LOCUS       NZ_CP027060             5234 bp    DNA     linear   CON 19-OCT-2019
DEFINITION  Escherichia coli str. K-12 substr. MG1655 strain K-12 chromosome.
ACCESSION   NZ_CP027060
VERSION     NZ_CP027060.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN08570057
            Assembly: GCF_002966145.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli str. K-12 substr. MG1655
  ORGANISM  Escherichia coli str. K-12 substr. MG1655
            Bacteria; Proteobacteria; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 5234)
  AUTHORS   Beaulaurier,J., Zhu,S., Deikus,G., Mogno,I., Zhang,X.S.,
            Davis-Richardson,A., Canepa,R., Triplett,E.W., Faith,J.J., Sebra,R.,
            Schadt,E.E. and Fang,G.
  TITLE     Metagenomic binning and association of plasmids with bacterial host
            genomes using DNA methylation
  JOURNAL   Nat. Biotechnol. 36 (1), 61-69 (2018)
   PUBMED   29227468
REFERENCE   2  (bases 1 to 5234)
  AUTHORS   Tourancheau,A., Beaulaurier,J. and Fang,G.
  TITLE     Direct Submission
  JOURNAL   Submitted (21-FEB-2018) Genetic and Genomic Sciences, Icahn School
            of Medicine at Mount Sinai, 1425 Madison Ave, New York, NY 10029,
            USA
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Date                     :: APR-2015
            Assembly Method                   :: HGAP v. v. 3
            Genome Representation             :: Full
            Expected Final Version            :: No
            Genome Coverage                   :: 113x
            Sequencing Technology             :: PacBio
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 10/19/2019 04:12:03
            Annotation Pipeline               :: NCBI Prokaryotic Genome
            Annotation Method                 :: Best-placed reference protein
            Annotation Software revision      :: 4.9
            Features Annotated                :: Gene; CDS; rRNA; tRNA; ncRNA;
            Genes (total)                     :: 4,514
            CDSs (total)                      :: 4,391
            Genes (coding)                    :: 4,240
            CDSs (with protein)               :: 4,240
            Genes (RNA)                       :: 123
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 86
            ncRNAs                            :: 15
            Pseudo Genes (total)              :: 151
            CDSs (without protein)            :: 151
            Pseudo Genes (ambiguous residues) :: 0 of 151
            Pseudo Genes (frameshifted)       :: 59 of 151
            Pseudo Genes (incomplete)         :: 82 of 151
            Pseudo Genes (internal stop)      :: 31 of 151
            Pseudo Genes (multiple problems)  :: 19 of 151
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence was derived from
            CP027060.
            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/
            Bacteria available from ATCC
            Genome not circularized, might be overlap at the ends.
            Annotation Pipeline (PGAP)
            set; GeneMarkS-2+
            repeat_region
FEATURES             Location/Qualifiers
     source          1..5234
                     /organism="Escherichia coli str. K-12 substr. MG1655"
