LOCUS       NZ_CP137196             4921 bp    DNA     circular CON 31-JAN-2024
DEFINITION  Citrobacter freundii strain F2021 plasmid pF2021-3, complete
            sequence.
ACCESSION   NZ_CP137196
VERSION     NZ_CP137196.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN37934525
            Assembly: GCF_036289185.1
KEYWORDS    RefSeq.
SOURCE      Citrobacter freundii
  ORGANISM  Citrobacter freundii
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Citrobacter; Citrobacter freundii complex.
REFERENCE   1  (bases 1 to 4921)
  AUTHORS   Li,X.
  TITLE     Citrobacter freundii F2021 Genome sequencing and assembly
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 4921)
  AUTHORS   Li,X.
  TITLE     Direct Submission
  JOURNAL   Submitted (24-OCT-2023) Laboratory Medicine Center, Department of
            Clinical Laboratory, Zhejiang Provincial People's Hospital
            (Affiliated People's Hospital, Hangzhou Medical College), Shangtang
            road, Hangzhou 310014, China
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: unicycler v. v0.4.8
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 200.0x
            Sequencing Technology             :: Oxford Nanopore
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 01/31/2024 01:58:24
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 6.6
            Features Annotated                :: Gene; CDS; rRNA; tRNA; ncRNA
            Genes (total)                     :: 5,030
            CDSs (total)                      :: 4,906
            Genes (coding)                    :: 4,809
            CDSs (with protein)               :: 4,809
            Genes (RNA)                       :: 124
            rRNAs                             :: 9, 8, 8 (5S, 16S, 23S)
            complete rRNAs                    :: 9, 8, 8 (5S, 16S, 23S)
            tRNAs                             :: 84
            ncRNAs                            :: 15
            Pseudo Genes (total)              :: 97
            CDSs (without protein)            :: 97
            Pseudo Genes (ambiguous residues) :: 0 of 97
            Pseudo Genes (frameshifted)       :: 28 of 97
            Pseudo Genes (incomplete)         :: 61 of 97
            Pseudo Genes (internal stop)      :: 20 of 97
            Pseudo Genes (multiple problems)  :: 13 of 97
            Pseudo Genes (short protein)      :: 1 of 97
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP137196.1.
            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..4921
                     /organism="Citrobacter freundii"
                     /mol_type="genomic DNA"
                     /strain="F2021"
                     /isolation_source="urine"
                     /host="Homo sapiens"
                     /db_xref="taxon:546"
                     /plasmid="pF2021-3"
                     /geo_loc_name="China: Hangzhou"
                     /lat_lon="29.86 N 121.56 E"
                     /collection_date="2023-03-02"
                     /collected_by="Jiaoyao Yao"
     gene            599..1885
                     /locus_tag="R4T18_RS24510"
                     /old_locus_tag="R4T18_24505"
     CDS             599..1885
                     /locus_tag="R4T18_RS24510"
                     /old_locus_tag="R4T18_24505"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_002437803.1"
