LOCUS       NZ_CP097185             4072 bp    DNA     circular CON 11-JUN-2024
DEFINITION  Escherichia coli strain SH21PTE31 plasmid pYUSHP31-4, complete
            sequence.
ACCESSION   NZ_CP097185
VERSION     NZ_CP097185.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN28157183
            Assembly: GCF_023370175.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 4072)
  AUTHORS   Wang,J.
  TITLE     whole genome of E.coli SH21PTE31
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 4072)
  AUTHORS   Wang,J.
  TITLE     Direct Submission
  JOURNAL   Submitted (08-MAY-2022) Key Laboratory of Prevention and Control of
            Biological Hazard Factors (Animal Origin) for Agrifood Safety and
            Quality, Ministry of Agriculture of China, Yangzhou University,
            No.48 Wenhui East Road, Yangzhou, Jiangsu 225009, China
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Unicycler v. 0.4.9
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 100.0x
            Sequencing Technology             :: Oxford Nanopore MinION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_023370175.1-RS_2024_06_11
            Annotation Date                   :: 06/11/2024 04:53:37
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 6.7
            Features Annotated                :: Gene; CDS; rRNA; tRNA; ncRNA
            Genes (total)                     :: 4,805
            CDSs (total)                      :: 4,687
            Genes (coding)                    :: 4,459
            CDSs (with protein)               :: 4,459
            Genes (RNA)                       :: 118
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 86
            ncRNAs                            :: 10
            Pseudo Genes (total)              :: 228
            CDSs (without protein)            :: 228
            Pseudo Genes (ambiguous residues) :: 0 of 228
            Pseudo Genes (frameshifted)       :: 60 of 228
            Pseudo Genes (incomplete)         :: 162 of 228
            Pseudo Genes (internal stop)      :: 40 of 228
            Pseudo Genes (multiple problems)  :: 30 of 228
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP097185.1.
            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..4072
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="SH21PTE31"
                     /isolation_source="pig manure"
                     /db_xref="taxon:562"
                     /plasmid="pYUSHP31-4"
                     /geo_loc_name="China: Shanghai"
                     /lat_lon="30.40 N 120.52 E"
                     /collection_date="2021-07-15"
                     /collected_by="Jiang Yue"
     gene            complement(130..384)
                     /gene="mobC"
                     /locus_tag="M4R35_RS23900"
     CDS             complement(130..384)
                     /gene="mobC"
                     /locus_tag="M4R35_RS23900"
                     /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_000091746.1"
                     /translation="MSRTLEQKIADAEARLQRLKAKSRSLDTAQKVVVGAALLAKVRKP
                     EEVQLRAWLLQFLKAEVTRQADVTRILPLINELEALPEQ"
                     /name="mobC"
     gene            563..2710
                     /gene="mobQ"
                     /locus_tag="M4R35_RS23905"
     CDS             563..2710
                     /gene="mobQ"
                     /locus_tag="M4R35_RS23905"
                     /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_151140345.1"
                     /translation="MAIYHLSMKIISRSSGYSAVASAAYRSGSLMLDERTGLTHDYTRK
                     SGVAEAVILTPATAPAWCTNRAELWNAVEKAERRKNSQLAREIELAIPHELPQDAARET
                     VLAFVRENFVSQGMIADVAFHHMDKTNPHAHIMLTTRAIGPAGFSGKVRDWNDRTHAET
