 - 0.551852
mutS SC2841 methyl-directed mismatch repair, recognize exocyclic adducts of guanosinechromosome CDS3003905 2568 + 0.570483
mutT SC0134 7,8-dihydro-8-oxoguanine-triphosphatase, prefers dGTPchromosome CDS155879 396 + 0.525253
mutY SC3051 adenine DNA glycosylasechromosome CDS3228177 1053 + 0.545109
nei SC0734 endonuclease VIII removing oxidized pyrimidines may also remove oxidized purines in absence of MutY and Fpgchromosome CDS823126 792 + 0.52904
nfi SC4049 endonuclease V (deoxyinosine 3'endoduclease)chromosome CDS4318794 672 + 0.589286
nfo SC2219 endonuclease IVchromosome CDS2325174 858 + 0.538462
nth SC1471 endonuclease III; DNA glycosylase/apyrimidinic (AP) lyasechromosome CDS1566241 636 - 0.514151
ntpA SC1908 dATP pyrophosphohydrolasechromosome CDS2017137 453 - 0.520971
nudG SC1323 putative mutator MutT proteinchromosome CDS1421439 417 - 0.577938
ogt SC1655 O-6-alkylguanine-DNA/cysteine-proteinmethyltrans ferasechromosome CDS1766829 516 + 0.550388
parC SC3118 DNA topoisomerase IV, subunit Achromosome CDS3297709 2250 - 0.558667
parE SC3125 DNA topoisomerase IV, subunit Bchromosome CDS3304724 1893 - 0.553619
phrB SC0728 deoxyribodipyrimidine photolyase (photoreactivation)chromosome CDS816668 1341 + 0.57047
polA SC3891 DNA polymerase I, 3'--> 5' polymerase, 5'--> 3' and 3'--> 5' exonucleasechromosome CDS4140207 2787 + 0.537495
polB SC0092 DNA polymerase II and and 3'--> 5' exonucleasechromosome CDS107300 2352 - 0.568027
priA SC3984 primosomal protein N' (= factor Y) directs replication fork assembly at D-loopschromosome CDS4236421 2199 - 0.592997
priB SC4266 primosomal replication protein Nchromosome CDS4565608 315 + 0.533333
priC SC0522 primosomal replication protein Nchromosome CDS583473 528 - 0.589015
radC SC3652 putative DNA repair protein, associated with replication forkschromosome CDS3864980 666 - 0.528529
rdgC SC0433 putative exonuclease involved in removal of stalled replication forkchromosome CDS487423 984 - 0.53252
recA SC2762 DNA strand exchange and recombination protein with proteiase and nuclease activitychromosome CDS2929266 1062 - 0.547081
recB SC2932 exonuclease V, beta chainchromosome CDS3105801 3546 - 0.55612
recC SC2934 exonuclease V, subunitchromosome CDS3112405 3372 - 0.538256
recD SC2931 exonuclease V, alpha chainchromosome CDS3103969 1836 - 0.583333
recF SC3754 gap repair proteinchromosome CDS3980291 1074 - 0.546555
recG SC3668 DNA helicase, resolution of Holliday junctions, branch migrationchromosome CDS3879181 2082 + 0.580211
recJ SC2982 ssDNA exonuclease, 5'--> 3' specific, Mg dependentchromosome CDS3160121 1734 - 0.576125
recN SC2684 recombination and DNA repair proteinchromosome CDS2840442 1662 + 0.545728
recO SC2574 gap repair genechromosome CDS2743647 729 - 0.554184
recQ SC3857 ATP-dependent DNA helicasechromosome CDS4096800 1848 + 0.549242
recR SC0527 putative recombination protein, gap repairchromosome CDS587567 606 + 0.613861
recT SC1871 RecT proteinchromosome CDS1982653 342 + 0.54386
recT SC1870 RecT proteinchromosome CDS1982538 324 + 0.58642
relB SC4304 putative helix-turn-helix protein, copG familychromosome CDS4605958 243 + 0.497942
rep SC3818 rep helicase, a single-stranded DNA dependent ATPasechromosome CDS4054793 2124 + 0.529661
rhlB SC3820 putative helicasechromosome CDS4058556 1266 - 0.548183
rhlE SC0817 putative ATP-dependent RNA helicasechromosome CDS914182 1362 + 0.586637
