LOCUS       NZ_CP084668             3814 bp    DNA     linear   CON 17-NOV-2023
DEFINITION  UNVERIFIED_ORG: Hafnia paralvei strain FDAARGOS_1502 plasmid
            unnamed4.
ACCESSION   NZ_CP084668
VERSION     NZ_CP084668.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN21218858
            Assembly: GCF_020450285.1
KEYWORDS    UNVERIFIED; UNVERIFIED_ORGANISM; RefSeq.
SOURCE      Hafnia paralvei
  ORGANISM  Hafnia paralvei
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Hafniaceae; Hafnia.
REFERENCE   1  (bases 1 to 3814)
  AUTHORS   Sproer,C., Gronow,S., Severitt,S., Schroder,I., Tallon,L.,
            Sadzewicz,L., Zhao,X., Boylan,J., Ott,S., Bowen,H., Vavikolanu,K.,
            Hazen,T., Aluvathingal,J., Nadendla,S., Lowell,S., Myers,T. and
            Yan,Y.
  TITLE     FDA dAtabase for Regulatory Grade micrObial Sequences (FDA-ARGOS):
            Supporting development and validation of Infectious Disease Dx tests
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 3814)
  AUTHORS   Sproer,C., Gronow,S., Severitt,S., Schroder,I., Tallon,L.,
            Sadzewicz,L., Zhao,X., Boylan,J., Ott,S., Bowen,H., Vavikolanu,K.,
            Hazen,T., Aluvathingal,J., Nadendla,S., Lowell,S., Myers,T. and
            Yan,Y.
  TITLE     Direct Submission
  JOURNAL   Submitted (15-SEP-2021) Center for Devices and Radiological Health,
            US Food and Drug Administration, 10903 New Hampshire Avenue, White
            Oak, MD 20903, USA
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method :: SMRT v. 9.0.0, HGAP v. 4.0, SPAdes v. 3.14.1
            Genome Coverage                   :: 1507.48x
            Sequencing Technology             :: Pacbio; Illumina
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 11/17/2023 08:00:19
            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)                     :: 4,464
            CDSs (total)                      :: 4,343
            Genes (coding)                    :: 4,297
            CDSs (with protein)               :: 4,297
            Genes (RNA)                       :: 121
            rRNAs                             :: 9, 8, 8 (5S, 16S, 23S)
            complete rRNAs                    :: 9, 8, 8 (5S, 16S, 23S)
            tRNAs                             :: 88
            ncRNAs                            :: 8
            Pseudo Genes (total)              :: 46
            CDSs (without protein)            :: 46
            Pseudo Genes (ambiguous residues) :: 0 of 46
            Pseudo Genes (frameshifted)       :: 18 of 46
            Pseudo Genes (incomplete)         :: 31 of 46
            Pseudo Genes (internal stop)      :: 7 of 46
            Pseudo Genes (multiple problems)  :: 8 of 46
            CRISPR Arrays                     :: 1
            ##Genome-Annotation-Data-END##
            GenBank staff is unable to verify source organism provided by the
            submitter.
            REFSEQ INFORMATION: The reference sequence is identical to
            CP084668.1.
