LOCUS       NZ_CP104308             3003 bp    DNA     circular CON 01-OCT-2023
DEFINITION  Flavobacterium sp. TR2 plasmid pTR2, complete sequence.
ACCESSION   NZ_CP104308
VERSION     NZ_CP104308.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN30697779
            Assembly: GCF_025252405.1
KEYWORDS    RefSeq.
SOURCE      Flavobacterium sp. TR2
  ORGANISM  Flavobacterium sp. TR2
            Bacteria; Bacteroidota; Flavobacteriia; Flavobacteriales;
            Flavobacteriaceae; Flavobacterium.
REFERENCE   1  (bases 1 to 3003)
  AUTHORS   Huang,Y.
  TITLE     Bacterial diversity in gut of crayfish and pufferfish
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 3003)
  AUTHORS   Huang,Y.
  TITLE     Direct Submission
  JOURNAL   Submitted (07-SEP-2022) College of Oceanography, Hohai University, 1
            Xikang Road, Nanjing, Jiangsu 210098, China
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: unicycler v. 0.4.8
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 100x
            Sequencing Technology :: Illumina NovaSeq; Oxford Nanopore MinION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 10/01/2023 04:17:16
            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)                     :: 4,359
            CDSs (total)                      :: 4,275
            Genes (coding)                    :: 4,264
            CDSs (with protein)               :: 4,264
            Genes (RNA)                       :: 84
            rRNAs                             :: 6, 6, 6 (5S, 16S, 23S)
            complete rRNAs                    :: 6, 6, 6 (5S, 16S, 23S)
            tRNAs                             :: 63
            ncRNAs                            :: 3
            Pseudo Genes (total)              :: 11
            CDSs (without protein)            :: 11
            Pseudo Genes (ambiguous residues) :: 0 of 11
            Pseudo Genes (frameshifted)       :: 3 of 11
            Pseudo Genes (incomplete)         :: 10 of 11
            Pseudo Genes (internal stop)      :: 0 of 11
            Pseudo Genes (multiple problems)  :: 2 of 11
            CRISPR Arrays                     :: 1
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP104308.1.
            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..3003
                     /organism="Flavobacterium sp. TR2"
                     /mol_type="genomic DNA"
                     /strain="TR2"
                     /isolation_source="gut"
                     /host="Takifugu obscurus"
                     /db_xref="taxon:2977321"
                     /plasmid="pTR2"
                     /geo_loc_name="China: Yangzhong City, Jiangsu Province"
                     /collection_date="2021-10-05"
     gene            complement(join(2893..3003,1..567))
                     /locus_tag="N4T20_RS21770"
                     /old_locus_tag="N4T20_21770"
     CDS             complement(join(2893..3003,1..567))
                     /locus_tag="N4T20_RS21770"
                     /old_locus_tag="N4T20_21770"
                     /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_022631128.1"
                     /translation="MENKAVTISTQLAIFIDSTIARPDLLFNSLNSEIGEVIDAMPQTL
                     PLPADAPADIPRVIGTSSFGKFNLNISLNRIDFVENYTPTEEIEKSVTEFKLKCNTLIA
                     TIFQKYGVVRIGLVGNYYIPHKNPSQLIADLYLNENKRNLDEITIRINNRDTFKNIQIN
                     NVINLSQGQVTAQNYNGNAVIVQLDYNSTDNNTPLEEGLTLALFKEKSIAYNSKHVEDV
                     SGL"
                     /name="hypothetical protein"
     gene            complement(768..929)
                     /locus_tag="N4T20_RS21805"
     CDS             complement(768..929)
                     /locus_tag="N4T20_RS21805"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001354639.1"
                     /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_071784682.1"
                     /translation="MHEPPVQPDHCALSGNYRLESNPVRHAKAPLAAAIGNRVSRARFV
                     QMLTEFLK"
                     /name="replication initiation protein"
     gene            complement(1416..1610)
                     /locus_tag="N4T20_RS21775"
                     /old_locus_tag="N4T20_21775"
     CDS             complement(1416..1610)
                     /locus_tag="N4T20_RS21775"
                     /old_locus_tag="N4T20_21775"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001041624.1"
                     /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_022631127.1"
                     /translation="MNKQQQTALNMAKFIKSQSLTLLEKLDALDADEQATMCEKLHELA
                     EELQNSIQTRFEVENSTEI"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            1882..2205
                     /gene="mobA"
                     /locus_tag="N4T20_RS21780"
                     /old_locus_tag="N4T20_21780"
     CDS             1882..2205
                     /gene="mobA"
                     /locus_tag="N4T20_RS21780"