                     /GO_process="GO:0006935 - chemotaxis [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="PAS domain-containing methyl-accepting chemotaxis
                     protein"
                     /protein_id="WP_306170312.1"
                     /translation="MFSLNLQRSAISYDAICQNKPVIEFSPEGVINKASPLFLSTMGYR
                     ADEIIGHHHRIFCPPSLVSSPEYSQFWQRLARGESFSGKYLRLAKGNRSVWLEASYIPV
                     SDRRGRVIRVIKIAADISERVHSALEQEAVVNAINRSMAIITFNPEGIVLEANENFVNA
                     TGYKRDEIIGKHHRLFCAETLYKSDEYRHFWESLNQGEFFSGLFPRLNRQGDPLWFRAT
                     YNPVFNSDGQLYKIVKFATDVTADVLRNQREQEAAVHAWDMAVQTRESAQNGANVIENS
                     ILMIDRIAQGMGAVSTDISRLNNQSESIDDMVETIRKFAMQTRLIALNAAIEAARAGAS
                     GRSFAVVAAEVRNLAASVSSATEEIEQVVASNSQLAKDVLCGIENSLMNTREGVTLMRE
                     AGEVMTSIQRNAAGVETAVKDVAISVKAG"
                     /name="PAS domain-containing methyl-accepting chemotaxis
                     protein"
     gene            2892..3215
                     /locus_tag="R4T18_RS24515"
                     /old_locus_tag="R4T18_24510"
     CDS             2892..3215
                     /locus_tag="R4T18_RS24515"
                     /old_locus_tag="R4T18_24510"
                     /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_192798735.1"
                     /translation="MLTMWVTEDEHRRLLERCDGRQLAAWMRQICLDEKPARTGKLPSI
                     SPALLRQLAGMGNNLNQIARRVNAGGGTGHDRVQIVAALMAIDAGLERLRHAVLEKGTD
                     DDR"
                     /name="MobC family plasmid mobilization relaxosome protein"
     gene            3424..>3858
                     /locus_tag="R4T18_RS24520"
                     /old_locus_tag="R4T18_24515"
                     /pseudo=""
     CDS             3424..>3858
                     /locus_tag="R4T18_RS24520"
                     /old_locus_tag="R4T18_24515"
                     /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            3893..4384
                     /locus_tag="R4T18_RS24525"
                     /old_locus_tag="R4T18_24520"
     CDS             3893..4384
                     /locus_tag="R4T18_RS24525"
                     /old_locus_tag="R4T18_24520"
                     /inference="COORDINATES: protein motif:HMM:NF016710.4"
                     /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_047720453.1"
                     /translation="MSSLLTLAKDLEQQSKAQQKSTGEMLKAAFSEHEQSVRAELNASA
                     RRISDAISAHEQSMSEAMEKNRRSVLLTAGRTWLTILMVSALLIATSGSILWWQGQQIT
                     DNYTHLRQQEDTLAKMTARTWGVRYQESSDGRRFLILPPGMQAEAIPYDGTTWIRLKQE
                     "
                     /name="MbeB family mobilization protein"
     gene            4391..4606
                     /locus_tag="R4T18_RS24530"
                     /old_locus_tag="R4T18_24525"
     CDS             4391..4606
                     /locus_tag="R4T18_RS24530"
                     /old_locus_tag="R4T18_24525"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000137422.1"
                     /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_021243037.1"
                     /translation="MTELEKQLLSVLEQLQQDYSQRLDEWESAFAEWRSMCGLMQRENA
                     VLNERVSDLSTQVLSLSEQLRRLSGN"
                     /name="MbeD family mobilization/exclusion protein"
     Typing          2607..2779