            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/
FEATURES             Location/Qualifiers
     source          1..3814
                     /organism="Hafnia paralvei"
                     /mol_type="genomic DNA"
                     /strain="FDAARGOS_1502"
                     /culture_collection="DSM:24119"
                     /db_xref="taxon:546367"
                     /plasmid="unnamed4"
                     /geo_loc_name="Germany: Braunschweig"
                     /collected_by="DSMZ"
     gene            489..1076
                     /locus_tag="LA328_RS22305"
                     /old_locus_tag="LA328_22305"
     CDS             489..1076
                     /locus_tag="LA328_RS22305"
                     /old_locus_tag="LA328_22305"
                     /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_226229147.1"
                     /translation="MIRKIFFASAIVIAISGCTAMDKLAGMGVVSQQTSTFDNSTVIEV
                     SPNSLYDPNSTWGTQLQLGAIWSSAYPEEVGLILSYNSNVSSGNAAYLGLTGIDINVDG
                     KISSYKAQQQTNLASSAYNSVSKTIYTSSKNTVVIPYKLLDSMVSAKNCRIRIHTSQGN
                     QDIDFSAQSIPGGKATAIVSIKEFMVKVESFK"
                     /name="hypothetical protein"
     gene            1086..1583
                     /locus_tag="LA328_RS22310"
                     /old_locus_tag="LA328_22310"
     CDS             1086..1583
                     /locus_tag="LA328_RS22310"
                     /old_locus_tag="LA328_22310"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_019842774.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_064645623.1"
                     /translation="MKKQIFALALLSLPLIVMAKDSGYGNTEWGMTPNQVIAAQKGKAH
                     LIPPQKYKDQWGKASIEDVNIGSGLFTVTFIFDASDKLVQTNVASKEKKNEGIVNDQFN
                     NLNQLLTQKYGKPQFVSNEKVTWKTDATTIELNKMIISGIMAQTLVRYIPNKTVISDTS
                     NL"
                     /name="hypothetical protein"
     gene            1779..1958
                     /locus_tag="LA328_RS22315"
                     /old_locus_tag="LA328_22315"
     CDS             1779..1958
                     /locus_tag="LA328_RS22315"
                     /old_locus_tag="LA328_22315"
                     /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_226229150.1"
                     /translation="MQQGEWHRLSAQIPAESPVLSDLLQRRSIVRPLPLRSFKLQRFLM
                     LRRALLLPVCFNAV"
                     /name="hypothetical protein"
     gene            complement(1961..2170)
                     /locus_tag="LA328_RS22320"
                     /old_locus_tag="LA328_22320"
     CDS             complement(1961..2170)
                     /locus_tag="LA328_RS22320"
                     /old_locus_tag="LA328_22320"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_014538403.1"
                     /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_226229153.1"
                     /translation="MTELEKQLLSALEQLQQDYSKRLDEWENAFAEWRTMSGLMQRENA
                     ALSERVTGLSRQVQTLSEQLRRLS"
                     /name="MbeD family mobilization/exclusion protein"
     gene            complement(2174..2659)
                     /locus_tag="LA328_RS22325"
                     /old_locus_tag="LA328_22325"
     CDS             complement(2174..2659)
                     /locus_tag="LA328_RS22325"
                     /old_locus_tag="LA328_22325"
