LOCUS VLTB01000503 6608 bp DNA linear BCT 10-FEB-2020 DEFINITION Escherichia coli strain ATCC 11230 IBCONMGI_196, whole genome shotgun sequence. ACCESSION VLTB01000503 VLTB01000000 VERSION VLTB01000503.1 DBLINK BioProject: PRJNA555823 BioSample: SAMN12330955 KEYWORDS WGS. SOURCE Escherichia coli ORGANISM Escherichia coli Bacteria; Proteobacteria; Gammaproteobacteria; Enterobacterales; Enterobacteriaceae; Escherichia. REFERENCE 1 (bases 1 to 6608) AUTHORS Kedziora,A., Wernecki,M., Korzekwa,K., Speruda,M., Gerasymchuk,Y., Lukowiak,A. and Bugla-Ploskonska,G. TITLE Consequences Of Long-Term Bacteria's Exposure To Silver Nanoformulations With Different PhysicoChemical Properties JOURNAL Int J Nanomedicine 15, 199-213 (2020) PUBMED 32021174 REMARK Publication Status: Online-Only REFERENCE 2 (bases 1 to 6608) AUTHORS Kedziora,A. and Wernecki,M. TITLE Direct Submission JOURNAL Submitted (22-JUL-2019) Department of Microbiology, Institute of Genetics and Microbiology, University of Wroclaw, Przybyszewskiego 63/77, Wroclaw 51-148, Poland COMMENT The annotation was added by the NCBI Prokaryotic Genome Annotation Pipeline (PGAP). Information about PGAP can be found here: https://www.ncbi.nlm.nih.gov/genome/annotation_prok/ ##Genome-Assembly-Data-START## Assembly Method :: SPAdes v. 3.13.1 Genome Representation :: Full Expected Final Version :: Yes Genome Coverage :: 80x Sequencing Technology :: Illumina MiSeq ##Genome-Assembly-Data-END## ##Genome-Annotation-Data-START## Annotation Provider :: NCBI Annotation Date :: 07/22/2019 14:17:00 Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline (PGAP) Annotation Method :: Best-placed reference protein set; GeneMarkS-2+ Annotation Software revision :: 4.8 Features Annotated :: Gene; CDS; rRNA; tRNA; ncRNA; repeat_region Genes (total) :: 6,675 CDSs (total) :: 6,577 Genes (coding) :: 6,206 CDSs (with protein) :: 6,206 Genes (RNA) :: 98 rRNAs :: 2, 1, 1 (5S, 16S, 23S) complete rRNAs :: 1, 1 (5S, 16S) partial rRNAs :: 1, 1 (5S, 23S) tRNAs :: 86 ncRNAs :: 8 Pseudo Genes (total) :: 371 CDSs (without protein) :: 371 Pseudo Genes (ambiguous residues) :: 5 of 371 Pseudo Genes (frameshifted) :: 158 of 371 Pseudo Genes (incomplete) :: 184 of 371 Pseudo Genes (internal stop) :: 87 of 371 Pseudo Genes (multiple problems) :: 57 of 371 CRISPR Arrays :: 2 ##Genome-Annotation-Data-END## FEATURES Location/Qualifiers source 1..6608 /organism="Escherichia coli" /mol_type="genomic DNA" /submitter_seqid="IBCONMGI_196" /strain="ATCC 11230" /culture_collection="ATCC:11230" /db_xref="taxon:562" /collection_date="2004" gene <1..97 /locus_tag="FPI65_29685" CDS <1..97 /locus_tag="FPI65_29685" /inference="COORDINATES: similar to AA sequence:RefSeq:WP_001522303.1" /note="Derived by automated computational analysis using gene prediction method: Protein Homology." /codon_start=2 /transl_table=11 /product="proQ/FINO family protein" /protein_id="NDR95309.1" /translation="GLPCGEVTLQEQKEAEARLMVLNDRRKARKR" gene complement(99..647) /locus_tag="FPI65_29690" CDS complement(99..647) /locus_tag="FPI65_29690" /inference="COORDINATES: