LOCUS       NZ_CP075066             4609 bp    DNA     circular CON 14-JUN-2024
DEFINITION  Escherichia coli strain EC_J_9 plasmid pUN_J9_5, complete sequence.
ACCESSION   NZ_CP075066
VERSION     NZ_CP075066.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN15684191
            Assembly: GCF_018415995.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 4609)
  AUTHORS   Liu,Z.
  TITLE     Co-ocurrence of fosA7 in Escherichia coli
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 4609)
  AUTHORS   Liu,Z.
  TITLE     Direct Submission
  JOURNAL   Submitted (31-JUL-2020) College of Veterinary Medicine, Northwest
            A&F University, No.3 Taicheng Road, Yangling, Shanxi 712100, China
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Unicycler v. v0.48
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 80.0x
            Sequencing Technology             :: Illumina Hiseq, oxford nanopore
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_018415995.1-RS_2024_06_14
            Annotation Date                   :: 06/14/2024 05:23:42
            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)                     :: 5,155
            CDSs (total)                      :: 5,038
            Genes (coding)                    :: 4,819
            CDSs (with protein)               :: 4,819
            Genes (RNA)                       :: 117
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 86
            ncRNAs                            :: 9
            Pseudo Genes (total)              :: 219
            CDSs (without protein)            :: 219
            Pseudo Genes (ambiguous residues) :: 0 of 219
            Pseudo Genes (frameshifted)       :: 94 of 219
            Pseudo Genes (incomplete)         :: 136 of 219
            Pseudo Genes (internal stop)      :: 49 of 219
            Pseudo Genes (multiple problems)  :: 53 of 219
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP075066.1.
            Bacteria and source DNA available from xiaoping song , Traditional
            Chinese Veterinary Medicine Lab,College of vetrinary Medicine,
            Northwest A&F University.
            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..4609
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="EC_J_9"
                     /isolation_source="intestine"
                     /host="swine"
                     /db_xref="taxon:562"
                     /plasmid="pUN_J9_5"
                     /geo_loc_name="China:Yangling"
                     /collection_date="2016-10-11"
     gene            41..688
                     /locus_tag="H4F96_RS25220"
                     /old_locus_tag="H4F96_25230"
     CDS             41..688
                     /locus_tag="H4F96_RS25220"
                     /old_locus_tag="H4F96_25230"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001423320.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="NYN domain-containing protein"
                     /protein_id="WP_001399740.1"
                     /translation="MKTIVYVDGFNFYYRKLKDSNKKWLNIKAMVEKLLPDDEIIGINY
                     YTARISGRIDSDAPRRQQIYFNALKSIDNLSIHYGTFSVNESRMFLVQPLDFKHHLKNP
                     NQKIKFANVLKTEEKGSDVNLGCHLVRDGFQGKYEKAVIITNDTDLAEPMRVVKSELSL
                     YIELLSPVNKPARTLSAICDKVTLISDQSIADSQFEDVIVVGEKTVTKPAQW"
                     /name="NYN domain-containing protein"
     gene            complement(809..1045)
                     /locus_tag="H4F96_RS25225"
                     /old_locus_tag="H4F96_25235"
     CDS             complement(809..1045)
                     /locus_tag="H4F96_RS25225"