                     /inference="COORDINATES: protein motif:HMM:NF016710.3"
                     /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_156088374.1"
                     /translation="MNSLLTLAKDLEQKSKAQQQTTGEMLKAAFSEHEKSVRAELSESE
                     KRISAAILDNDRKLSSAMSQRTKGMLRMVSQTWLTIVLVSALLIASSAGILWWQGQQIL
                     DNYMTIREQKSTKAMLSERNSGVQLTTCGEQRRRCVRVNPEGGTFGEDSSWMILAGK"
                     /name="MbeB family mobilization protein"
     gene            complement(<2694..3398)
                     /locus_tag="LA328_RS22410"
                     /old_locus_tag="LA328_22330"
                     /pseudo=""
     CDS             complement(<2694..3398)
                     /locus_tag="LA328_RS22410"
                     /old_locus_tag="LA328_22330"
                     /inference="COORDINATES: protein motif:HMM:NF015397.3"
                     /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(3337..3660)
                     /locus_tag="LA328_RS22335"
                     /old_locus_tag="LA328_22335"
     CDS             complement(3337..3660)
                     /locus_tag="LA328_RS22335"
                     /old_locus_tag="LA328_22335"
                     /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_211271134.1"
                     /translation="MLTMWVTEDEHRRLLERCNGKQLAAWMRQTCLDEKPARAGKLPSI
                     SPALLRQLAGMGNNLNQIARQVNAGGGSGHDRVQVVAALMAIDAGLERLRHAVLEKETD
                     DDR"
                     /name="MobC family plasmid mobilization relaxosome protein"
     Typing          complement(2..140)
                     /name="rep_cluster_2358"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="91.429"
                     /coverage="86.0"
                     /evalue="2.4699999999999998e-46"
     Typing          complement(1852..3347)
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="93.186"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 acgcctgaca ctcagttccg ggtaggcagt tcgctccaag ctggactgta tgcacgaacc
       61 ccccgttcag tccgactacc gcgccatgta aggtaactat cgtcttgagt ccaaccctta
      121 cagacacgtc aaatcgccat tggcggtagc cattggtaag gggtgtacaa gagattactg
      181 acgcggagtt cttgaagtta gaaccaaact acggctaaac tgaaaggacg aatttggtgg
      241 cagcggtctt gtacaccctg ttaccacggt tcagaagttc cccaacttac tgaaccatcg
      301 aaaaaccacc tccccaggtg gttttttcgt ttctgggtca agagattacg actctacccc
      361 gaggatctca agaagatcct tcatctctcc gttcaaaata ctgtttaaaa aagctgtacg
      421 gcttcaagat agtttcagaa atacagtgct atttcacact ctggcaaaca gaccaaaaag
      481 gttaaaaaat gataagaaag attttttttg cttctgcaat cgtaatagcc atttctggct
      541 gtacagcaat ggataaactg gcaggtatgg gtgttgtttc tcagcaaaca tcaacctttg
      601 ataactcgac cgtcatagag gtatctccaa attcactata cgatcctaac agcacttggg
      661 gaacacaact ccagttgggc gcgatatggt ctagtgccta tccagaagaa gttggactaa
      721 ttctttccta caactcgaat gtatctagcg gaaatgccgc atacttaggt ttgacgggga
      781 ttgatataaa tgttgatggc aaaatatcca gctataaagc acagcaacaa actaatctag
      841 ccagcagcgc atataactcc gtatctaaaa cgatctatac ctctagcaag aacactgtcg
      901 ttatcccata taaattgctg gatagcatgg tatcagctaa aaactgccgc attcgcatac
      961 acacaagcca aggaaatcaa gacatcgact tctcggcaca aagtatccct ggaggtaaag
     1021 cgacagcgat cgtttccatt aaagagttca tggtcaaagt cgaaagtttt aaataaggat
     1081 acgttatgaa gaagcagatt tttgcgctcg ctttgctatc actgccactg attgtcatgg