                     /mol_type="genomic DNA"
                     /strain="K-12"
                     /sub_strain="MG1655"
                     /db_xref="taxon:511145"
     gene            complement(1..750)
                     /gene="chbG"
                     /locus_tag="C5Y66_RS21130"
                     /old_locus_tag="C5Y66_21130"
     CDS             complement(1..750)
                     /gene="chbG"
                     /locus_tag="C5Y66_RS21130"
                     /old_locus_tag="C5Y66_21130"
                     /EC_number="3.5.1.105"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:NP_416247.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="chitin disaccharide deacetylase"
                     /protein_id="WP_000440471.1"
                     /translation="MERLLIVNADDFGLSKGQNYGIIEACRNGIVTSTTALVNGQAIDH
                     AVQLSRDEPSLAIGMHFVLTMGKPLTAMPGLTRDGVLGKWIWQLAEEDALPLEEITQEL
                     VSQYLRFIELFGRKPTHLDSHHHVHMFPQIFPIVARFAAEQGIALRADRQMAFDLPVNL
                     RTTQGFSSAFYGEEISESLFLQVLDDAGHRGDRSLEVMCHPAFIDNTIRQSAYCFPRLT
                     ELDVLTSASLKGAIAQRGYRLGSYRDV"
     gene            complement(763..2115)
                     /locus_tag="C5Y66_RS21135"
                     /old_locus_tag="C5Y66_21135"
     CDS             complement(763..2115)
                     /locus_tag="C5Y66_RS21135"
                     /old_locus_tag="C5Y66_21135"
                     /EC_number="3.2.1.86"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:NP_416248.1"
                     /note="catalyzes the fromation of N-acetyl-D-glucosamine
                     and N-acetyl-D-glucosamine-6-phosphate from
                     diacetylchitobiose-6-phosphate; Derived by automated
                     computational analysis using gene prediction method:
                     Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="GH4"
                     /protein_id="WP_000078765.1"
                     /translation="MSQKLKVVTIGGGSSYTPELLEGFIKRYHELPVSELWLVDVEGGK
                     PKLDIIFDLCQRMIDNAGVPMKLYKTLDRREALKDADFVTTQLRVGQLPARELDERIPL
                     SHGYLGQETNGAGGLFKGLRTIPVIFDIVKDVEELCPNAWVINFTNPAGMVTEAVYRHT
                     GFKRFIGVCNIPIGMKMFIRDVLMLKDSDDLSIDLFGLNHMVFIKDVLINGKSRFAELL
                     DGVASGQLKASSVKNIFDLPFSEGLIRSLNLLPCSYLLYYFKQKEMLAIEMGEYYKGGA
                     RAQVVQKVEKQLFELYKNPELKVKPKELEQRGGAYYSDAACEVINAIYNDKQAEHYVNI
                     PHHGQIDNIPADWAVEMTCKLGRDGATPHPRITHFDDKVMGLIHTIKGFEIAASNAALS
                     GEFNDVLLALNLSPLVHSDRDAELLAREMILAHEKWLPNFADCIAELKKAH"
     gene            complement(2220..3059)
                     /gene="chbR"
                     /locus_tag="C5Y66_RS21140"
                     /old_locus_tag="C5Y66_21140"
     CDS             complement(2220..3059)
                     /gene="chbR"
                     /locus_tag="C5Y66_RS21140"
                     /old_locus_tag="C5Y66_21140"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:NP_310468.2"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="DBD-Pfam|HTH_AraC,DBD-Pfam|HTH_AraC,DBD-SUPERFAMI
                     LY|0035607"
                     /protein_id="WP_001301288.1"