                     /old_locus_tag="H4F96_25235"
                     /inference="COORDINATES: ab initio prediction:GeneMarkS-2+"
                     /note="Derived by automated computational analysis using
                     gene prediction method: GeneMarkS-2+."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_139242144.1"
                     /translation="MSIIIDREKYTALMTLIQTSQGYVGSKVQPNGYTLKCSFDTGFAC
                     CISRNTRNSNLSVHFENESADPATHFAILSAIS"
                     /name="hypothetical protein"
     gene            complement(1409..1642)
                     /locus_tag="H4F96_RS25230"
                     /old_locus_tag="H4F96_25240"
     CDS             complement(1409..1642)
                     /locus_tag="H4F96_RS25230"
                     /old_locus_tag="H4F96_25240"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000137438.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MbeD family mobilization/exclusion protein"
                     /protein_id="WP_004026237.1"
                     /translation="MTELEIHLLNALEQLQQDYMQRLSEWESAFVELQKMFSLTQRDNA
                     MLNERVMQLSQQVQHLSEQTERLSQLYSENWR"
                     /name="MbeD family mobilization/exclusion protein"
     gene            complement(1649..2167)
                     /locus_tag="H4F96_RS25235"
                     /old_locus_tag="H4F96_25245"
     CDS             complement(1649..2167)
                     /locus_tag="H4F96_RS25235"
                     /old_locus_tag="H4F96_25245"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001447511.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MbeB family mobilization protein"
                     /protein_id="WP_001749510.1"
                     /translation="MSNLLQTGAEFEKKLKERAESTEKMLNDEFRKLGESVSEAVTSNE
                     TKIRDAIALFTASTEKSLEKHREGVKEAMMQHRKDVLKLAGNTGMMLLGIVFLLFTASG
                     GTLWYLGGRIQTNLEEIRKQEETLQKLNAKTWGVEFVQDGNRKFLVLPYGKSAEVIPFQ
                     GKEWVHLKE"
                     /name="MbeB family mobilization protein"
     gene            complement(<2205..2903)
                     /locus_tag="H4F96_RS26110"
                     /old_locus_tag="H4F96_25250"
                     /pseudo=""
     CDS             complement(<2205..2903)
                     /locus_tag="H4F96_RS26110"
                     /old_locus_tag="H4F96_25250"
                     /inference="COORDINATES: protein motif:HMM:NF015397.4"
                     /note="incomplete; partial in the middle of a contig;
                     missing C-terminus; Derived by automated computational
                     analysis using gene prediction method: Protein Homology."
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="relaxase/mobilization nuclease domain-containing
                     protein"
                     /name="relaxase/mobilization nuclease domain-containing
                     protein"
     gene            complement(2845..3168)
                     /locus_tag="H4F96_RS25245"
                     /old_locus_tag="H4F96_25255"
     CDS             complement(2845..3168)
                     /locus_tag="H4F96_RS25245"
                     /old_locus_tag="H4F96_25255"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000956000.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MobC family plasmid mobilization relaxosome
                     protein"
                     /protein_id="WP_001430281.1"
                     /translation="MLTIRVTDDEHARLLERCEGKQLAVWMRRVCLGEPVARSGRLPTL
                     APPLLRQLAAIGNNLNQTARKVNSGQWSSGDRVQVVAALMAIGDELRRLRLAVREQGAR
