LOCUS       NZ_OW968015             3205 bp    DNA     circular CON 19-JUN-2024
DEFINITION  Escherichia coli isolate 58 plasmid P4, complete sequence.
ACCESSION   NZ_OW968015
VERSION     NZ_OW968015.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMEA8065752
            Assembly: GCF_905332395.2
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1
  AUTHORS   Alioto,T., Alioto,T. and Gomez Garrido,J.
  TITLE     Direct Submission
  JOURNAL   Submitted (18-MAY-2022) CNAG-CRG, CNAG, Spain
COMMENT     ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_905332395.2-RS_2024_06_19
            Annotation Date                   :: 06/19/2024 11:24:06
            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)                     :: 4,874
            CDSs (total)                      :: 4,756
            Genes (coding)                    :: 4,561
            CDSs (with protein)               :: 4,561
            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)              :: 195
            CDSs (without protein)            :: 195
            Pseudo Genes (ambiguous residues) :: 0 of 195
            Pseudo Genes (frameshifted)       :: 76 of 195
            Pseudo Genes (incomplete)         :: 122 of 195
            Pseudo Genes (internal stop)      :: 55 of 195
            Pseudo Genes (multiple problems)  :: 49 of 195
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            OW968015.1.
            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..3205
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /isolate="58"
                     /isolation_source="Hospital Universitario Ramon y Cajal
                     (Madrid)"
                     /host="Homo sapiens"
                     /db_xref="taxon:562"
                     /plasmid="P4"
                     /geo_loc_name="Spain"
                     /collection_date="2018"
     gene            425..673
                     /locus_tag="LQ149_RS24265"
                     /old_locus_tag="AI2894V1_4679"
     CDS             425..673
                     /locus_tag="LQ149_RS24265"
                     /old_locus_tag="AI2894V1_4679"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_017096688.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_029793011.1"
                     /translation="MKNVRMQFDLPEDRLDELDSLMKKCGISTKKELFNYALTMLEWAV
                     DESESGHEIAAIDRDSKQFYALRMPILKRVNRTSTAN"
                     /name="hypothetical protein"
     gene            747..1118
                     /locus_tag="LQ149_RS24270"
                     /old_locus_tag="AI2894V1_4680"
     CDS             747..1118
                     /locus_tag="LQ149_RS24270"
                     /old_locus_tag="AI2894V1_4680"
                     /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_064996074.1"
                     /translation="MSDSLDGFTEGDTQKEKQKVKQPKPFFNDVEESADRRHLRWTKSG
                     VTLAMTILVAVMNWMVISMLYHVLDEELSLIRSGFMRADERTVTTSVYLALIAGTVAEV
                     SALFLIIVKSVFKNNNNDI"
                     /name="hypothetical protein"
     gene            complement(1367..1480)
                     /locus_tag="LQ149_RS24275"
     CDS             complement(1367..1480)
                     /locus_tag="LQ149_RS24275"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_005761324.1"
                     /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_071940873.1"
                     /translation="MHEPPVQPDRCALSGNYRLESNPVRHDLSPQAAATGN"
                     /name="replication initiation protein"
     gene            1780..1998
                     /locus_tag="LQ149_RS24470"
     CDS             1780..1998
                     /locus_tag="LQ149_RS24470"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001441803.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_071940875.1"
                     /translation="MFFPALSPDSVDNCITAFECAGTARRSRTTERSESVSEEAEECRK
                     LHFLLTHLCGISHRLWCTFHTIRTDAA"
                     /name="hypothetical protein"
     gene            complement(2145..2339)
                     /locus_tag="LQ149_RS24280"
                     /old_locus_tag="AI2894V1_4681"
     CDS             complement(2145..2339)
                     /locus_tag="LQ149_RS24280"
                     /old_locus_tag="AI2894V1_4681"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001041627.1"
                     /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_052923731.1"
                     /translation="MNKQQQTALNMARFIKSQSLALLEKLDALDADEQAAMCERLHELA
                     EELQNSIQVRFEAESETGT"
                     /name="Rop family plasmid primer RNA-binding protein"
     Typing          1978..2062