                     /translation="MQPVINAPEIATAREQQLFNGKNFHVFIYNKTESISGLHQHDYYE
                     FTLVLTGRYFQEINGKRVLLERGDFVFIPLGSHHQSFYEFGATRILNVGISKRFFEQHY
                     LPLLPYCFVASQVYRTNNAFLTYVETVISSLNFRETGLEEFVEMVTFYVINRLRHYREE
                     QVIDDVPQWLKSTVEKMHDKEQFSESALENMVALSAKSQEYLTRATQRYYGKTPMQIIN
                     EIRINFAKKQLEMTNYSVTDIAFEAGYSSPSLFIKTFKKLTSFTPKSYRKKLTEFNQ"
     gene            complement(3070..3420)
                     /gene="chbA"
                     /locus_tag="C5Y66_RS21145"
                     /old_locus_tag="C5Y66_21145"
     CDS             complement(3070..3420)
                     /gene="chbA"
                     /locus_tag="C5Y66_RS21145"
                     /old_locus_tag="C5Y66_21145"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:NP_310469.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="gnl|TC-DB|P69791|4.A.3.2.1"
                     /protein_id="WP_000968919.1"
                     /translation="MMDLDNIPDTQTEAEELEEVVMGLIINSGQARSLAYAALKQAKQG
                     DFAAAKAMMDQSRMALNEAHLVQTKLIEGDAGEGKMKVSLVLVHAQDHLMTSMLARELI
                     TELIELHEKLKA"
     gene            complement(3471..4829)
                     /gene="chbC"
                     /locus_tag="C5Y66_RS21150"
                     /old_locus_tag="C5Y66_21150"
     CDS             complement(3471..4829)
                     /gene="chbC"
                     /locus_tag="C5Y66_RS21150"
                     /old_locus_tag="C5Y66_21150"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:NP_416251.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="gnl|TC-DB|P17334|4.A.3.2.1"
                     /protein_id="WP_000073041.1"
                     /translation="MSNVIASLEKVLLPFAVKIGKQPHVNAIKNGFIRLMPLTLAGAMF
                     VLINNVFLSFGEGSFFYSLGIRLDASTIETLNGLKGIGGNVYNGTLGIMSLMAPFFIGM
                     ALAEERKVDALAAGLLSVAAFMTVTPYSVGEAYAVGANWLGGANIISGIIIGLVVAEMF
                     TFIVRRNWVIKLPDSVPASVSRSFSALIPGFIILSVMGIIAWALNTWGTNFHQIIMDTI
                     STPLASLGSVVGWAYVIFVPLLWFFGIHGALALTALDNGIMTPWALENIATYQQYGSVE
                     AALAAGKTFHIWAKPMLDSFIFLGGSGATLGLILAIFIASRRADYRQVAKLALPSGIFQ
                     INEPILFGLPIIMNPVMFIPFVLVQPILAAITLAAYYMGIIPPVTNIAPWTMPTGLGAF
                     FNTNGSVAALLVALFNLGIATLIYLPFVVVANKAQNAIDKEESEEDIANALKF"
     gene            complement(4914..5234)
                     /gene="chbB"
                     /locus_tag="C5Y66_RS21155"
                     /old_locus_tag="C5Y66_21155"
     CDS             complement(4914..5234)
                     /gene="chbB"
                     /locus_tag="C5Y66_RS21155"
                     /old_locus_tag="C5Y66_21155"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:NP_310471.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="gnl|TC-DB|P69795|4.A.3.2.1"
                     /protein_id="WP_000412169.1"
                     /translation="MEKKHIYLFCSAGMSTSLLVSKMRAQAEKYEVPVIIEAFPETLAG
                     EKGQNADVVLLGPQIAYMLPEIQRLLPNKPVEVIDSLLYGKVDGLGVLKAAVAAIKKAA
                     AN"
ORIGIN
        1 ttacacatcc cgataactcc ccaaccgata accacgctga gcgatagcac ctttcaacga
       61 cgctgatgtc aacacatcca gctccgttaa gcgtgggaaa cagtaagcac tctgacggat