                     DDS"
                     /name="MobC family plasmid mobilization relaxosome protein"
     gene            3232..3423
                     /locus_tag="H4F96_RS25250"
                     /old_locus_tag="H4F96_25260"
     CDS             3232..3423
                     /locus_tag="H4F96_RS25250"
                     /old_locus_tag="H4F96_25260"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000165985.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="Rop family plasmid primer RNA-binding protein"
                     /protein_id="WP_000165985.1"
                     /translation="MTKQEKTALNMARFIRSQTLTLLEKLNELDADEQADICESLHDHA
                     DELYRSCLARFGDDGENL"
                     /name="Rop family plasmid primer RNA-binding protein"
     Typing          complement(3509..3594)
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="98.851"
                     /coverage="100.0"
                     /evalue="3.99e-36"
     Typing          3620..4143
                     /name="rep_cluster_2350"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="86.447"
                     /coverage="97.0"
                     /evalue="2.31e-161"
     Typing          complement(1306..2855)
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="96.374"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 agatgcggtt ttttttatat ctaaaatgga gccaacccca ttgaaaacaa tagtttatgt
       61 tgatggcttt aacttttatt atcgtaagct gaaagattcc aacaaaaagt ggctgaacat
      121 aaaagcaatg gtcgaaaaat tgctaccgga tgatgaaata ataggaatta actattacac
      181 ggctaggatc tcaggaagga ttgattctga cgcacctcgt aggcaacaaa tatatttcaa
      241 tgcactgaaa agcatagata acctaagtat ccattatggt actttttcgg tgaatgaaag
      301 cagaatgttt ttagtgcagc ctcttgattt caaacatcac ttaaaaaacc cgaatcaaaa
      361 aataaagttt gcaaacgtct taaagacaga agaaaagggt tctgacgtta atttaggttg
      421 ccacttggtt agagatggtt tccaagggaa atacgagaag gctgtaataa taactaatga
      481 tacagatttg gctgaaccaa tgagagtagt caaatcagag ctcagccttt atattgaact
      541 actttctcct gtaaacaaac cagcaagaac cctgagcgca atatgcgata aggtcactct
      601 tataagcgac caatcaatag ctgatagcca gtttgaagac gttattgtag ttggtgagaa
      661 aaccgtgaca aaaccagcac agtggtagtg gctacatact cgttctgttg aaaaaaagcc
      721 cgtcccccgg gctttttatg ttttgcatta taccttcagg caaatataaa gagtatgaaa
      781 tctatagcta tgtgcagaaa ataaaaaatt agctaatagc acttaaaata gcaaagtgag
      841 ttgcaggatc tgcactttca ttttcaaaat gaacagataa gttactattt ctagtatttc
      901 tagagataca acatgcaaaa ccagtgtcga aagaacactt caatgtatat ccatttggtt
      961 gtacttttga gccaacatat ccttgagatg tctggatcaa cgtcatcaaa gcagtatatt
     1021 tttcacgatc aataataata ctcatcacat ccccattagt attactctgc aggcattaaa
     1081 cctcagcaat aaatctattt accataactc ccgttgcccg caccgcctca gacgccctca
     1141 gcgcgtttct gacgggaaac cggaaaaaca ggcaacaaac cacccgaaaa actgccgcga
     1201 tcgcgcctga taaattttaa ccgcatgaat acctatgcaa caagatggtg cagactacat
     1261 tagtccgtca aaatccactg aacctgccat ttttcatggt ttcaccatcc cagcgaaggg
     1321 ccatccagcg tgcgttcctg tatttccggc tgacgctccc gttccaggga taacacatgt
     1381 tcgcgctcct gtatcagccg ttcctctctt atctccagtt ctcgctgtat aactggctca
     1441 agcgttctgt ctgctcgctc aagtgctgca cctgctgact caactgcatg acccgctcgt
     1501 tcagcatcgc gttgtcccgt tgcgtaagcg aaaacatctt ctgcaattcc acgaaggcgc
     1561 tctcccattc gctcagccgc tgcatatagt cctgttgcag ctgctctaag gcgttcagca
     1621 aatgaatttc cagctctgtc actctgtgtc actccttcag atgtacccac tctttcccct
     1681 gaaagggaat cacctccgct gatttcccgt acggaaggac aaggaatttc ctgttcccgt
     1741 cctgcacaaa ctccacgccc catgtcttcg cgttcagttt ctgcaatgtc tcttcctgct