rnhA SC0259 RNase HI, degrades RNA of DNA-RNA hybridschromosome CDS298780 825 - 0.494545
rnhB SC0230 RNAse HIIchromosome CDS264922 597 + 0.559464
rnt SC1453 RNase T, degrades tRNA, has exonuclease and ssDNAse activitychromosome CDS1549391 648 - 0.537037
rusA SC0344 Ruschromosome CDS389632 396 + 0.515152
rusA SC1203 crossover junction endodeoxyribonucleasechromosome CDS1318660 390 + 0.535897
ruvA SC1903 Holliday junction helicase subunit Achromosome CDS2012648 612 - 0.547386
ruvB SC1902 Holliday junction helicase, subunit Bchromosome CDS2011629 1011 - 0.571711
ruvC SC1906 Holliday junction nucleasechromosome CDS2015809 522 - 0.561303
sbcB SC2077 exonuclease I, 3'--> 5' specific; deoxyribophosphodiesterasechromosome CDS2165574 1431 + 0.542977
sbcC SC0436 ATP-dependent dsDNA exonucleasechromosome CDS490733 3141 - 0.583572
sbcD SC0437 ATP-dependent dsDNA exonucleasechromosome CDS493870 1203 - 0.56276
sbmC SC2070 DNA gyrase inhibitorchromosome CDS2156699 468 - 0.512821
seqA SC0717 negative modulator of initiation of replication, inhibits open complex formation, mutation in gene alters cell membranechromosome CDS801050 576 + 0.505208
smf SC3341 putative protein involved in DNA uptakechromosome CDS3530122 1125 - 0.539556
srmB SC2648 ATP-dependent RNA helicasechromosome CDS2800126 1335 + 0.54382
ssb SC0332 ssDNA-binding protein controls activity of RecBCD nucleasechromosome CDS379366 507 - 0.502959
ssb SC4134 ssDNA-binding protein controls activity of RecBCD nucleasechromosome CDS4410904 531 + 0.595104
tag SC3574 3-methyl-adenine DNA glycosylase I, constitutivechromosome CDS3780133 582 + 0.522337
terS SC1214 Gifsy-1 prophage DNA packaging proteinchromosome CDS1325337 546 + 0.527473
tnp SC1859 putative transposasechromosome CDS1972641 141 - 0.510638
tnp SC3589 transposase of Tn10chromosome CDS3792031 1209 - 0.448304
tnpA SC3676 Transposasechromosome CDS3891729 159 + 0.446541
tnpR SC1191 transposase of Tn10chromosome CDS1308400 1209 + 0.448304
tnpR SC2224 transposase of Tn10chromosome CDS2331705 1209 - 0.448304
topA SC1711 DNA topoisomerase type I, omega proteinchromosome CDS1822924 2598 - 0.541185
topB SC1320 DNA topoisomerase IIIchromosome CDS1417586 2007 + 0.563528
umuC SC2000 error-prone repair: component of DNA polymerase V with UmuD'chromosome CDS2101647 1269 - 0.546887
ung SC2652 uracil-DNA-glycosylasechromosome CDS2803831 690 + 0.550725
uvrA SC4133 UvrA with UvrBC is a DNA excision repalr enzymechromosome CDS4407831 2826 - 0.570771
uvrB SC0796 UvrB with UvrAC is a DNA excision repair enzymechromosome CDS893061 2022 + 0.553412
uvrC SC1949 UvrC with UvrAB is a DNA excision repair enzymechromosome CDS2058882 1833 - 0.53737
uvrD SC3850 DNA-dependent ATPase I and helicase IIchromosome CDS4089779 2163 + 0.578826
vsr SC1994 DNA mismatch endonuclease, patch repair proteinchromosome CDS2095639 471 - 0.566879
wcaI SC2108 putative glycosyl transferase in colanic acid biosynthesischromosome CDS2203633 474 - 0.597046
xerC SC3848 putative integrase/recombinase, site-specificchromosome CDS4088025 903 + 0.568106
xerD SC2984 recombinase, site-specificchromosome CDS3162597 897 - 0.540691
xseA SC2510 exonuclease VII, large subunitchromosome CDS2646899 1272 + 0.590409
xseB SC0465 exonuclease VII, small subunitchromosome CDS521830 243 - 0.54321
xthA SC1324 exonuclease III, may repair singlet oxygen induced lesionschromosome CDS1421928 807 - 0.526642