similar to AA sequence:RefSeq:WP_001167424.1" /note="Derived by automated computational analysis using gene prediction method: Protein Homology." /codon_start=1 /transl_table=11 /product="hypothetical protein" /protein_id="NDR95310.1" /translation="MQITEALLSEPGEIRRFVQQAVDHWPHLLAFHFTLHSAEENING QRVQTFCTSFYRQVHERIAERNHTASPSSPLVLRWLREQHGKATIRCLLLLSQTSICH PRASVTVDEQCSQVVDLLQHSWQVISAGGQCRVERCFRVARGDTSGQYVALKTVALSL GLPVVTAITHRPVQRCTLITAQ" gene complement(913..1146) /locus_tag="FPI65_29695" CDS complement(913..1146) /locus_tag="FPI65_29695" /inference="COORDINATES: similar to AA sequence:RefSeq:WP_020245245.1" /note="Derived by automated computational analysis using gene prediction method: Protein Homology." /codon_start=1 /transl_table=11 /product="AlpA family transcriptional regulator" /protein_id="NDR95311.1" /translation="MLTTTSHDSVLLRADDPLIDMNYITSFTGMTDKWFYKLISEGHF PKPIKLGRSSRWYKSEVEQWMQQRIEESRGAAA" gene complement(1215..1787) /locus_tag="FPI65_29700" CDS complement(1215..1787) /locus_tag="FPI65_29700" /inference="COORDINATES: similar to AA sequence:RefSeq:WP_001536434.1" /note="Derived by automated computational analysis using gene prediction method: Protein Homology." /codon_start=1 /transl_table=11 /product="hypothetical protein" /protein_id="NDR95312.1" /translation="MNGIPHFDYSLAPFWPSYQNKIIGVLNRALREQSCSRVRRILLR LPCEYDTTFSSRKTWFGMDFIETVSALMNANPGRDLCWLLTRHPEKPEYHVVLCVRQE YFDGPELDRLILDAWSNVLGFASPGEAAPYQKQITRDVVLDSRSPDCEDILKELIWAF SDFARDRRGVRDPEARYLVGNPWYPVAGQL" gene complement(2171..2902) /locus_tag="FPI65_29705" CDS complement(2171..2902) /locus_tag="FPI65_29705" /inference="COORDINATES: similar to AA sequence:RefSeq:WP_001075464.1" /note="Derived by automated computational analysis using gene prediction method: Protein Homology." /codon_start=1 /transl_table=11 /product="inovirus Gp2 family protein" /protein_id="NDR95313.1" /translation="MNQPIHNAYWLSRFESILNSALAQHRAVSLIRVDLRFPEYMPAT IMDTDLDSAVISRFFESLKAKIQAYQRHKRRANKRVHATTLRYFWCREFGKEKGRKHY HVILLLNKDTWCSPGDFTVPSSLATLIQLAWCSALHLEPWQGNGLVHFSRRTPFRKPT SSDARPSSDDTPLPGGCSDTRKDSDKKSGGSAVLWIKRGDVEAMQKAMERARYLVKYE TKQHDGSGQRNYGCSRGAGRLLDGR" gene complement(2946..3134) /locus_tag="FPI65_29710" /pseudo CDS complement(2946..3134) /locus_tag="FPI65_29710" /inference="COORDINATES: similar to AA sequence:RefSeq:WP_001332673.1" /note="internal stop; Derived by automated computational analysis using gene prediction method: Protein Homology." /pseudo /codon_start=1 /transl_table=11 /product="hypothetical protein" gene complement(4425..5555) /locus_tag="FPI65_29715" CDS complement(4425..5555) /locus_tag="FPI65_29715" /inference="COORDINATES: similar to AA sequence:RefSeq:WP_000147750.1" /note="Derived by automated computational analysis using gene prediction method: Protein Homology." /codon_start=1 /transl_table=11 /product="hypothetical protein" /protein_id="NDR95314.1" /translation="MTGRKNKCVRKNCNNQVFSVKMAVEKRLCRKHYERFCELKKRRE QNPVHRLNEALPRKVEGPKRKRKLVKEREIINSRTKHKQEQGPSLAELNKKVREILKT PAWRTLETRIRRNGITFNSKAELDALSELYAIYSWVSYCKRCDNYSVWFLNCPDVNIN