LOCUS       NZ_LR890408             4082 bp    DNA     circular CON 25-JUN-2023
DEFINITION  Escherichia coli strain MSB1_7C isolate MSB1_7C plasmid 4, complete
            sequence.
ACCESSION   NZ_LR890408
VERSION     NZ_LR890408.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMEA3357386
            Assembly: GCF_904864555.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1
  AUTHORS   Hawkey,J.
  TITLE     Direct Submission
  JOURNAL   Submitted (16-OCT-2020) THE UNIVERSITY OF MELBOURNE, 30 Flemington
            Rd, Australia
COMMENT     ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 06/25/2023 09:51:51
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 6.5
            Features Annotated                :: Gene; CDS; rRNA; tRNA; ncRNA
            Genes (total)                     :: 5,126
            CDSs (total)                      :: 5,006
            Genes (coding)                    :: 4,832
            CDSs (with protein)               :: 4,832
            Genes (RNA)                       :: 120
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 89
            ncRNAs                            :: 9
            Pseudo Genes (total)              :: 174
            CDSs (without protein)            :: 174
            Pseudo Genes (ambiguous residues) :: 0 of 174
            Pseudo Genes (frameshifted)       :: 48 of 174
            Pseudo Genes (incomplete)         :: 125 of 174
            Pseudo Genes (internal stop)      :: 35 of 174
            Pseudo Genes (multiple problems)  :: 34 of 174
            Pseudo Genes (short protein)      :: 4 of 174
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            LR890408.1.
            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/
            COMPLETENESS: full length.
FEATURES             Location/Qualifiers
     source          1..4082
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="MSB1_7C"
                     /isolate="MSB1_7C"
                     /isolation_source="rectal swab"
                     /host="Homo sapiens"
                     /db_xref="taxon:562"
                     /plasmid="4"
                     /geo_loc_name="Australia"
                     /collection_date="2014-01"
     gene            complement(424..678)
                     /gene="mobC"
                     /locus_tag="JMW09_RS25330"
     CDS             complement(424..678)
                     /gene="mobC"
                     /locus_tag="JMW09_RS25330"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000091747.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="relaxase accessory protein MobC"
                     /protein_id="WP_000091745.1"
                     /translation="MSRTLEQKIADAEARLQRLKAKSRSLDTAQKVIVGAALLAKVRKP
                     EEVQLRAWLLQFLKAEVTRQADVTRILPLINELEALPGQ"
                     /name="mobC"
     gene            857..3016
                     /gene="mobQ"
                     /locus_tag="JMW09_RS25335"
     CDS             857..3016
                     /gene="mobQ"
                     /locus_tag="JMW09_RS25335"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_016240513.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MobQ family relaxase"
                     /protein_id="WP_001029343.1"
                     /translation="MAIYHLSMKIISRNSGYSAVASAAYRSGSLMLDERTGLTHDYTRK
                     SGVAEAVILTPATAPAWCTNRAELWNAVEKAERRKNSQLAREIELAIPRELPQDAARET
                     VLAFVRENFVSQGMIADVAFHHMDKTNPHAHIMLTTRAVGPAGFGGKVRDWNDRTHAET
                     WRASWADHANRALANAGYQEEIDHRSYERQGLEKTPGIHLGKSACAMETRGIETERGEQ
                     NRLINRLNLEIQISRTELRNSGLTEPARRVADLLNIVLPDNATSYTLRDIIEALPKDSN