                     WRASWADHANRALANAGYQEEIDHRSYERQGLEKTPGIHLGKSACAMETRGIETERGEQ
                     NRLINRLNLEIQISRTELRNSGLTEPARRVADLLKIGLPDNATSYTLRDIIEALPKDSN
                     AAWKLTSNAMSMMADMQATRRRWEELNTERKEAMSHAASLKKSSPFSSGFSRIPLMQWA
                     APEYRSEQGKIQSLSQQMEKLRQHYRKVEKQDIPASQTAFEKQWQQWGESGLAALRSQL
                     LKREEELRRKELEDTERSRAEQLRKNDNAVMDSGVLRAVVTGYGEAPMPGNGEMTCYLL
                     LHNRNGEYTLWGNELEKYRTRIFESVDLMRDRSGYICDRSEIGQHPPLQRVYSSATFEQ
                     LLTQVCQTWPQHTRNLRQPKTWPESFCLGENRQPAMPSPVARRVDFTQGRLPPTLMPVM
                     SSVDRENRQLQLLLVMGVDDSLGGVVRLNGSLYPAFAVPSADNRHLVISALTDKGLRYA
                     GYGVAVNHDADNHISPAPELMAFHLKTRETPLFAAVNTPEKQPDHLFRSLGFNHTWDEW
                     RREEHARTRVSGKKNDRDCSR"
                     /name="mobQ"
     gene            complement(2965..3672)
                     /locus_tag="M4R35_RS23910"
     CDS             complement(2965..3672)
                     /locus_tag="M4R35_RS23910"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001296720.1"
                     /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_001296720.1"
                     /translation="MTSNPLIAYKSNALVEASYKLTLQEQRFLLLCISRLNSGTDVASP
                     ELQKTMTITAAEYFDSFPDMGRKNAEVQLQEAIDRLWDRSIILKDDEKREEFRWIQYRA
                     QYARGEGKAQITFSDAVMPYLTQLKGQFTRVVIKNISNLSRSYSIRIYEILQQFRSTGE
                     RIIALDDFKSSLMLDGKYKDFKTLNRDLIKPCVDELNKKSDLAVTVETIKKGRTVVALH
                     FRFKEDKQIKMTI"
                     /name="replication initiation protein"
     Typing          complement(386..562)
                     /name="MOBQ"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="5.61e-88"
     Typing          563..921
                     /name="MOBQ"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="99.722"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          complement(2966..3672)
                     /name="rep_cluster_1778"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="99.294"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          477..2707
                     /name="MOBQ"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="94.385"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 ggttcagcgc atatcacctg tcgaaaaacc gtgcgtatgt gctcaacatg gcgactgatt
       61 cacttccgct tcctcgccca ctcgctcgct aacgctcggt cgctgggctg cggcgagcgg
      121 acgatacaat cactgttctg gcagcgcctc cagctcgtta atcagcggca gtatgcgcgt
      181 cacatcagcc tgtcgtgtca cctctgcctt caggaactgg agtaaccagg cacgcaactg
      241 cacctcctcc ggctttctga cctttgccag caatgcagca cccacaacaa ccttctgcgc
      301 tgtgtccagg ctccggctct tcgccttcag gcgctgtaat ctcgcctcag catcagcaat
      361 cttctgttcg agcgttctgc tcatgatgta actccgtgcg cgatgaaaaa tcgcatttta
      421 gcgcgtcact ggtagtttaa aaactgagct ggcataatgc acggcaaatc acgaagtgcg
      481 cacttataca atctccactc cgtttcgatt gtgtgcgccc tgcggggctg aaagaaaact
      541 acaaaaaggc attacggcag aaatggcgat ttatcatctc agcatgaaaa ttatctccag
      601 aagcagcggc tacagcgccg tagcttccgc tgcctatcgt tccggttcac tgatgcttga
      661 tgagcgtacc ggactgactc acgactacac ccgcaaaagc ggtgtggctg aggctgtgat
      721 tctgaccccc gccaccgccc ctgcctggtg tacgaaccgt gccgaactct ggaatgccgt
      781 tgagaaggcc gaacgccgga agaactcaca acttgcgcgg gaaattgaac tcgccatccc
      841 ccacgaactg ccgcaggatg ccgcccggga aaccgttctc gcctttgtca gagaaaactt
      901 tgtcagtcag ggcatgattg ctgatgtggc gttccatcac atggataaaa caaatcccca
      961 tgcgcacatc atgctgacca cgagggctat cggacctgct gggttcagcg gaaaggtcag
     1021 ggactggaac gaccggacac atgccgagac gtggcgggca tcatgggctg accatgcaaa
     1081 cagggcactg gcgaacgccg gttatcagga agagatagac catcgttcat acgagcgaca