LHVCECRSSESDCYLPSRFIILPAPLRQKVKRKYSANSSGVSGHNDSKSLYKTVLSVC GGKRETELFFYSLPVKTNHHPYWIKSGVVKRFPPVFGLLFYEQERLTGGVFRYVLIRF YNTFKENLFFVEIVSCCFLVELFHDIDSFFINQRLSKLESFIDKWREGKEIWIKAYLQ LIHNTLGITETEKLVNLYNSFFTDKVVIWDESVKKVKWIYEK" gene complement(5552..5746) /locus_tag="FPI65_29720" CDS complement(5552..5746) /locus_tag="FPI65_29720" /inference="COORDINATES: similar to AA sequence:RefSeq:WP_001744367.1" /note="Derived by automated computational analysis using gene prediction method: Protein Homology." /codon_start=1 /transl_table=11 /product="hypothetical protein" /protein_id="NDR95315.1" /translation="MTYRYPVDFTEPDHTNPVYHSGNMGVKNDGMSELRTLLLKCNGV WRQFFRTGTNDILLFQEMRG" gene 5740..>6608 /locus_tag="FPI65_29725" CDS 5740..>6608 /locus_tag="FPI65_29725" /inference="COORDINATES: similar to AA sequence:RefSeq:WP_001557377.1" /note="Derived by automated computational analysis using gene prediction method: Protein Homology." /codon_start=1 /transl_table=11 /product="GTPase" /protein_id="NDR95316.1" /translation="MSFSHSSLSTQVKSYLTFLPEEIRQKILEHLHSVIHYEPVIGIM GKSGTGKSSLCNAIFQSHICATHPLNGCTRQAHRLTLQIGERRMTLVDLPGIGETPQH DQEYRALYRQLLPEVDLIIWILRADERAYAADITMHQFLLNEGADPSRFLFVLSHADR VFPAEEWNATEKCPSRQQALSLATVTARVATLFPSSFPVLSVAAPVGWNLPAFVSLMI HALPPQATSAVYSHIRGENRSEQARKHAQQTFGETIGKSFDVAVARFSFPAWMLQLLR KARDRIIHLLITL" BASE COUNT 1902 a 1608 c 1372 g 1726 t ORIGIN 1 ggggctgccg tgcggggaag tgacactaca ggaacagaaa gaggcagagg cccggctaat 61 ggtgctgaat gaccgacgaa aagccagaaa gcgctgattc actgagctgt aatcaatgta 121 cagcgctgta ccggacgatg ggtaatggcg gtcacaaccg gtaaccccag agacaatgcg 181 actgttttta acgcaacata ctgaccggat gtatcacccc gggcaacccg aaaacacctt 241 tccacccggc attgtccgcc agcacttatc acctgccagc tatgttgcag taaatccacc 301 acttgcgaac attgttcatc aactgtgaca ctggctcgcg gatggcaaat gctcgtctgg 361 ctgagcagca acaggcatcg tattgttgct tttccatgtt gttcccgcaa ccagcgtaat 421 accaacggcg atgatggact ggccgtgtga ttacgttcag caatacgttc gtgtacctgc 481 cggtaaaagg aagtacagaa tgtctgaacc cgttgcccgt tgatgttttc ttcagccgaa 541 tggagcgtga agtgaaatgc caacagatgc ggccagtgat ccaccgcctg ctgaacaaaa 601 cgccggattt cccctggctc tgaaagtaat gcttcggtta tttgcacgaa atgttccttt 661 tcgaatcctg ttgaatttta ctgaaccggt gcaaacatgc aggaaaacac gccagtaccg 721 gctcaatacc cgttataaac aataagagtg gaatgacaaa tcggtcaggg aagagctaca 781 acccgctact gacaggaggg tatcagcaga aagatgaacg agagtgtcgc cagcaccagg 841 gacagggctg atttccacaa taccagcgcc ggcattttgc acatcgccag cgtaccggta 901 ttacaacacg tttcatgcag cagctcctcg tgactcctcg attcgctgct gcatccactg 961 ctccacttcg cttttgtacc agcggctgct gcgacccagt ttgatgggtt taggaaaatg 1021 gccttcactg atcagcttgt aaaaccattt atcggtcata ccggtgaaac tggtgatgta 1081 gttcatgtcg atcaggggat cgtcagcacg cagcaatacg ctgtcgtggc ttgttgtggt 1141 caacatggtc agaatgtcct ttgtgagatt tatgaaggtt gggcaaatgc gggtgaatct 1201 gctgaactgt gctttcagag ctggcctgct acgggatacc agggattacc gacgaggtaa 1261 cgggcttccg gatcgcgcac accacgacga tcgcgggcga aatcactgaa tgcccatatc 1321 agctctttga ggatgtcttc gcagtccggt gaacgactgt ccagcaccac atcccgtgtt 1381 atctgcttct ggtacggtgc cgcttcaccc ggtgacgcga agcccagtac gttgctccag 1441 gcatccagta