LOCUS       NZ_CP101863             4018 bp    DNA     circular CON 16-AUG-2023
DEFINITION  Escherichia coli strain LP50-1 plasmid pLP50-1-4kb, complete
            sequence.
ACCESSION   NZ_CP101863
VERSION     NZ_CP101863.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN29932434
            Assembly: GCF_024499265.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 4018)
  AUTHORS   Lu,X., Li,R. and Wang,Z.
  TITLE     Widespread prevalence of plasmid-mediated colistin resistance gene
            mcr-1 and transferability in Escherichia coli isolates from Pigeons
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 4018)
  AUTHORS   Lu,X., Li,R. and Wang,Z.
  TITLE     Direct Submission
  JOURNAL   Submitted (25-JUL-2022) Colloege of Veterinary Medicine, Yangzhou
            University, Shuangqiao Street, YangZhou, JiangSu 225000, China
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Unicycler v. 0.4.8
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 100.0x
            Sequencing Technology :: Illumina HiSeq; QitanTech nanopore
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 08/16/2023 04:14:57
            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)                     :: 4,994
            CDSs (total)                      :: 4,877
            Genes (coding)                    :: 4,656
            CDSs (with protein)               :: 4,656
            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)              :: 221
            CDSs (without protein)            :: 221
            Pseudo Genes (ambiguous residues) :: 0 of 221
            Pseudo Genes (frameshifted)       :: 88 of 221
            Pseudo Genes (incomplete)         :: 136 of 221
            Pseudo Genes (internal stop)      :: 54 of 221
            Pseudo Genes (multiple problems)  :: 54 of 221
            Pseudo Genes (short protein)      :: 2 of 221
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP101863.1.
            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..4018
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="LP50-1"
                     /isolation_source="pigeon"
                     /db_xref="taxon:562"
                     /plasmid="pLP50-1-4kb"
                     /geo_loc_name="China: Jiangsu"
                     /lat_lon="32.25 N 119.01 E"
                     /collection_date="2021-06"
                     /collected_by="Xiaoyu Lu"
     gene            368..853
                     /locus_tag="NPX80_RS24860"
                     /old_locus_tag="NPX80_24865"
     CDS             368..853
                     /locus_tag="NPX80_RS24860"
                     /old_locus_tag="NPX80_24865"
                     /inference="COORDINATES: protein motif:HMM:NF016710.2"
                     /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_061390563.1"
                     /translation="MNSLLTLAKDLEQKSKAQQQTTGEMLKAAFSEHEKSVRAELSESE
                     KRISAAILDHDRKLSSAMSQRTKGMLRMISQTWLTIVLVSALLIASSAGILWWQGQQIL
                     DNYTTIQEQKSTQAMLSEKNNGVQLTTCGEERRRCVRVNPEAGRFGEDSSWMILAGK"
                     /name="MbeB family mobilization protein"
     gene            857..1072
                     /locus_tag="NPX80_RS24865"
                     /old_locus_tag="NPX80_24870"
     CDS             857..1072
                     /locus_tag="NPX80_RS24865"
                     /old_locus_tag="NPX80_24870"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000137421.1"
                     /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_072048928.1"
                     /translation="MTELEKQLLSALEQLQQDYSKRLDEWENAFAEWRTMSGLMQRENA
                     ALSERVTGLSRQVQSLSDQLRRLSQG"
                     /name="MbeD family mobilization/exclusion protein"
     gene            1201..1728
                     /locus_tag="NPX80_RS24870"
                     /old_locus_tag="NPX80_24875"
     CDS             1201..1728
                     /locus_tag="NPX80_RS24870"