ybaV SC0495 putative DNA uptake protein and related DNA-binding proteinschromosome CDS555047 375 + 0.525333
ybaZ SC0509 putative methyltransferasechromosome CDS568325 390 - 0.558974
ybjD SC0894 RecF protein-like proteinchromosome CDS1000882 1659 + 0.553948
ycaJ SC0916 paral putative polynucleotide enzymechromosome CDS1026142 1344 + 0.569196
ycfH SC1152 putative metal-dependent hydrolasechromosome CDS1266650 798 + 0.532581
yeaB SC1819 putative NTP pyrophosphohydrolasechromosome CDS1937710 579 + 0.588946
yebY SC1878 putative periplasmic or exported proteinchromosome CDS1989555 354 - 0.533898
yejH SC2240 putative ATP-dependent helicasechromosome CDS2348398 1761 + 0.570698
yfaO SC2297 putative NTP pyrophosphohydrolases including oxidative damage repair enzymeschromosome CDS2416877 426 + 0.495305
yfcD SC2347 putative NTP pyrophosphohydrolasechromosome CDS2472819 555 - 0.544144
yffH SC2473 putative pyrophosphohydrolasechromosome CDS2600973 576 - 0.491319
yfgE SC2493 putative ATPase involved in DNA replication initiationchromosome CDS2627156 726 - 0.535813
ygbT SC2870 putative cytoplasmic proteinchromosome CDS3032195 921 - 0.553746
ygdP SC2943 putative invasion protein; NTP pyrophosphohydrolasechromosome CDS3121861 531 - 0.506591
yhbQ SC3212 putative cytoplasmic proteinchromosome CDS3394713 363 + 0.526171
yhdJ SC3324 putative methyltransferasechromosome CDS3511373 891 + 0.451178
yhhF SC3501 putative methyltransferasechromosome CDS3694461 597 + 0.566164
yhhM SC3503 putative inner membrane proteinchromosome CDS3695338 372 - 0.526882
yibL SC3613 putative cytoplasmic proteinchromosome CDS3822198 363 + 0.509642
yicF SC3662 putative DNA ligasechromosome CDS3873456 1509 - 0.565275
yigW SC3874 putative hydrolase of PHP superfamilychromosome CDS4116366 783 + 0.542784
yis SC0938 putative integrase proteinchromosome CDS1052535 684 + 0.501462
yis2 SC3729 putative integrase proteinchromosome CDS3948985 684 - 0.502924
yis2 SC3104 putative integrase proteinchromosome CDS3280987 684 + 0.5
yis2 SC3987 putative integrase proteinchromosome CDS4239709 684 + 0.501462
yis2 SC2403 putative integrase proteinchromosome CDS2529889 684 - 0.501462
yis2 SC1382 putative integrase proteinchromosome CDS1480941 684 - 0.501462
yis2 SC4374 putative integrase proteinchromosome CDS4682267 684 - 0.501462
yis2 SC1147 putative integrase proteinchromosome CDS1262420 684 + 0.501462
yis2 SC3140 putative integrase proteinchromosome CDS3319229 684 + 0.501462
yis2 SC1896 putative integrase proteinchromosome CDS2005886 684 + 0.501462
yis2 SC3584 putative integrase proteinchromosome CDS3788968 684 + 0.501462
yjaD SC4047 putative NTP pyrophosphohydrolases containing a Zn-finger, probably nucleic-acid-bindingchromosome CDS4316906 774 + 0.55168
yjjV SC4412 putative hydrolasechromosome CDS4720289 774 + 0.602067
yliI SC0855 putative dehydrogenasechromosome CDS961697 681 + 0.544787
ymfB SC1186 putative MutT-like proteinchromosome CDS1304113 462 - 0.517316
yoaA SC1815 putative DNA helicasechromosome CDS1933690 1911 - 0.562533
yqgF SC3037 putative endonuclease involved in recombinationchromosome CDS3218156 417 + 0.549161
yqiE SC3129 putative resistance proteinchromosome CDS3308496 633 - 0.535545
yraN SC3206 putative endonucleasechromosome CDS3391480 270 + 0.544444
yrdD SC3339 putative DNA topoisomerasechromosome CDS3529108 543 - 0.528545
yrfE SC3426 putative NTP pyrophosphohydrolasechromosome CDS3602791 597 - 0.522613