      121 agtattatcg ataaacgccg gatgacacat cacctccagc gaacgatcac cccgatggcc
      181 tgcgtcatcc agcacttgca ggaacagcga ctcactgatc tcttcaccgt agaatgcact
      241 gctgaatccc tgggtagtgc gcaggttgac cggcaaatca aacgccatct gacgatccgc
      301 ccgcaacgca atgccctgct ctgccgcaaa cctggcaaca atcgggaaaa tctgcgggaa
      361 catatgcaca tgatgatggc tatcaagatg cgtaggtttg cgtccaaata gctcaatgaa
      421 acgcaaatac tgactgacaa gctcctgagt aatttcttcc agcggtaaag catcttcttc
      481 tgccaactgc cagatccatt ttcccagcac accatcgcgg gttaaccccg gcatagctgt
      541 cagtggctta cccatagtaa ggacaaagtg catccctatg gccagactcg gttcatcacg
      601 actcaactgc accgcatggt caatagcctg cccattcacc agcgccgtcg tcgacgtgac
      661 aatcccattg cgacaggcct cgataatgcc gtagttctga cctttgctta agccaaaatc
      721 atcggcatta acaatcagta agcgttccat aatcagcctc ggttaatgtg cttttttaag
      781 ctctgcgatg cagtcggcaa agtttggcag ccatttctcg tgcgccagaa tcatctcgcg
      841 tgccagcagc tcagcatcgc gatcggaatg caccaacgga ctaaggttta gcgccagtaa
      901 cacatcgtta aattctccgc taagtgcggc gttactggca gcaatctcga agcctttaat
      961 ggtgtgaatc agccccatta ctttatcatc gaaatgcgta atgcgcggat gtggcgtcgc
     1021 gccatcgcgc cccagcttac aggtcatttc tactgcccag tctgccggaa tattatcaat
     1081 ctgcccatga tgcgggatat taacgtaatg ttctgcttgc ttgtcgttgt agatagcgtt
     1141 gatcacttcg catgctgcat cagagtaata agccccaccg cgctgttcca gttctttcgg
     1201 cttaactttc agctcaggat ttttatacag ctcaaaaagt tgtttctcga ctttctgtac
     1261 tacctgcgct cgtgcgccgc ctttgtagta ttcgcccatt tcaatagcca gcatctcttt
     1321 ctgcttgaag taatacagca gataagaaca tggcagcaga ttcaacgaac gaattaagcc
     1381 ctcactaaat ggcagatcga aaatattttt tacagaggac gcttttaact gccctgacgc
     1441 cacaccatca agcaattcgg caaagcgcga cttgccattt atcagcacat ccttaatgaa
     1501 caccatatgg ttgaggccga acaaatcgat agataaatca tcgctgtctt tcagcatcag
     1561 aacatcgcga ataaacatct tcatgccgat cggaatatta cacacgccga taaagcgttt
     1621 aaatccggta tgacgataaa cggcttcagt gaccattccc gccgggttag tgaagttaat
     1681 cacccatgca ttcggacaaa gttcttcgac atcttttacg atgtcaaaaa tcaccggaat
     1741 ggtacgcaga cctttaaaca aaccgcccgc gccgttggtt tcctgaccaa gataaccatg
     1801 acttaatgga atacgttcat ccagttcacg cgccggtaat tggccaacgc gcagttgggt
     1861 agtaacgaaa tcagcatctt tcaatgcttc gcggcgatcc agcgttttat aaagcttcat
     1921 cgggacgcca gcgttatcaa tcatccgttg gcagagatcg aaaataatat ccagtttcgg
     1981 tttaccacct tcgacatcca ccagccataa ttcgctgacc ggcaattcgt gataacgctt
     2041 aataaatcct tccagtaact ccggggtata gctgctcccg ccaccaatag tgacgacttt
     2101 taatttctgg ctcataattt ctcccttcag tacagaatac tgatatctgg catatctgcc
     2161 cccccggaca taaataatcc agcaacagga cagatatgtg aattgtcagg tataacgact
     2221 tactgattaa attcagtcaa tttcttacga tagctcttag gcgtaaagga cgttaatttc
     2281 ttaaacgttt taataaacaa actcgggcta ctataaccgg cctcaaacgc aatatccgtc
     2341 actgaatagt tggtcatttc cagttgtttt ttggcaaaat taatacggat ttcattaata
     2401 atctgcattg gcgttttgcc ataatatcgt tgagtcgctc gcgtcaaata ttcctgtgat
     2461 ttggctgaca acgccaccat attctccagc gccgattcac taaactgctc tttatcatgc
     2521 atcttttcta ccgtactttt cagccactgc ggtacatcat caatcacctg ttcttcgcgg
     2581 taatgacgta aacggttaat gacataaaaa gtaaccatct caacaaactc ttccagccct
     2641 gtttcgcgga aattcaatga agaaatcact gtttccacat aggtgagaaa agcgttattg