                     /old_locus_tag="NPX80_24875"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_004883515.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_016246513.1"
                     /translation="MKCFWACSVSVVLAMSFTVAAAENNDNVTYTKPSAGRDLYLTCKG
                     YQVKGASVINVEKPSYLEGTGEQVEFAIITPVGASDGLKVFFDSWGFSSFGLIESHVMH
                     EHWSLVHVGGRASVKGEKIDYSFVDNQPQEGGSYKPKTGVFLYGCMNSDKRPSWVEKIY
                     TRTGVFRGGIED"
                     /name="hypothetical protein"
     gene            1983..2195
                     /locus_tag="NPX80_RS24875"
                     /old_locus_tag="NPX80_24880"
     CDS             1983..2195
                     /locus_tag="NPX80_RS24875"
                     /old_locus_tag="NPX80_24880"
                     /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_034169353.1"
                     /translation="MGDFERTFGAGADFDRIIDENNSEYFREDRRKTKNSKKKFSSFQD
                     ALVWAKANPGKTIIRSPDGVGFIEK"
                     /name="hypothetical protein"
     gene            complement(2624..2737)
                     /locus_tag="NPX80_RS24880"
                     /old_locus_tag="NPX80_24885"
     CDS             complement(2624..2737)
                     /locus_tag="NPX80_RS24880"
                     /old_locus_tag="NPX80_24885"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_007772075.1"
                     /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_072035093.1"
                     /translation="MHEPPVQSDRCALSGNYRLESNPERHDKTPLAAATGN"
                     /name="replication initiation protein"
     gene            3385..3708
                     /locus_tag="NPX80_RS24885"
                     /old_locus_tag="NPX80_24890"
     CDS             3385..3708
                     /locus_tag="NPX80_RS24885"
                     /old_locus_tag="NPX80_24890"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000957083.1"
                     /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_024191642.1"
                     /translation="MLTMWVTEDEHRRLLERCEGKQLAAWMRQICLDEKPSRAGKLPSI
                     SPALLRQLAGMGNNLNQIARQVNAGGGTGHDRVQVVAVLMAIDAGLERLRHAVLEKGAD
                     DDR"
                     /name="MobC family plasmid mobilization relaxosome protein"
     Typing          3095..3272
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="87.222"
                     /coverage="83.0"
                     /evalue="4.5e-50"
     Typing          complement(2625..3145)
                     /name="ColRNAI_rep_cluster_1987"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="89.564"
                     /coverage="99.0"
                     /evalue="0.0"
     Typing          2..1164
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="90.464"
                     /coverage="99.0"
                     /evalue="0.0"
     Typing          3699..4018
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="98.131"
                     /coverage="86.0"
                     /evalue="3.2899999999999996e-60"
ORIGIN
        1 ctgatcccga acacggagct gctgaccggc agacgtctcc agccgtatta cgaccgcgcc
       61 gaccgtccgc gcattgatgc ctggcagacc atagtgaacg gcagactggg gctgcacgac
      121 ccgaacgcgc cggaaaaccg gcgggcgctg gttacaccgt ccgcgctgcc ggaagcgaag
      181 caggaagccg cccaggcgat tacgcgcggc ctactttccc ttgcctcatc cggggagctg
      241 aaaacccgtc aggacgtcac tgaggcgctg gaaagtgcgg gttttgaggt ggtgcgcacc
      301 acgaaaagca gcatcagcat tgccgaccct gacggggggc gaaacatccg actgaaggga
      361 gccatctatg aacagtcttt taacgctggc gaaggactta gagcagaaat cgaaagcgca
      421 gcagcagact accggcgaga tgctgaaagc cgcattcagc gagcacgaga agtctgtcag
      481 agcggaactg agcgaaagcg agaagagaat cagcgccgcc atcctcgacc acgaccggaa
      541 gctgtcctca gccatgagcc aacgcacgaa agggatgctg cgtatgatca gccagacgtg
      601 gctgaccata gtcctggtct ccgcgctact gatcgcctcg agcgcgggca ttctgtggtg
      661 gcaggggcaa cagatactcg acaactacac gaccatccag gaacagaaga gcacgcaggc
      721 catgctttca gagaagaaca acggcgtcca gctcacgacc tgcggggagg agagacgccg
      781 ctgcgtgagg gtgaacccgg aagcgggaag attcggagag gattcgagct ggatgatact