tcaaccgatc cagttcgggg ccgtcgaaat actcctgtct gacgcacagc 1501 accacgtggt attccggctt ttccggatga cgagtcagga gccagcagag atcacgtccg 1561 gggtttgcat tcatcagcgc actgacagtt tcgataaagt ccataccaaa ccaggtcttt 1621 ctgctactga aggtagtgtc atattcacat ggcagacgaa gcaggatccg ccgtacccgg 1681 gagcaggact gttcacgcag cgcacggttg agaacaccga tgattttgtt ctgataagac 1741 ggccagaagg gcgccaggct atagtcgaaa tgagggatac cattcataag atatgctcca 1801 tatagaaacg cacgacgcat ccccgccagc gaaagacgag cgtattgtga aactgaaggc 1861 gtcgtgtaca gaggttgttg atgtaataac cgtggaaccg gggatggcag atgtcgtatg 1921 ccaggacagt caggagacct gacaggtgta aaattcctga ggtgggttta aggtgaatga 1981 cctccgttga cttcggttca catcattaat caaggcggta agtttttacc gacggagtgt 2041 ttccaagagc ggaagcagat aaaaataccg ttgcatgact tcagaatgag tgatcagaat 2101 acgaggtaag ggcgttggct gacgccctac cgtggcatac gctcaggcac cggatgccgt 2161 tttacagggt tcacctgcca tccagtagac gccccgctcc acgactgcaa ccataattac 2221 gttgaccaga accgtcatgc tgcttcgtct catacttcac gagataacgg gctctctcca 2281 tggctttctg catcgcttct acatcaccac gcttgatcca gagcacagcg gatccaccag 2341 actttttgtc agaatccttc cgggtatcag aacatccacc aggtaaaggc gtgtcatcgg 2401 aagaagggcg agcatcggat gatgtcggtt tacggaaagg cgtccgcctg gaaaaatgaa 2461 ccagtccatt accctgccag ggctcaagat gcagagcact gcaccatgcc agttggatca 2521 gcgtcgccag cgaagaagga acggtgaaat cccctggcga gcaccaggta tctttgttga 2581 gcagtaatat cacgtgataa tgtttcctgc ctttttcctt gccgaactcc cggcaccaga 2641 aataacgcag agtggttgca tgcacacgct tgttggcacg tcgtttatgt cgctggtaag 2701 cctgaatttt tgctttcagg gattcgaaaa aacgagaaat caccgctgaa tctaaatcgg 2761 tatccataat ggtggcaggc atatactcag ggaaacgtaa atccacccgg attaacgaga 2821 cggcacggtg ttgcgccagg gcactgttga gaatactttc aaaacgggat aaccagtaag 2881 cattgtgtat tggttgattc atgatgagag atctccattg atttggattg acttcacatc 2941 attaatcacc gcggtaaaac tttacgaact cccaccattg agcaacacaa cctactccgg 3001 ataaaaatgg aatcccctac aaacgaaaag atggtaaaaa aacacaacaa cagcaaatga 3061 atttaaaaac ggcatggacg acgagaaaag tcagaaggga aacggatcaa cagaacgtgc 3121 aaacaaaaca tcaaaaacgc aatcagaacg atttctggcg ctgtgaatca acaacaacac 3181 caaaacctat agcttaacca cacaactcaa tcacagagcc gaatagcgcg tttaaaacct 3241 gtttacagat aaccccaccc caagaacaaa aaccactaac atcagaatcg attttctcat 3301 cctgaaaatg ttacgtttca ctacgcacca taaaagcgat taaccatcga taacgtaaac 3361 ctcatctgaa tcaaaacacc agaaccaatc atcacgcttt ttctgaaaag agccttgctc 3421 tgagaaaaaa aaacaccagg gccagttaat catctcatca acctcatcgc tacaaaatca 3481 tccataaaac catttaacta aatcgtcgta agcactccgt aaatcacgcc aggttatctc 3541 agtcggattt gcgtttttac gtaaagatac ttttctccgg ttaacgacca aaaacacaaa 3601 aactcagaaa aggttaaacg taacttcaga aaaacagaat gtcatcttga ttgcttaaac 3661 aggaaagatt gctttgtagc agctttaaac tgattttagc taacgtaaag atttactaaa 3721 ctggatgtgt gtcagacaaa gcaatgtgta taacaatact taatgaaaac acttgtagaa 3781 gtgtttatga aaatacgtgt atgtctggta aaacacttag tagaaaatac gtgtataaca 3841 cttactgaaa tgcttagtaa aaatacttag taaaatatgt gtatatagta tcataccgac 3901 attagcaaca ttctcagaca ctcatgcaga ctgaatgttg attacccgtt ttcacatcag 3961 gcatggttct ttactgatca aaaaacaaac tggtttactc ttgaattatt ttctctacct 4021 caaaaaacat