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="98.851"
                     /coverage="100.0"
                     /evalue="1.98e-82"
     Typing          complement(2136..2682)
                     /name="rep_cluster_2335"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="94.727"
                     /coverage="90.0"
                     /evalue="0.0"
     Typing          3206..4704
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="90.495"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 tgcatgcatc tggctgcatg actatgcatc agtgtaatat ccagcggctg cgtttttggt
       61 gttttttcgt catgtctgtc gccactttct cgcgtctggc accggaaacg cagccaaccc
      121 cgtttctgcg gtgcgggcaa ggggtgttat gttaaaagcc gaggtctggc ggatacggaa
      181 aaaattatgc ccgcggcaat ccggccgata cttaaattat ccttcacaaa ggatgtgctg
      241 cgatccaggc agttgagtgt tttccggctc ccggatggga gccatttttt tgccttctga
      301 tgcctgttaa tgcatgcgga gctgcgctgg ttcttccaag attgatagac gccagcttct
      361 ctgctggagc cggcggattt gccgtaaata tgaacatttt cttattgttc agcccgctaa
      421 agatggcggg ttttttacgc gtgaaatccg gagccggaca tcatgccggc atggctgaat
      481 agcgggcttt ttcccgccct gtcgcagtaa tatataacgc tacataagga gtagccgata
      541 accatggcag tacttacatt atccgggcaa tctgattcat atgttttcac ttaaaaatat
      601 gttctccctg aacctccagc gatcagccat ttcgtatgac gcaatttgtc agaataagcc
      661 tgtcattgag ttcagtccgg agggggtgat aaataaagcc agcccgcttt ttctctccac
      721 tatggggtac agggctgatg aaataatcgg tcaccaccat cgtatattct gcccgccctc
      781 gctggtaagt tcaccggaat acagccagtt ctggcagcgc cttgccaggg gagaaagctt
      841 tagtggcaag tacctgcggc tggcaaaggg aaatcgttcc gtatggcttg aagccagtta
      901 tatccccgtt tctgacaggc gcggccgtgt tatcagagtc attaaaattg ctgccgatat
      961 ttctgagcgc gtgcattctg ctcttgagca ggaagcagtt gtaaatgcca taaaccgttc
     1021 tatggccatc atcaccttca atcctgaagg gatcgtgctt gaagcaaatg aaaatttcgt
     1081 caatgccact ggctataagc gggatgaaat cataggtaag catcatcgtc tgttctgtgc
     1141 cgagacgctt tacaaaagtg atgaataccg acatttctgg gagagtctga atcaaggtga
     1201 gtttttttct ggtctgtttc cacgccttaa ccgtcaggga gaccctctgt ggttccgtgc
     1261 aacttataac cctgtcttta acagtgatgg gcagctttat aaaattgtga aattcgctac
     1321 agatgttacg gctgatgtcc tgcgaaacca gagagagcaa gaggctgctg tgcatgcatg
     1381 ggatatggcc gtgcagaccc gagaaagtgc gcagaacggt gccaatgtta ttgaaaatag
     1441 catccttatg attgacagaa ttgcgcaggg gatgggggct gtctccaccg atatctcacg
     1501 gctcaacaat cagtctgaaa gtattgacga tatggtggaa accatccgga agtttgccat
     1561 gcagacaaga cttattgcac tgaatgccgc gattgaagca gcaagggctg gcgcatccgg
     1621 aagaagtttt gcggttgttg ccgcagaagt gcgtaatctt gcggcgagcg tcagtagcgc
     1681 gactgaagaa attgagcaag tcgtggccag caatagtcaa ctggccaagg atgttctctg
     1741 tggcattgaa aacagcctga tgaacactcg ggaaggggtt acactcatgc gcgaagcggg
     1801 tgaagttatg accagcattc agaggaatgc tgcaggggtt gagactgcgg ttaaggatgt
     1861 cgccatttca gttaaagccg gataggccat ggtgcatatc cccatatctg tcgaacatca
     1921 cagatgatct tcttgagatc ctttccgttg cgtcgtaatc tcttgctctg aaaacgaaaa
     1981 aaccacccgg caaggtggct ttttcgaagg ttcgcaagag ttgacgctct tttgaaccgc
     2041 ggtaactggc ttggaggagc acagtcacca aaactgtcct ttcagtgtag ccttatcgca
     2101 cccgaaactt caagactctc ctcctctaaa cctgttacca gtggctgctg ccagtggcgc
     2161 tttgtcgtgt ttttccggat tggactcaag ttgatagtta ccggataagg cgcagcggtc
     2221 ggactgaacg gggggttcgt gcatacagtc cagcttggag cgaactgcct tcccggaact