     1141 caaaggattc tggctatggc aataccgaat ggggtatgac cccgaatcag gtcattgcag
     1201 cccagaaagg aaaagctcat ttaatcccac ctcaaaagta taaagatcaa tggggaaaag
     1261 cgagcattga agacgtgaat ataggtagtg gattatttac agttacgttt atttttgacg
     1321 catcagacaa actagttcaa accaacgttg ccagcaaaga aaagaaaaac gagggaatag
     1381 tgaatgatca atttaacaac ttaaatcaat tgcttacgca gaagtatggc aaacctcagt
     1441 ttgtaagtaa tgaaaaagta acatggaaaa ctgatgctac aacaattgag ctaaataaga
     1501 tgataatctc cggaattatg gctcaaacac tagttcgcta cattcctaat aagaccgtga
     1561 tttctgacac gtctaaccta taatatttaa ttgtatgcct cactgagtgt ctccctcctg
     1621 tttctatatc tgggaggggg atttaccata acatctcttg cccgcaccgc ctcagacgcc
     1681 ctcagcgcga tagcagggtc aatccggtaa aacagacagt aaaccatcct gcaaaccgcg
     1741 cattctgcgc ctgataaatt tcaccggatt gcatagccat gcagcagggt gaatggcacc
     1801 ggctttcggc gcagataccc gccgaaagcc ccgttttatc cgatttgtta cagcgacggt
     1861 ccattgtacg tccgctgccg ctgcgatcgt tcaagctcca gcgctttctg atgctgcgcc
     1921 gcgcgctcct gctcccggtg tgcttcaatg ccgtctagtc tcacgacaac cggcgaagct
     1981 gctcgctcaa agtctgcacc tgcctgctca agcccgtgac gcgctcgctc agcgccgcgt
     2041 tctcccgttg cataagacca gacatcgtcc gccattccgc gaaggcgttc tcccactcgt
     2101 ccagcctttt cgagtagtcc tgctgtagct gctctaatgc gctcagcaac tgtttttcca
     2161 gctccgtcat gtgctatttc cccgccagta tcatccagct cgaatcctct ccgaacgtcc
     2221 ccccttccgg gttcaccctc acgcagcggc gtctctgctc tccgcaggtc gtgagctgca
     2281 cgccgctgtt cctctcggac agcatggcct ttgtgctctt ctgctcccgg atggtcatgt
     2341 aattgtcgag tatctgctgc ccctgccacc acagaatgcc cgcgctcgag gcgatcagca
     2401 gcgcggagac cagcacgatg gtcagccacg tctggctgac catgcgcagc atccctttcg
     2461 ttcgctggct catggctgag gacagcttcc ggtcgttgtc gaggatggcg gcgctgattc
     2521 tcttctcgct ttcgctcagt tccgctctga cagacttctc gtgctcgctg aatgcggctt
     2581 tcagcatctc gccggtagtc tgctgctgcg ctttcgattt ctgctctaag tccttcgcca
     2641 gcgttaaaag actgttcata gatggctccc ttcagtcgga tgtttcgccc cccgtccggg
     2701 tcggcaatgc tgatgctgct ttttgtggtg cgcaccacct caaaacctgc actttccaga
     2761 gcctccgtga cgtcctgacg cgttttaagc tccccggatg aggctaagga cagcaaaccc
     2821 cgtgtaatcg cctgagcggc ttcctgcttc gcttccggca gctgggacgg cgtgaccagc
     2881 gcccgccggt tttccggcgc gttcgggtcg tgcagtccca gcctgccgtt cactatggtc
     2941 tgccaggcat cgatgcgcgg acggtcggcg cggtcgtaat acggctggag ccgttttccg
     3001 gtcagaagct ccgtgttcgg taccaggaaa ttaagctcca gacggccctt gtcctggtgc
     3061 tcaacccaca gcacgctgta ctggtcttta tcgagtccgg gcatcagaac ccgctcaaaa
     3121 ctcgccatca gcttttcacg ctggccgggc ggtaagtcct gttcagcaaa cgatagcact
     3181 ccggaggtgt actttttggc gtagggcgag gcgtcgataa gctcccggac ttcttccggc
     3241 ttcccctgca gaacgctggc gccgtcgcgg tgccggtctt ttcccagcag ataatccacc
     3301 ggaccggcac cgccgccgcg ccctcgcggg tgaaacttaa cgatcatcgt ctgtctcctt
     3361 ttccagcacg gcgtgccgca gccgctcgag cccggcatcg atggccatca gcgcggcgac
     3421 aacctgcacg cggtcgtgcc cgctgccgcc accggcgtta acctgccggg caatctggtt
     3481 gaggttgtta cccatgccgg caagctgacg aagcagcgca ggcgagatcg acggaagttt
     3541 gccggcgcgg gcaggcttct cgtccaggca cgtctgccgc atccaggccg cgagctgctt
     3601 accgttgcag cgctccaaca gacgccggtg ctcatcctcg gtaacccaca tcgtgagcat
     3661 cttgctgcgt ttgtctgcca atcctgcctc ctgataacgc cgggacgggc gggaaatctt
     3721 ttcccggtcg gcgcggcgtt ggacaagccg caggcgcgtc agtggctttt agcgggtttc
     3781 ggggcgcagc cctgaaccag tcacgtagcg ctag
//