     2701 gtccggtata cctgcgaagc gacaaagcaa taaggcaaca atggcaggta atgctgctca
     2761 aaaaagcgtt tactgatccc aacgttcaat atgcgcgtgg caccaaactc ataaaaactt
     2821 tgatggtgcg aacctaacgg aataaaaaca aaatcgcccc gttccagtaa cacgcgctta
     2881 ccgttaatct cctggaaata acgcccggtt aataccagag taaattcata atagtcgtgc
     2941 tgatgcagtc cgctgatact ctcagttttg ttatagataa acacatggaa gtttttgcca
     3001 ttaaacaact gctgttctcg ggcagtggca atttccggcg cgttaatcac tggctgcatc
     3061 atcgactcct tatgccttca gtttttcatg aagctcaatt aattcagtaa tcagttcacg
     3121 cgcaagcatg gacgtcatta aatgatcctg agcgtggacc agcaccagac tcactttcat
     3181 cttaccttcg cccgcatcgc cttcaatcag tttcgtctgt accagatgcg cttcattcaa
     3241 tgccatccgt gactgatcca tcatggcttt tgctgcggca aaatcgccct gcttcgcctg
     3301 tttcagtgcc gcatacgcca ggctgcgcgc ttgtccggag ttgatgatca gccccatcac
     3361 cacttcttcc agctcttcag cttccgtttg cgtatcggga atgttatcga gatccatcat
     3421 acatcgttcc tctcttttct taccggcacg attacccgta ccggcatcga ttaaaatttc
     3481 agggcgttag cgatatcttc ttcgctctct tctttatcaa tcgcattttg tgctttgtta
     3541 gccaccacaa caaagggcag ataaattaac gttgcgatgc caaggttgaa gagtgcgacc
     3601 agcaatgcgg cgacgctacc gttggtgtta aagaaggctc ccagaccggt tggcatggtc
     3661 cacggtgcaa tattggtcac cggaggaata atgcccatgt agtacgctgc gagggtgatt
     3721 gccgccagaa tcggttgtac cagtacaaac gggataaaca tcaccgggtt catgataatt
     3781 ggcagaccaa acagaatcgg ttcgttaatc tggaagatgc cggacggcag cgccagtttt
     3841 gccacctgac gataatcagc acggcgagag gcgataaaga tagccaggat caggcctaaa
     3901 gtcgcaccac tgcccccaag gaaaataaag gagtccagca tcggcttggc ccagatatgg
     3961 aaggtcttac cggctgccag cgccgcttcg acggaaccat attgctgata ggtcgcgata
     4021 ttttccagtg cccacggcgt cataatgccg ttgtccagtg cggtcagcgc cagcgcgcca
     4081 tgaataccga agaaccagag cagtggaaca aagatcacat aggcccagcc caccacgcta
     4141 cccaacgatg ccagtggggt tgagatggta tccataatga tctgatggaa gttggtgccc
     4201 caggtattca acgcccaggc aataatcccc atcacggaaa gaataataaa gccgggaatt
     4261 aatgccgaga aggaacgcga tactgaagca ggtacgctgt cgggcagttt aatgacccaa
     4321 ttgcggcgga caataaaggt aaacatttct gccaccacca ggccaataat aatcccggag
     4381 atgatattcg ccccacctaa ccagtttgca ccaaccgcat aggcctcacc gacactatat
     4441 ggggtgacgg tcataaatgc tgcaacggat aacaacccag ccgccagcgc atcgacttta
     4501 cgctcttctg ccagcgccat gccaataaag aacggtgcca ttaaagacat tattcctaat
     4561 gttccgttat atacgttgcc gccaatacct ttcagaccat taagtgtttc aatggttgag
     4621 gcgtcgaggc gaatacctaa ggaataaaaa aacgacccct ccccaaagct tagaaaaacg
     4681 ttgttaatta atacaaacat ggcccccgca agggttaacg gcattaagcg aataaagcca
     4741 tttttgattg cattaacgtg tggctgcttt cctattttaa ctgcaaaagg gaggagtacc
     4801 ttttcaagcg atgcaataac attactcata gaaaaatacc cttaaaaacc gcaatttaaa
     4861 tattgcggta ttgatttatg aaataactct ttgacgggaa aatttaaaat aaattaattt
     4921 gctgcggctt ttttaatcgc tgcaaccgca gccttaagca cgcctaaacc atcgactttg
     4981 ccataaagca gcgagtcaat tacttcaacc ggtttgttgg gtaacaaacg ctggatttcg
     5041 ggcaacatat aagcaatctg cggccctaat aacacgacat cggcattctg acctttttca
     5101 ccagccagtg tttccggaaa tgcttcaata atgaccggaa cttcatattt ttctgcctgt
     5161 gcgcgcattt ttgataccag taaagaggta gacatgcccg cagaacaaaa cagataaatg
     5221 tgtttctttt ccat
//