     2281 gagtgtcagg cgtggaatga gacaaacgcg gccataacag cggaatgaca ccggtaaacc
     2341 gaaaggcagg aacaggagag cgcacgaggg agccaccagg gggaaacgcc tggtatcttt
     2401 atagtcctgt cgggtttcgc caccactgat ttgagcgtca gatttcgtga tgcttgtcag
     2461 gggggcggag cctatggaaa aacggcttcg ccgtggcctt atcgcttccc tgttaagctt
     2521 ctttctggca tctcccagga aatttccgcc ccgcctgtaa gccggtaccg ctcgccgcag
     2581 ccgaacgacc gagcgcagcg agtcagtgag cgaggaagcg gaatatatcc tgtatcacat
     2641 attctgctga cgctccgctg ctgcattttt ctcctgccac atgaagcact tcactgatat
     2701 tcgcatccgt gccaatatag taagccagta tacactccgc tagcgctacg tgactggttc
     2761 agggctgcgc cccgaaaccc gccaaaagcc tgacgcgcct gcggcttgtc caaccccgcg
     2821 ccgaccggga aaggctttcc cgcccgtccc ggcgttatca ggaggccggt ttgtcagaga
     2881 aacggagcaa gatgctcacc atgtgggtga cggaggacga gcaccggcgg ctgctcgagc
     2941 gctgtgacgg caggcagctg gcggcgtgga tgcggcagat ctgcctggac gaaaagcctg
     3001 cgcgcaccgg aaagctcccc tcaatctcgc cggcgctgct gcgccagctt gccggcatgg
     3061 ggaataacct gaaccagata gcccgccgtg ttaacgccgg cggcggcacc ggccatgaca
     3121 gggtgcagat tgtggcggcg ctgatggcca tcgatgccgg ccttgagcgg ctgcggcacg
     3181 ccgttcttga gaaaggaacg gacgatgatc gttaaatttc atccgcgcgg ccgcggcggt
     3241 ggcgccgggc cggtggacta tctgctgggt aaagaccggc agcgtgaagg cgccagcgtc
     3301 ctgcagggga agccggaaga agtccgggag ctgattgacg cgtcgcctta cgtgaagaaa
     3361 tacacctccg gcgttctgtc gtttgcggag gccgatctgc ctcccggcca gcgggaaaaa
     3421 ctgatggcca gcttcgagcg ggttctgatg cccggactcg ataaagatca gtacagcatt
     3481 ctgtgggtgg agcacgcgga caaggggcgt ctggagctga actttctgat ccccaatacc
     3541 gagctgctga ccggcaggcg gctccagccg tactacgacc gcgccgaccg gccgcgtatc
     3601 gatgcctggc agaccatcgt gaacggcaga ctggggctgc acgatccgaa cgcgccggaa
     3661 aaccgccggg cgctggtcac gccggccgga ctgccgaaaa cgaagcagga agccgcagaa
     3721 gccatcaccc gtggactgct gagcttagcc tcgtccgggg agctgaaaag ccgtcaggac
     3781 gtcactgagg ctcttgaagg tgcaggtttt gaggtggtgc gtacaacgaa aagcagtatc
     3841 agcattgccg accctgacgg ggggcgaaac atccgactga agggagccat ctatgagcag
     3901 tcttttaacg ctggcgaagg acttagagca gcaatcgaaa gcgcagcaga agagtaccgg
     3961 cgagatgctg aaagccgcat tcagcgagca cgagcagtct gtcagagcgg aactgaacgc
     4021 aagcgcgagg agaatcagcg acgccatcag cgcccacgag cagagtatga gcgaggcgat
     4081 ggagaaaaac cggcggagcg tgttgctgac ggccgggagg acatggctca ccatcctgat
     4141 ggtgtcagcg ctgctgatcg ccacgagcgg gagcattctg tggtggcagg ggcagcagat
     4201 aaccgacaat tacacgcatc ttcgtcagca ggaagatacc ctggcgaaaa tgaccgcccg
     4261 gacgtgggga gtgcgctatc aggagagcag cgacggccgg aggtttctta tcctgccgcc
     4321 ggggatgcaa gccgaagcca tcccctacga cgggacgaca tggatccgcc tgaaacagga
     4381 gtagcggaaa atgacagagc tggaaaagca gttgctgagc gtattagagc agctacagca
     4441 ggactactcg caaaggctgg acgaatggga gagcgccttc gcggaatggc ggagcatgtg
     4501 tggtcttatg caacgggaga acgcggtgct gaacgagcgc gtgtcggact tgagcacgca
     4561 ggtgctgagt ttaagcgagc agctgcgccg cttgtccggg aactgaatgc catcgaggag
     4621 aaggctgcac tggagtatca gcgtcagaac gagctggagc tgacgctccg acagaagcag
     4681 aagagtttcg atggtccgaa gatgaggtga cagcccgcac gaagaagggc tcatcgcgtt
     4741 cctgctaaat aggctgacta ccggaatggt agtgacttat cccggaggaa gtgatgaaaa
     4801 ttctcaacgt tattgaagcc ctgctgaact gtttttacct ggtgatggag ctgtgtgagt
     4861 tgccggagag gcatttgccg gtttttaagg cgttcgcgct gattttagtg tgactttacg
     4921 c
//
