LOCUS       NZ_CP124381             4072 bp    DNA     circular CON 07-JUN-2024
DEFINITION  Escherichia coli strain AVS0578 plasmid pAVS0578-G, complete
            sequence.
ACCESSION   NZ_CP124381
VERSION     NZ_CP124381.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN34360983
            Assembly: GCF_029990415.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 4072)
  AUTHORS   Biggel,M.
  TITLE     Genomic characteristics of ESBL-producing Escherichia coli ST131
            isolated from the water ecosystem in a defined region in Switzerland
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 4072)
  AUTHORS   Biggel,M.
  TITLE     Direct Submission
  JOURNAL   Submitted (26-APR-2023) Institute for Food Safety and Hygiene,
            University of Zurich, Winterthurerstrasse 272, Zurich 8057,
            Switzerland
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Unicycler v. 0.5.0
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 100x, 100x
            Sequencing Technology :: Illumina MiniSeq, Oxford Nanopore
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_029990415.1-RS_2024_06_07
            Annotation Date                   :: 06/07/2024 03:37:34
            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)                     :: 5,439
            CDSs (total)                      :: 5,325
            Genes (coding)                    :: 5,097
            CDSs (with protein)               :: 5,097
            Genes (RNA)                       :: 114
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 87
            ncRNAs                            :: 5
            Pseudo Genes (total)              :: 228
            CDSs (without protein)            :: 228
            Pseudo Genes (ambiguous residues) :: 0 of 228
            Pseudo Genes (frameshifted)       :: 81 of 228
            Pseudo Genes (incomplete)         :: 162 of 228
            Pseudo Genes (internal stop)      :: 38 of 228
            Pseudo Genes (multiple problems)  :: 47 of 228
            Pseudo Genes (short protein)      :: 1 of 228
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP124381.1.
            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="AVS0578"
                     /isolation_source="environmental: river/lake"
                     /db_xref="taxon:562"
                     /plasmid="pAVS0578-G"
                     /geo_loc_name="Switzerland: Kanton Zug"
                     /collection_date="2021-07-07"
                     /collected_by="Amt fuer Verbraucherschutz, Kanton Zug"
     gene            complement(430..684)
                     /gene="mobC"
                     /locus_tag="QJP97_RS27095"
                     /old_locus_tag="QJP97_27090"
     CDS             complement(430..684)
                     /gene="mobC"
                     /locus_tag="QJP97_RS27095"
                     /old_locus_tag="QJP97_27090"
                     /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            863..3010
                     /gene="mobQ"
                     /locus_tag="QJP97_RS27100"
                     /old_locus_tag="QJP97_27095"
     CDS             863..3010
                     /gene="mobQ"
                     /locus_tag="QJP97_RS27100"
                     /old_locus_tag="QJP97_27095"
                     /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_032495499.1"
                     /translation="MAIYHLSMKIISRSSGYSAVASAAYRSGSLMLDERTGLTHDYTRK
                     SGVAEAVILTPATAPAWCTNRAELWNAVEKAERRKNSQLAREIELAIPHELPQDAARET
                     VLAFVRENFVSQGMIADVAFHHMDKTNPHAHIMLTTRAIGPAGFSGKVRDWNDRTHAET