ggtctcagga atctgctatg gtttcatagt ttctgttgtt cttttcataa 4081 aagttataag tcattgtcat aatcatacga taatcacttt atgttagttt ttactgtcac 4141 acgctactga ctttttcagt cattgccaga aaggggctct ttttacttcc atttcaccac 4201 tcaacaaatg caaaacttgt ccagtaaagc ggaccacctc ttgctcacaa gcaacgaatc 4261 atctccagga acagccctca aacattgcag aaacaaaaac aacaaaaccc tcattatcac 4321 tgatgttcgg aaaatttccc ggaacaaaaa aacgaaatca aaatgagact cattatcatg 4381 gatgtagtca aaaagacgtt atggtggctt tcagttaaat ggtactattt ctcataaatc 4441 cacttaactt tttttactga ttcatcccag ataaccactt tatcagtaaa aaatgaatta 4501 tatagattga cgagtttttc tgtttcagtt attcccaatg tattatgtat cagttgtaga 4561 tatgctttta tccagatttc tttaccctcc ctccacttat ctataaaact ttccagctta 4621 cttaatcgtt gatttataaa aaacgaatca atatcatgaa aaagctcaac aagaaaacag 4681 cacgagacaa tctcaacaaa aaacaaattc tccttaaaag tattataaaa ccttatcaac 4741 acataacgaa aaacacctcc tgttaatctt tcctgttcat aaaacaacaa accaaaaaca 4801 ggaggaaatc ttttaaccac accactttta atccagtaag gatgatgatt agtctttact 4861 ggcagtgaat aaaagaacaa ttcggtttct cttttcccac cacaaacaga caaaactgtc 4921 ttataaagac tttttgaatc attatgtcct gataccccag acgaattagc agagtatttt 4981 ctttttactt tttgccttaa tggagctgga agaataataa aacgggatgg cagataacaa 5041 tcgctttcag aagaccggca ttcgcacaca tgaagattta tatttacatc cggacaattc 5101 aaaaaccaca cagaataatt atcgcaccgt ttgcaatatg aaacccatga ataaattgca 5161 taaagttcag aaagcgcatc taactctgct tttgaattaa atgtgatacc gtttcttcga 5221 attctcgttt ccagcgttct ccatgccggg gttttcagta tctcacgaac ttttttatta 5281 agttcagcca gagatggtcc ctgctcctgt ttatgtttcg tcctgctgtt aatgatttct 5341 ctttctttta ctaatttcct ctttcttttt gggccttcta cctttcttgg caatgcttca 5401 tttaatctgt gaacaggatt ttgctctctt ctttttttga gctcacaaaa cctctcataa 5461 tgttttctgc acagtctttt ctccactgcc atttttactg agaaaacctg attgttacaa 5521 ttttttctga cacatttgtt tttacgtccg gtcatcctct catctcctga aacagcagta 5581 tgtcattagt tcccgttctg aaaaactgac gccatactcc attacacttt aacaataatg 5641 tccgtaattc agacattcca tcatttttca cgcccatatt acctgaatga taaaccggat 5701 tagtgtgatc cggttcagtg aaatcaacag gataccggta tgtcattcag ccattcttcc 5761 ctctccacac aagtgaaatc atatctgacg tttcttcctg aagaaattcg tcagaaaatt 5821 cttgaacatc tccacagcgt tattcattac gaacccgtga ttggcattat gggtaaatcc 5881 ggcaccggca aaagtagcct gtgtaatgct atttttcagt cccatatctg tgccacgcat 5941 cccctgaacg gctgcacccg ccaggctcat cgtcttaccc tgcagatcgg tgaacgcaga 6001 atgacgctgg tcgatctgcc cggcattgga gagacgccgc aacatgatca ggaataccgg 6061 gcgctttacc gtcagttact gccggaagtg gatttgatta tctggatcct gcgggcagat 6121 gaacgcgcgt atgccgccga cattaccatg catcagtttt tactgaatga aggcgcagat 6181 ccctcgcgtt ttctgtttgt tctcagccat gccgatcgcg tgtttcctgc tgaagaatgg 6241 aatgccacag aaaaatgccc gtcccgtcag caggcgctct cactggcgac ggttacagcc 6301 cgggtggcaa ccctgttccc ttcatcattt ccggtactct ccgttgctgc acctgtcggc 6361 tggaaccttc cggcgtttgt gtcgctgatg atccacgcac tgccaccaca ggcaaccagc 6421 gcggtgtatt cacatatccg gggagaaaac cgctctgaac aggcccggaa acacgcacaa 6481 cagacttttg gtgaaaccat cgggaaaagt tttgacgtcg ccgttgcccg tttcagtttt 6541 ccggcctgga tgttacagct tctgcgtaaa gcccgggacc gcattatcca cctgctgatc 6601 acactgtg //