      841 ggcggggaaa tagcacatga cggaactgga aaaacagttg ctgagcgcat tagagcagct
      901 acagcaggac tactcgaaaa ggctggacga gtgggagaac gccttcgcgg aatggcggac
      961 gatgtctggg cttatgcaac gggagaacgc ggcgctgagc gagcgcgtca cgggcttgag
     1021 caggcaggtg cagagtttga gcgatcagct gcgccgattg tcgcaaggct gaatggcatc
     1081 gaggcgcacc gggagcagga gcgcgcggcg cagcaccaga aagcgctgga gctggaacga
     1141 tcgcagcggc agaaaggttt tgagcttgga atgtagttaa tcaatgaaaa gggatgcgtt
     1201 atgaaatgtt tctgggcttg ctcagtctcg gtggttttgg ctatgtcatt tacagtcgct
     1261 gctgcggaga ataacgacaa cgttacatat acaaaaccgt cagccgggag ggacttatat
     1321 cttacctgta aaggttatca ggtgaagggg gcatctgtaa ttaacgtcga gaaaccttct
     1381 taccttgaag gtactggtga gcaggttgaa tttgcaatca ttactcctgt tggtgcgtct
     1441 gacggactca aggtcttttt tgattcatgg ggtttttctt catttggatt gattgaaagc
     1501 catgtgatgc atgagcactg gtctttagtt catgttgggg ggcgtgcttc agtcaaaggt
     1561 gaaaagattg attattcatt tgtagataac cagccacagg agggggggag ctataaaccc
     1621 aaaacaggtg tgttcctgta cggctgcatg aactcggata aaagaccatc ttgggtcgaa
     1681 aagatctaca caagaacagg tgtgtttcga gggggcatag aagactaaaa tactgcttac
     1741 agcatgaaaa tccattgaac agagtgtcag ttcatttccg tgcataacta tgcataccgt
     1801 aagaacttac ggggggcatt tatcggcgtt tttacgtggt aagaggtgct cttttgcggt
     1861 tcatggcgca gaacggtgct gaggctgtct gcggcggtgc gaacaaggga tgttatggta
     1921 aataagagtg tcttttggat attttaaatc tgttttttta ttaaatttaa tgggggcaga
     1981 aaatggggga ttttgagcgt acctttggag ctggtgctga ttttgatcgg ataattgatg
     2041 agaataacag cgaatatttt cgagaagatc gccgaaaaac taaaaattca aaaaaaaaat
     2101 tctcttcttt tcaagatgct ttggtttggg cgaaagctaa tcctggcaaa acgataataa
     2161 gatctccaga cggtgtgggg tttattgaaa aatgaaagag tggattcact gtaaaacaac
     2221 agtcattttt tggacaacac tgtctatata cgtactcata tgtttcacag tgtcgtatgt
     2281 tggagtctat gttacgtacg ttgcagggcc tattttgtta gttacaggca ttcttgcatg
     2341 gcttacgaaa cctagctgta atccaaagtg actgggctag acgaacttta tccccccata
     2401 aaacccgctt ttttaaacgg atcttcttga gatcattcat ggagaatcgt aatctcttag
     2461 cactgtaaac gaaaaaaccg cccagcaagg cggttttttc gaaggttctc agagcagcaa
     2521 ctctttgaac cgaggtaact ggcttggagg agcacagtca ccaaaacttg tcctttcagt
     2581 ttagccttaa ccggcgcata acttcaagac taactcctct aaatcagtta ccagtggctg
     2641 ctgccagtgg cgttttgtcg tgtctttccg ggttggactc aagtcgatag ttaccggata
     2701 aggcgcagcg gtcggactga acggggggtt cgtgcataca gtccagcttg gagcgaactg
     2761 cctacccgga actgagtgtc aggcgtggaa ttagataaac gcggccataa cagcggaatg
     2821 acaccggtaa accgaaaggc aggaacagga gagcgcacga gggagctacc agggggaaac
     2881 gcctgggatc tttatagtcc tgtcgggttt cgccaccact gatttgagcg tcagatttcg
     2941 tgatgcttgt caggggggcg gagcctatgg aaaaacggca acgccgcatc ctttttccgc
     3001 cctttctgat tgatttccgc ttagtctctt tatccagcca ttcgtaagct ggcaacgccc
     3061 gccgcagtct cacggcagga gcgcagcgac cgagtgagcg aggaggcgtc atttcaccgg
     3121 gatctgcatt tcgcacttac gccccacagc agcattttct ccctgccaca tgaagcactt
     3181 tcctgaatcc ccactccgat ttaccatgtt aagccagtat acactccgct agcgctacgt
     3241 gactggttca gggctgcgcc ccgaaacccg ctgaaaagta ctgccgcgcc ctgcgggctt
     3301 gcccaacacc gctccggaca ggaaaaaatt tcccgcccga accggtgtta tccggaggat
     3361 ggtttggcag aaaagcgcaa caaaatgctc actatgtggg tgacagaaga cgagcaccgc
     3421 cgacttctgg agcgctgtga gggtaaacaa ctcgcggcct ggatgcgcca gatatgcctg
     3481 gacgaaaagc cctcgcgtgc tggcaaactt ccatccatct cgccggcgct gcttcgtcag
     3541 cttgccggca tgggtaacaa cctcaaccag attgcccggc aggttaacgc cggtggcggt
     3601 actgggcacg atcgcgtgca ggttgtcgcc gtgctgatgg ccattgatgc cggactcgag
     3661 cggctgcggc acgccgtgct ggaaaagggg gcagacgatg atcgttaagt ttcatcccag
     3721 aggccgcggc ggtggcggcg gtccggtgga ttatctgctg gggaaagacc ggcagcgcga
     3781 cggcgccagc gttctgcagg gtaagccgga ggaagtgcgg gagcttattg acgcctcgcc
     3841 ttacgccaag aaatacacct ccggcgtgct gtcttttgcc gaacaggatt tgccgcccgg
     3901 ccagcgtgaa aagctgatgg cgagctttga gcgggttctg atgcccggac tcgataaaga
     3961 ccagtacagc gtactgtggg ttgagcaccg ggacaaaggg cggctggagc tgaacttc
//