                     WRASWADHANRALANAGYQEEIDHRSYERQGLEKTPGIHLGKSACAMETRGIETERGEQ
                     NRLINRLNLEIQISRTELRNGGLTEPARRVADLLNIGLPDNATSYTLRDIIEALPKDSN
                     SAWKLTSNAMSMMADMQATRRRWEELNTERKEAMSHAASLKKSSPFSSGFSRIPLMQWA
                     APEYRSEQGKIQSLSQQMEKLRQHYRKVEKQDIPASQMAFEKQWQQWGKSGLAALRAQL
                     LKREEELRRKEQEDTERSRAEQLRKNDNAVMDSGVLRAVVTGYGEAPMPGNGEMTCYLL
                     LHNRNGEYTLWGNELEKYRTRIFESVDLMRDRSGYICDRSEIGQRPPLQRVYSSATFEQ
                     LLTQVCQTWPQHTRNLRQPKTWPESFCLGEDRQPAMPSPAARKVDFMQGRLPPTLMPVM
                     SSVDRETRQLQLLLVMGVDDSLGGVIRLNGTLYPAFAVPSADNRHLVISALTDKGLRYA
                     GYGVAVNHDADSHISPAPELMQFHLKTREAPLFAAVNTPEKQPDHLFRSLGFNRTWEEW
                     QREEDARTHTTERRHDRGWSQ"
                     /name="mobQ"
     gene            complement(3268..3969)
                     /locus_tag="QJP97_RS27105"
                     /old_locus_tag="QJP97_27100"
     CDS             complement(3268..3969)
                     /locus_tag="QJP97_RS27105"
                     /old_locus_tag="QJP97_27100"
                     /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_001281395.1"
                     /translation="MSDLIAYKSNALIEASYKLTLQEQRFLLVCISRLKSGEDSPSPDE
                     QKTMTITAAEFHDAFPDMGRQHAEARLKEAIDRLWDRSVIIKNEEKREEFRWVQYRAQY
                     FKGEAKVDITFSDAIMPYLTQLKGQFTRVVVKNVSSLSSTYSIRIYELLQQFRSTGDRT
                     IAIDDFRTMLAVEDKYQQFKDLNKMIIKPAIAELNEKSDLVVTVETIKKGRTVVALHFR
                     FKEDKQIKMTI"
                     /name="replication initiation protein"
     Typing          complement(686..862)
                     /name="MOBQ"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="5.61e-88"
     Typing          863..1221
                     /name="MOBQ"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          complement(3269..3969)
                     /name="rep_cluster_1778"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          777..3007
                     /name="MOBQ"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="95.989"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 ccaaaagctc cacctttcac ccccaaaagc tccacctttc acccccaaaa gctccacctt
       61 tcacccccaa aagctccact tatcttgcca gaacatcttt aaaatcatgg tgttacaaga
      121 cctaaaaagg ttttaaaaaa aagatctaaa aataagatct taaaaactta acggcgagcc
      181 tgtggataac ttggggtgct gaaaacaaaa aaccaataaa aacaatgcgt tgcaataaag
      241 cagaattgca agtttcgaat acaccccctc caaccctgtg gaaacccagt attcatgcgg
      301 gttcagcgca tatcacctgc cgaaaaaccg tgcgtatgtg ctcaacctgg cgactgattc
      361 acttccgctt cctcgcccac tcgctcgcta acgctcggtc gctggggctg cggcgagcgg
      421 acgatacaat cactgttctg gcagcgcctc cagctcgtta atcagcggca gtatgcgcgt
      481 cacatcagcc tgtcgtgtca cctctgcctt caggaactgg agtaaccagg cacgcaactg
      541 cacctcctcc ggctttctga cctttgccag caatgcagca cccacaacaa ccttctgcgc
      601 tgtgtccagg ctccggctct tcgccttcag gcgctgtaat ctcgcctcag catcagcaat
      661 cttctgttcg agcgttctgc tcatgatgta actccgtgcg cgatgaaaaa tcgcatttta
      721 gcgcgtcact ggtagtttaa aaactgagct ggcataatgc acggcaaatc acgaagtgcg
      781 cacttataca atctccactc cgtttcgatt gtgtgcgccc tgcggggctg aaagaaaact
      841 acaaaaaggc attacggcag aaatggcgat ttatcatctc agcatgaaaa ttatctccag
      901 aagcagcggc tacagcgccg tagcttccgc tgcctatcgt tccggttcac tgatgcttga
      961 tgagcgtacc ggactgactc acgactacac ccgcaaaagc ggtgtggctg aggctgtgat
     1021 tctgaccccc gccaccgccc ctgcctggtg tacgaaccgt gccgaactct ggaatgccgt
     1081 tgagaaggcc gaacgccgga agaactcaca acttgcgcgg gaaattgaac tcgccatccc
     1141 ccacgaactg ccgcaggatg ccgcacggga aaccgttctc gcctttgtca gagaaaactt