                     AAWKLTSNAMSMMADMQATRRRWEELNTERKEAMSHAASLKKSSPFSSGFSRIPLMQWA
                     APEYRSEQGKIQSLSQQMEKLRQHYRKVEKQDIPASQTAFEKQWQQWGASGLAALRVQL
                     LKREEELRRKEQEDTERSRAERRAEQLRKNDNAVMDSGVLSAVVTGYGEAPMPGNGEMT
                     CYLLLHNRNGEYTLWGNELEKYRTRIFERVDLMRDRSGYICDRSEIGQHPPLQRVYSSA
                     TFEQLLTQVCQTWPQYTRNLRQPKTWPESFCLGEDRQPAMPSLAARKVDFTQGRLLPTL
                     MPVMSSVDRETRQLQLLLVMGVDDSLGGVVRLNGTLYPAFAVPSADNSQLVISALTDKG
                     LRYAGYGVAVNHDADSHISPAPELMEFHLKTREAPLFAAVNTPEKQPDHLFRSLGFNRT
                     WDEWRREEDARTHATERRHDRGWSQ"
                     /name="mobQ"
     gene            complement(3272..3973)
                     /locus_tag="JMW09_RS25340"
     CDS             complement(3272..3973)
                     /locus_tag="JMW09_RS25340"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001281399.1"
                     /GO_function="GO:0003887 - DNA-directed DNA polymerase
                     activity [Evidence IEA]"
                     /GO_process="GO:0006270 - DNA replication initiation
                     [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="replication initiation protein"
                     /protein_id="WP_001281397.1"
                     /translation="MSDLIAYKSNALVEASYKLTLQEQRFLLLCIGRLKSGADAESPKL
                     QKTMTITAAEYFDSFPDMGRKNAEVQLQEAIDRLWDRSIILKDDEKREEFRWIQYRAQY
                     AKGEARAQITFSDAVMPYLTQLQGQFTRVVIKNISRLSRSYSIRIYELLQQFRSTGERI
                     IALDDFRSMLDIEHKYQTYKSLNQQLLRPCIDELNKKSDLAVTVETIKKGRTVVALHFR
                     FKEDKQIKMTI"
                     /name="replication initiation protein"
     Typing          complement(680..856)
                     /name="MOBQ"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="5.61e-88"
     Typing          857..1215
                     /name="MOBQ"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          complement(3273..3973)
                     /name="rep_cluster_1778"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          771..3013
                     /name="MOBQ"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="99.866"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 tattgccttt accttaaatt cctccaccta aacaccttaa atcatattac ctttacctta
       61 aatcatatta cctatagcgt tgtaacattt tgttttctat aaggaatttt ggcgctaaaa
      121 caagtattaa aaacaagatc ttaaaaacaa gatctaaaaa cttaacgacg agcctgtgga
      181 taacttggag tgctgaaaac aaaaaaccaa taaaaacaat gcgttgcaaa aaagcagaat
      241 tgcaagttcc gaatacaccc cctccaaccc tgtggaaatc cagtattcat gcgggttcag
      301 cgcatatcac ctcccgaaaa accgtgcgta tgtgctcaat caggcgacgg attcacttcc
      361 gcttcctcgc ccactcgctc gctaacgctc ggtcgctggg actgcggcga gcggacgata
      421 caatcactgt cctggcagcg cttccagctc gttaatcagc ggcagtatgc gcgtcacatc
      481 agcctgtcgt gtcacctctg ccttcaggaa ctggagtaac caggcacgca actgcacctc
      541 ctccggcttt ctgacctttg ccagcaatgc tgcacccaca atgaccttct gcgctgtgtc
      601 cagactcctg ctcttcgcct tcaggcgctg taatctggcc tcagcatcag caatcttctg
      661 ttcgagtgtt ctgctcatga tgtaactccg tgcgcgatga aaaatcgcat tttagcgcgt
      721 cactggtagt ttaaaaactg agctggcata atgcacggaa aatcacgaag tgcgcactta
      781 tacaatctcc actccgtttc gattgtgtgc gccctgcggg gctgaaagaa aaccacaaaa
      841 aggcattacg gcagaaatgg cgatttatca tctcagcatg aaaatcatct ccagaaacag
      901 cggctacagc gccgttgctt ctgctgccta tcgttccggt tcactgatgc ttgatgagcg
      961 taccggactg actcacgact acacccgcaa aagcggtgtg gctgaagctg tgattctgac
     1021 tcccgcgaca gcccctgcct ggtgtacgaa ccgtgccgaa ctctggaatg ccgttgagaa
     1081 ggccgaacgc cggaagaact cacaacttgc gcgggaaatt gaactcgcca tcccccgcga
     1141 actaccgcag gatgccgcac gggaaaccgt tctcgccttt gtcagagaaa actttgtcag