     1141 ggggcttgag aaaacgcctg gtattcacct cggaaagtct gcctgtgcga tggaaacacg
     1201 cggtatcgaa acagaacgcg gcgaacagaa tcgtctgatt aacaggctta acctggaaat
     1261 acagatttcc cgcaccgaac tcaggaacag cgggctgaca gagcctgccc gccgtgtggc
     1321 tgaccttctg aagatcgggc ttcctgacaa cgcaacttcg tacacactac gtgacatcat
     1381 cgaagcgttg ccgaaggaca gtaacgcggc atggaaactc accagtaacg ccatgtcgat
     1441 gatggcagat atgcaggcga cacgcagacg ctgggaagag ctgaacaccg aacgaaagga
     1501 agcgatgagc catgctgcca gcctgaaaaa atcatcgccg ttttcgtccg gtttttcccg
     1561 tattcccctg atgcaatggg ctgcaccgga ataccgtagt gagcagggaa aaatccagtc
     1621 tctgagccag caaatggaaa aattgcgaca gcattaccgg aaggtggaga aacaggacat
     1681 tcccgcgagt cagacggcat ttgaaaaaca gtggcagcag tggggggaat ccggccttgc
     1741 agctctcaga tcccagttgc ttaaacgtga agaggaattg cgccggaagg agctggagga
     1801 tacagaacgt agtcgcgcgg agcagctcag gaaaaatgac aatgccgtta tggattcagg
     1861 ggtgctgaga gcagtcgtta cgggatatgg cgaggctccc atgcctggta acggggaaat
     1921 gacctgttac cttctgcttc acaaccggaa cggagaatat acgctctggg ggaacgagct
     1981 ggagaaatac cgcaccagga tctttgagag tgttgattta atgcgtgaca ggagtggtta
     2041 tatctgtgac cgaagcgaaa tcggtcaaca tccaccactg caacgtgttt attcctctgc
     2101 gacctttgag caacttctga cgcaggtttg ccagacatgg ccgcaacata cccgcaatct
     2161 ccgccagccg aagacatggc cggagtcttt ctgtcttgga gaaaaccgcc agccagccat
     2221 gccatcaccg gtggcaagga gggtggattt tacgcaggga cgtctgccac cgacgctgat
     2281 gccggtaatg agttctgtcg accgggaaaa ccgacaactt cagcttttgc tggtcatggg
     2341 cgtggatgac tctctgggcg gtgttgtccg gcttaatggt tcgctgtatc ccgcgtttgc
     2401 tgtcccctcc gccgataaca ggcatctggt catcagtgcg ctgaccgata aggggttacg
     2461 atatgcagga tatggtgttg ccgtaaatca cgatgcagac aaccacattt cacctgcacc
     2521 ggaacttatg gcgtttcatc ttaaaacccg cgagacaccg ctttttgctg ccgtcaacac
     2581 accagaaaaa cagccggatc atctgttccg ttcactgggc tttaatcaca cctgggatga
     2641 atggcggcgc gaggagcatg cacgaacacg tgtctccggg aagaaaaatg atcgcgactg
     2701 ttcacggtaa ctgctgatag tattttgttt tgttttacat cgtgttatgt tctctgacat
     2761 tcatcgtaac tggatgaatg tcagatgcac acagattgca caaatccaac tttatcgttt
     2821 tcccgccccc actaagttgg gggttctttt ttttgaacgc catagaatcg attatgaagc
     2881 aattttatct caccagtagt accatcgcat acctctcatg gaaaaaacgc aacagagagc
     2941 gttttaggtg ccttaaaatc gattctagat cgtcatcttg atctgtttgt cttccttgaa
     3001 gcgaaaatgc agggctacaa ccgtgcgccc ctttttgatc gtctcaaccg ttacagccag
     3061 gtcgcttttt ttgttcagtt cgtcaacaca gggttttatt agatccctgt ttaacgtttt
     3121 gaaatcttta tatttaccat caagcatcag tgatgattta aaatcatcga gggcgataat
     3181 acgttcccca gtactgcgga attgctggag aatctcgtat attcttatgc tgtaacttct
     3241 tgataaattg gagatatttt taataacaac tctggtgaat tgccccttca actgtgtcag
     3301 ataaggcatt accgcgtcag aaaaagtgat ttgtgctttc ccctctcccc tcgcgtactg
     3361 tgcccgatac tgaatccagc ggaactcctc gcgcttctcg tcgtccttga gaatgatcga
     3421 cctgtcccac aaacgatcga tcgcttcctg tagctgaacc tcggcatttt tccgccccat
     3481 atcagggaat gaatcaaaat attccgcagc tgtaatggtc attgtctttt gcaattcagg
     3541 tgaagctacg tcagtaccgg agttaagtcg gcttatgcag agcaataaga aacgctgttc
     3601 ttgtaaagtt agcttgtaac tggcctcaac cagcgcattg gacttatagg ctatcagagg
     3661 gtttgatgtc attttaacca ccaggccaaa gatgaggtga gataaaaacc tatcaccttt
     3721 agcattggtg agcaattata tttccacccc ccatttttct gtgaatatta ccttaaatct
     3781 cctcaccttt accttaaatt acctcaccca agaaccttaa attatatcac ctttacctta
     3841 aatttcccca cctatacacg tgtaacgcat tgtttttaat caggaatttc gaccctaaaa
     3901 caagtattaa aaacaagtat taaaaacaag atctaaaaac ttaacggcga gcctgtggat
     3961 aacttggagt gctgaaaata aaaacccaat aaaaacaatg tgttgcaaaa aatcaggatt
     4021 ggagattccg aatacccccc ctccaaccct gtggaaatcc agtattcatg cg
//