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="3.03e-37"
     Typing          2377..2474
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="97.98"
                     /coverage="99.0"
                     /evalue="4.84e-41"
     Typing          2599..2854
                     /name="MOBF"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="96.124"
                     /coverage="89.0"
                     /evalue="5.65e-115"
     Typing          complement(1409..1952)
                     /name="rep_cluster_2350"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="94.872"
                     /coverage="99.0"
                     /evalue="0.0"
ORIGIN
        1 aggaggtgtt taggtgtaat atacaatctg gaacccatca cggtgggtgg tgggtaaact
       61 ggagatttta tctgtgagca agttaactca aacctgctcg tcgacctccg ggaaaagtga
      121 ggactgtacc gactttgaag aactgcctcc taaggagctt tctttgaagg attggttttc
      181 agtctttact gaggtcgatg agtaataacc accatggagg agtattcaca acctcctcca
      241 tggtggggat aacctgcttg cggaaaaaga gataaggtta agtcttatct aaattaggag
      301 catcataaaa atatgaaact taaattattt ataagtagat atatataaat aatacaggcc
      361 ctaatagtga agaatgtgca gcatagagtg taaggatgac atgctggccc ctcggagatt
      421 agttatgaaa aatgtacgta tgcaattcga tctgcctgaa gataggttgg acgaactcga
      481 ttctttaatg aagaagtgcg gcataagtac taaaaaagag ttgttcaact acgcgttaac
      541 aatgcttgag tgggctgtgg acgagtccga aagtggtcac gaaatcgcag ctatcgatag
      601 agacagtaag caattttatg ctctacgaat gcctattctt aagcgagtga accgtacatc
      661 tactgcaaat taacttatca cttgatgtgt taaggagaag gccagtttaa gctggccttc
      721 ttttttttat tcaagaggat ttgattgtgt cagacagcct ggatgggttt actgagggcg
      781 atacccaaaa agaaaaacaa aaggtaaagc agcccaaacc gttctttaat gacgtcgagg
      841 agtctgctga tagaagacat cttagatgga ctaaaagtgg tgttacttta gctatgacta
      901 ttttggtcgc agtaatgaac tggatggtca taagtatgtt atatcatgtt cttgatgaag
      961 aactttcgct cataagaagt ggctttatgc gggcggatga aaggacggta actactagtg
     1021 tttacttggc tttgattgca ggaacagtag cagaggtgtc agctttattc ttgattattg
     1081 taaagtcagt ttttaagaat aataacaatg atatatagat ttaacttcgg ccacctctgg
     1141 tgaagttacg catgtatttg gtcaatctat cttgagatca ctctaatcaa aatgtaatct
     1201 cttgaggttg aaacgaaaaa accgccttgg cgggcggttt tttcgaaggt tctaagagtt
     1261 ggcgctcttt gaaccaaggt cactggcttg gaggagcaca gtcaccaaat ctgttctttc
     1321 agtttagcct taacaggcgc atgacttcaa gacaaactcc tctaaatcag ttaccagtgg
     1381 ctgctgcctg tggcgataag tcgtgtctta ccgggttgga ctcaagacga tagttaccgg
     1441 ataaggcgca gcggtcgggc tgaacggggg gttcgtgcac acagcccagc ttggagcgaa
     1501 cgacctacac cgaactgaga taccaacagc gtgagctatg agaaagcgcc acgcttcccg
     1561 aagggagaaa ggcggacagg tatccggtaa gcggcagggt cggaacagga gagcgcacga
     1621 gggagcttcc agggggaaac gcctggtatc tttatagtcc tgtcgggttt cgccacctct
     1681 gacttgagcg tcgatttttg tgatgctcgt caggggggcg gagcctatgg aaaaacgcca
     1741 gcggcgcggc ctttcgttgg cctttgcctt tttgctcaca tgttctttcc ggccttatcc
     1801 cctgattctg tggataactg tattaccgcc tttgagtgtg ccggcaccgc tcgccgcagc
     1861 cgaacgactg agcgtagcga gtcagtgagc gaggaagcgg aagagtgtcg gaagttgcat
     1921 tttctcctta cgcatctgtg cggcatttca catcggctat ggtgcacttt tcatacaatc
     1981 cgcactgatg ccgcatagtt aagccagtat acactccgct atcgctacgt gactgggtca
     2041 tggctgcgcc ccgacacccg ctaaaacccc ctgacgcgcc ctgacgggct tgtctgctgc
     2101 cgaaaacgct cgcggacaag ccgtgagcgc ctccgtcagc ttcgttatgt tcctgtttca
     2161 ctttcggcct caaagcgaac ctggatgctg ttctggagtt cttccgcgag ttcgtgcagt
     2221 cgttcgcaca tggccgcctg ttcgtcggca tccagagcat ccagtttttc aagcagtgcc
     2281 aggctctggc ttttgataaa tcgcgccata ttcagcgcag tttgttgctg tttgttcacc
     2341 ttccgttgtt ctccgtcagt accgggtgtc gggtagaccc tgacccggtg gtaattgtaa
     2401 gacgttgcgg gcgacggtat tacaattgca catcctgtcc tgtttcttta ggacgtatca
     2461 tggcacagca tatcaactga taaataatcc ctgtgcagtg cagccgctgt tgcataaaat
     2521 ttcgctctgc gtcgagtgtt tcttaatcaa taattccgct gatactccgg aaaaacgcga
     2581 gtctgttctc atgcctgaaa tgcccacacc ccacgcaaaa acaatttttt gctgattttt
     2641 ctttataaat agagagttat gacaaattag ttcttcttgc tctctttgtg atatttaaaa
     2701 aagcggtgtc ggcgcggtgt tgtagctgcg ccaacaccgc tttttagggg tggtactgac
     2761 tattttcata aaaaacatca tcttatatta ggggtgctgc tagcggcgcg gtgtgttttt
     2821 ttacaggacg cccctggggg cgctgctagg ggtgtctgtt cagatatgta gcaatgagtc
     2881 agggattcac gaactgaaaa tgtccgaaaa tgtgtctcat gggcactgta tgcgcccaaa
     2941 ccgatcgcca ttcactttca tgcatagcta tgcagtgagc cgaaagcgat cctgacgcat
     3001 ttttccggtt ttcactgggt gaaacatctc tttttgcggt gtttgcggca gaatcgcgtt
     3061 cagcgcgttt tagcggtgcg cgtaatgcga cgttatggta aatgaggttg agatttggct
     3121 gattgtctca tcctgttaca actggtgttg tatttttgac cgctatcgtt ctatactcgt
     3181 tttgtgctcc tgttacactc gacaa
//