     1201 tcagggcatg attgctgatg tggcgttcca tcacatggat aaaacaaatc cccatgcgca
     1261 catcatgctg accacgagag ctgtcggacc tgctggattc ggtggaaagg tcagggactg
     1321 gaacgaccgg acacatgccg agacgtggcg tgcatcatgg gctgaccatg cgaacagggc
     1381 actggcgaac gccggttatc aggaagagat agaccatcgt tcatacgagc gacaggggct
     1441 tgagaaaacg cctggtattc acctcggaaa gtctgcctgt gcgatggaaa cacgcggtat
     1501 cgaaacagaa cgcggcgaac agaatcgtct gattaacaga cttaacctgg aaatacagat
     1561 ttcccgtacc gaactcagaa acagcgggct gacagagcct gcccgccgtg tggctgacct
     1621 tctgaatatc gtgcttcctg acaacgcaac ttcgtacaca ctacgtgaca tcatcgaagc
     1681 gttgccgaag gacagtaatg cggcatggaa actcaccagt aatgccatgt cgatgatggc
     1741 agatatgcag gcgacgcgca gacgctggga agagctgaac accgaacgaa aggaagcgat
     1801 gagccatgct gccagcctga aaaaatcatc gccgttttcg tccggttttt cccgtattcc
     1861 cctgatgcaa tgggcggcac cggaataccg tagcgaacag ggaaaaatcc agtcgctgag
     1921 ccagcaaatg gaaaaattgc gacagcatta ccggaaggtg gagaaacagg acattcccgc
     1981 gagtcagacg gcatttgaaa aacagtggca gcagtggggg gcatccggcc ttgcagctct
     2041 cagagtccag ttgcttaaac gtgaagagga attgcgccgg aaggagcagg aggatacaga
     2101 acgtagtcgc gcggagcgac gagcggaaca gctcaggaaa aatgacaatg ccgttatgga
     2161 ttcaggggta ctgagcgcag tcgttacggg gtatggcgag gcccccatgc ctggtaacgg
     2221 ggaaatgacc tgttaccttc tgcttcacaa ccggaacgga gaatacacgc tctgggggaa
     2281 cgagctggag aaataccgca ccagaatctt tgagcgtgtt gatttaatgc gtgacaggag
     2341 tggttatatc tgtgaccgaa gcgaaatcgg tcaacatcca ccactgcaac gtgtttattc
     2401 ctctgcgacc tttgagcaac ttctgacgca ggtttgccag acatggccgc aatatacccg
     2461 caatctccgc cagccgaaga catggccgga gtctttctgt cttggagaag accgccagcc
     2521 agccatgcca tcactggcag caaggaaggt ggattttacg cagggacgtc tgctaccgac
     2581 gctgatgccg gtaatgagtt ctgtcgaccg ggaaacccgc cagcttcagc ttttgctggt
     2641 catgggcgtg gatgactctc tgggcggtgt tgtccggctt aatggtacgc tgtatcccgc
     2701 gtttgccgtt ccctcagccg ataacagcca gctggtcatc agtgcactga ccgataaggg
     2761 gttacggtat gcagggtatg gtgttgccgt aaatcacgat gcagacagcc acatatcacc
     2821 tgcgccggaa cttatggagt ttcatctgaa aacccgtgag gcaccgcttt ttgctgccgt
     2881 caacacacca gaaaaacagc cggatcatct gttccgctcg ctgggtttta atcgtacctg
     2941 ggacgaatgg cggcgcgagg aagatgcacg aacacacgcc accgagagga gacatgatcg
     3001 cggttggtca cagtgaatgt gaacaatatt ttgttttgtt taacatcgtg ttatgttcgt
     3061 cgatgttctt cgatgttcat cgacagggat gaatgcaaga agcacacaca taatgcaagc
     3121 atagttttgt ttttccgccc ccaaaaaatg ggggttcttt tttcgccgca ttagagcgct
     3181 tttgacgcaa tttttcactt caatagtacc ttcgcactac taacacaaaa aaaacgcagc
     3241 agggagcgtt ttaggtgcct taaaatcgat tttagatcgt catcttgatt tgtttgtctt
     3301 ccttgaagcg aaaatgcagg gctacaaccg tgcgcccctt tttgatcgtc tcaaccgtta
     3361 cagccaggtc gctttttttg ttcagttcgt caatgcaggg tcttaataat tgctggttaa
     3421 gtgatttata tgtttgatat ttatgctcta tatcaagcat tgagcgaaaa tcatcgagag
     3481 cgataatacg ttcgccagta ctgcggaact gctggaggag ttcgtatatc cttatactgt
     3541 aacttcttga taatctagat atattcttga ttacaactct agtaaattgc ccttgtagtt
     3601 gtgtcaaata aggcattact gcgtcagaaa atgttatttg tgctctggcc tcgcctttag
     3661 cgtactgtgc ccgatactgg atccagcgga actcctcacg tttctcgtca tccttgagaa
     3721 tgattgacct gtcccacaaa cgatcaattg cttcctgtaa ctgaacctcg gcatttttcc
     3781 gccccatgtc agggaatgaa tcgaaatatt ccgcagctgt aatggtcatt gtcttttgca
     3841 attttggaga ttctgcatca gccccagact tcaatcgacc gatgcaaagt aacaaaaatc
     3901 gctgttcctg tagggtcaat ttataactgg cttcaaccag cgcattggat ttataggcaa
     3961 ttagatccga catagagcat ccctccccaa aaggtaatga ataaaagata aacataccct
     4021 caacgaaagg caatgccttt ttattttaat atcccttttt ctgtgaatat taccttaaat
     4081 ca
//