     1201 tgtcagtcag ggcatgattg ctgatgtggc gttccatcac atggataaaa caaatcccca
     1261 tgcgcacatc atgctgacca cgagggctat cggacctgct gggttcagcg gaaaggtcag
     1321 ggactggaac gaccggacac atgccgagac gtggcgggca tcatgggctg accatgcaaa
     1381 cagggcactg gcgaacgccg gttatcagga agagatagac catcgttcat acgagcgaca
     1441 ggggcttgag aaaacgcctg gtattcacct cggaaagtct gcctgtgcga tggaaacacg
     1501 cggtatcgaa acagaacgcg gcgaacagaa tcgtctgatt aacaggctta acctggaaat
     1561 acagatttcc cgcaccgaac tcaggaacgg agggctgaca gagcctgccc gccgtgtggc
     1621 tgaccttctg aatatcgggc ttcctgacaa cgcaacttcg tacacactac gtgacattat
     1681 cgaagcgttg ccgaaggaca gtaactcggc atggaaactc accagtaatg ccatgtcgat
     1741 gatggcagat atgcaggcga cgcgcagacg ctgggaagag ctgaacaccg aacgaaagga
     1801 agcgatgagc catgctgcca gcctgaaaaa atcatcgccg ttttcgtccg gtttttcccg
     1861 tattcccctg atgcaatggg cggcaccgga ataccgtagt gagcagggaa aaatccagtc
     1921 tctgagccag caaatggaaa aattacgaca gcattaccgg aaggtggaga aacaggacat
     1981 tcccgcgagt cagatggcat ttgaaaaaca gtggcagcag tgggggaaat ccggccttgc
     2041 agctctcaga gcccagttgc ttaaacgtga agaggaattg cgccggaagg aacaggaaga
     2101 tactgaacgt agtcgcgcgg agcagctcag gaaaaatgac aatgccgtta tggattcagg
     2161 ggtgctgaga gcagtcgtta cggggtatgg cgaggctccc atgcctggta acggggaaat
     2221 gacctgttac cttctgcttc acaaccggaa cggagaatat acgctctggg ggaacgagct
     2281 ggagaaatac cgcaccagaa tctttgagag tgttgattta atgcgtgaca ggagtggtta
     2341 tatctgtgac cgaagcgaaa tcggccaacg tccgccactg caacgtgttt attcctctgc
     2401 aacctttgag caactgctga cgcaggtttg ccagacatgg ccgcaacata cccgcaatct
     2461 ccgccagccg aagacatggc cggagtcttt ctgtcttgga gaagaccgcc agccagccat
     2521 gccatcacca gcggcaagga aggtggattt tatgcaggga cgtctgccac cgacgctgat
     2581 gccggtcatg agttctgtcg accgggaaac ccgccagctt cagcttttgc tggtcatggg
     2641 cgtggatgac tctctgggcg gtgttatccg gcttaatggt acgctgtatc ccgcgtttgc
     2701 cgttccctca gccgataaca ggcatctggt catcagtgcg ctgaccgata aggggttacg
     2761 gtatgcaggg tatggtgttg ccgtaaatca cgatgcagac agccacatat cacctgcacc
     2821 agaactgatg cagtttcatc tgaaaacccg tgaggcaccg ctttttgctg ccgtcaacac
     2881 accagaaaaa cagccggatc atctgttccg ctcgctgggt tttaatcgta cctgggagga
     2941 atggcagcgc gaggaagatg cacgaacaca caccaccgag aggagacatg atcgcggttg
     3001 gtcacagtga atgtgaacaa tattttgttt tgtttaacat cgtgttatgt tcgtcgatgt
     3061 tcttcgatgt tcatcgacag ggatgaatgc aagaagcaca ctcacataac gcaagcatag
     3121 ttttgttttt ccgcccccaa aaattggggg gtcttttttc gctgcatcag agcgtttttg
     3181 acgcaatttt tcacttcaat agtaccttcg cactactaac acaaaaaaaa cgcagcaggg
     3241 agcgttttag gtgccttaaa atcgatttta gatcgtcatc ttgatctgtt tgtcttcctt
     3301 gaagcgaaaa tgcagggcta caaccgtgcg cccctttttg atcgtctcaa cagttacaac
     3361 cagatcgctt ttttcgttca gttcggcgat ggctggcttg attatcatct tattcaagtc
     3421 tttgaattgt tgatatttat cttcaacggc aagcatggtt cggaaatcat cgatagctat
     3481 cgttctgtca ccggtgctgc ggaactgctg gagcagctcg taaatgcgga tgctgtaggt
     3541 gctggaaagg ctggagacgt tcttcacgac tacccgcgta aactgcccct tgagctgtgt
     3601 cagatacggc atgatggcat cggagaaggt gatatctact ttcgcctcac ctttgaaata
     3661 ctgcgcccgg tactgcaccc agcggaactc ttctcgtttt tcctcgttct tgatgattac
     3721 tgacctgtcc cagaggcgat ctatcgcttc cttgagccta gcttcagcgt gctgccgtcc
     3781 catgtcagga aaggcatcat gaaactctgc agccgtgatg gtcatggttt tttgttcatc
     3841 cggcgaaggg gaatcttctc cggattttag gcggctgata cagaccagca ggaagcgctg
     3901 ttcctgcaaa gtgagcttgt agcttgcctc gataagggcg tttgatttgt aagctatcag
     3961 atctgacatt tcgcttgctc gttgctattg gtggcgtttt tttactgtac gccacttatc
     4021 atatgggtgg aagttttttt tttgcaaccc cctttttctg tggattacac cc
//