     1801 tcctgatttc ttccaggttc gtctgtatcc gtccgccaag ataccagagc gtcccgccac
     1861 tcgcggtaaa caggagaaag actatcccca gtaacatcat gcccgtattc cctgccagct
     1921 ttaacacgtc cttcctgtgc tgcatcatcg cctctttcac cccttcccgg tgtttttcca
     1981 gcgatttctc tgtcgaggct gtgaacaggg ctatagcgtc tctgattttc gtctcgtttg
     2041 aggtcacagc ctcgctgaca gactcgccga gcttcctgaa ctcgtcgttc agcattttct
     2101 ctgtagattc ggctctctct ttcagctttt tctcgaactc cgcgcccgtc tgtaaaagat
     2161 tgctcataaa atgctccttt cagcctgata ttcctcccgc cgttcgggtc tgcaatgctg
     2221 atactgcttc gcgtcaccct gaccacttca agccccgcct ctgtgagcgc ctgaatcaca
     2281 tcctgacggc cttttatctc tccggcatgg taaagtgcgt ctataccgcg tgtaacgctc
     2341 tcagcaagtg cctgtttcgt ttccggcagg ttatcaggaa gggtcagcgt ccggcggttc
     2401 tccggggcgt tggggtcatg cagtccgtaa tggtgattca ccagcgtctg ccaggcatca
     2461 attctcggcc tgtctgcgcg gtcgtagtac ggctggaggc gttttccggt ctgtagctcc
     2521 atgttcggaa tgacaaaatt cagctcaagc cgtcccttgt cctggtgctc cacccacagg
     2581 atgctgtact gatttttttc gagaccgggc atcagtacac gctcaaagct cgccatcact
     2641 ttttcacgtc ctcccggcgg cagttccttc tccgcgaacg acagaacacc ggacgtgtat
     2701 ttcttcgcaa atggcgtggc atcgatgagt tcccggactt cttccggatt accctgaagc
     2761 accgttgcgc cttcgcggtt acgctccctc cccagcaggt aatcaaccgg accactgcca
     2821 ccaccttttc ccctggcatg aaatttaact atcatcccgc gccccctgtt ccctgacggc
     2881 cagacgcagc cggcgcagct catccccgat ggccatcagt gcggccacca cctgaacccg
     2941 gtcaccggaa gaccactgcc cgctgttcac cttacgggct gtctgattca ggttatttcc
     3001 gatggcggcc agctgacgca gtaacggcgg tgccagtgtc ggcagcctcc cggaacgggc
     3061 aaccggctcc cccaggcaga cccgccgcat ccataccgcc agttgtttac cctcacagcg
     3121 ttcaagtaac cgggcatgtt catcatcagt aacccgtatc gtgagcatcc tctcgcgttt
     3181 catcggtatc attaccccat gaacagaaat cccccttaca cggaggcatc agtgactaaa
     3241 caggaaaaaa cagcccttaa catggcgcgc tttatcagaa gccagacatt aacgctgctg
     3301 gaaaagctca acgaactgga cgcggatgaa caggcagaca tctgtgaatc gcttcacgac
     3361 cacgccgatg agctttaccg cagctgcctc gcacgtttcg gggatgacgg tgaaaacctc
     3421 tgacacatgc agctcccgga gacggtcaca gcttgtctgt gagcggatgc cgggagctga
     3481 caagcccgtc agggcgcgtc agcaggtttt agcgggtgtc ggggcgcagc cctgacccag
     3541 tcacgtagcg atagcggagt gtatactggc ttaactatgc ggcatcagtg cagattgtac
     3601 tgagagtgca ctatatgcgg tgtgaaatac cgcacagatg cgtaaggaga aaatgccgca
     3661 tcaggcgctc ttccgcttcc tcgctcactg actcgctacg ctcggtcgtt cggctgcggc
     3721 gagcggtatc agctcactca aagactgtaa tgcggttatc cacagaatca ggggataacg
     3781 ccaaaagaaa catgtgagca aaaaacaaga acccggaaaa ggccgcgccg caggcgtttt
     3841 tccataggct ccgcccccct gacgagcatc acaaaaattg acgctcaagt cagaggtggc
     3901 gaaacccgac aggactataa agataccagg cgtttccccc tggaagctcc ctcgtgcgct
     3961 ctcctgttcc tgcctttcgg tgtaccggtg tcattccgct gttatggccg cggtttctca
     4021 ttccacgcct gacactcggc tccgggaagg cagttcgctc caagctggac tgtatgcacg
     4081 aaccccccgt tcagtccgac cgctgcgtct tatccggtaa ctatcaactt gagtccaacc
     4141 cggaaagaca cgactaatcg ccattggcaa cggccactgg taaacaggat gtgcgagaga
     4201 tgtatcgaga gttcttgaag tggcggcctg actacggcta cactgaaagg acagatttgg
     4261 tgacatgtct cgcacaagac cgttaccgcg gttagagaat ctgccaggat taactaacct
     4321 tcgaaaaacc acctgccagg gtggtttttt cgttttcaaa gcaggagatt acgcgcagaa
     4381 aaaaaggatc tcaagaagat cttttctcct ttaggtaggg cttacttcgt caccatataa
     4441 aacatttgca ctagacaaaa aaaatgcaat aatgttggta cagacctgtg gcgtgccgca
     4501 ggcgaagaaa caacccccct gtggcgtgcc gcaggcgaag aaacaaccct cctgtggcga
     4561 gccgcaggca aacaaccctc ctacggcgtg ccgtaggaaa aaaaaccgc
//