                     /old_locus_tag="N4T20_21780"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:NP_052604.1"
                     /GO_process="GO:0006355 - regulation of DNA-templated
                     transcription [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="plasmid mobilization protein MobA"
                     /protein_id="WP_000166966.1"
                     /translation="MTKRSGSNTRRRAISRPVRLTAEEDQEIRKRAAECGKTVSGFLRA
                     AALGKKVNSLTDDRVLKEVMRLGALQKKLFIDGKRVGDREYAEVLIAITEYHRALLSRL
                     MAD"
                     /name="mobA"
     gene            complement(2513..2896)
                     /locus_tag="N4T20_RS21785"
                     /old_locus_tag="N4T20_21785"
     CDS             complement(2513..2896)
                     /locus_tag="N4T20_RS21785"
                     /old_locus_tag="N4T20_21785"
                     /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_022631129.1"
                     /translation="MKFFKPKTDAIEYIRVEPSFSKTSSNINNAKSGSDTNSQPGFILR
                     SQIEEMIKNHRPKTEKEIKAESEGLIRLCSMAFIFLIVLSIFMLIVYFGIKDRELPDFA
                     NNLMALMTTLVGAIGGFIYGTKK"
                     /name="hypothetical protein"
     Typing          1648..1873
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="89.167"
                     /coverage="99.0"
                     /evalue="4.88e-75"
     Typing          complement(858..1387)
                     /name="rep_cluster_2350"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="94.413"
                     /coverage="97.0"
                     /evalue="0.0"
     Typing          1883..2202
                     /name="MOBF"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="99.065"
                     /coverage="100.0"
                     /evalue="1.96e-62"
ORIGIN
        1 gtagtcaagt tgaactatca ccgcatttcc attgtagttc tgtgcggtta cttgtccttg
       61 gcttaaattg atgacattgt ttatttgtat atttttgaat gtatcgcggt tatttattct
      121 tattgttatt tcatctaaat ttcttttgtt ttcgtttaaa tacagatcag ctattagttg
      181 agatggattt ttatgtggga tgtaatagtt accaactagg ccgattctta cgactccata
      241 tttttggaat attgttgcta ttagcgtatt gcactttaat ttgaattccg ttactgattt
      301 ttcgatctcc tcagtagggg tgtagttttc tacaaaatct attctgttta gtgatatgtt
      361 taagttgaac ttgccaaagg acgatgtgcc aataacgcga gggatatctg cgggtgcatc
      421 tgcaggcagg ggaagcgtct gtggcattgc gtctataact tcgccaattt ctgagtttag
      481 gctattaaag agaagatctg gtctagctat ggtgctgtca ataaatattg ctagctgtgt
      541 tgatattgtg acggccttgt tttccatttt ttctttccta ttttgcattg gtattaattg
      601 aagtattgcg aaattaacgt gttgtgagta tcttaaacga aaaaaccacc ctggcaggtg
      661 gtttttcgaa ggttagctaa tcctggcaga ttgtctaacc gggtaactgg cttcagcaga
      721 gcgcagatac caaatactgt ccttctagtg tagccgtagt caggccatca cttcaagaac
      781 tctgtaagca tctggacaaa tctcgctctg ctaactcggt taccaatggc tgctgccagt
      841 ggtgcttttg catgtcttac cgggttggac tcaagacgat agttaccgga taaggcgcag
      901 tggtcgggct gaacgggggg ttcgtgcaca cagcccagct tggagcgaac gacctacacc
      961 gggccgagat acctacagcg tgagctatga gaaagcgcca cgcttcccga agggagaaag
     1021 gcggacaggt atccggtaag cggcagggtc ggaacaggag agcgcacgag ggagcttcca
     1081 gggggaaacg cctggtatct ttatagtcct gtcgggtttc gccacctctg acttgagcgt
     1141 cgatttttgt gatgctcgtc aggggggcgg agcctatgga aaaacgcctg cggtgctggc
     1201 ttcttccggt gctttgcttt ttgctcacat gttctttccg gctttatccc ctgattctgt
     1261 ggataaccgt attaccgcct ttgagtgagc tgacaccgct cgccgcagtc gaacgaccga
     1321 gcgtagcgag tcagtgagcg aggaagcgga agagcgcctt atgtgacatt ttctccttac
     1381 gctctgttgt gccgttcggc atcctgccct gagcgttata tctctgtgct attttctact
     1441 tcaaagcgtg tctgtatgct gttctggagt tcttctgcga gttcgtgcag cttctcacac
     1501 atggtggcct gctcgtcagc atcgagtgcg tccagttttt cgagcagcgt caggctctgg
     1561 ctttttatga attttgccat gttgagtgcg gtttgctgct gcttgttcat ctttctgctt
     1621 tctccgttct gtctgtcatc tgcgtcgtgt gattatatcg cgcaccactt ttcgaccgtc
     1681 ttaccgccgg tattctgccg acggacattt cagtcagaca acactgtcac tgccaaaaaa
     1741 cagcagtgct ttgttggtaa ttcgaacttg cagacaggac aggatgtgta attgttatac
     1801 cgcgcataca tgcacgctat tacaattacc ttggtcaggg cttcgccccg acaccccatg
     1861 tcagatacgg agccatgttt tatgacaaaa cgaagtggaa gtaatacgcg caggcgggct
     1921 atcagtcgcc ctgttcgtct gacggcagaa gaagaccagg aaatcagaaa aagggctgct
     1981 gaatgcggca agaccgtttc tggtttttta cgggcggcag ctctcggtaa gaaagttaac
     2041 tcactgactg atgaccgggt gctgaaagaa gttatgcgac tgggggcgtt gcagaaaaaa
     2101 ctctttatcg acggcaagcg tgtcggggac agggagtatg cggaggtgct gatcgctatt
     2161 acggagtatc accgtgccct gttatccagg cttatggcag attagcttcc cggagagaaa
     2221 ctgtcgaaaa cagacggtat gaacgccgta agcccccaaa ccgatcgcca ttcactttca
     2281 tgcatagcta tgcagtgagc tgaaagcgat cctgacgcat ttttccggtt tatcccgggg
     2341 aaaacatctc tttttgcggt gtctgcgtca gaatcgcgtt cagcgcgttt tggcggtgcg
     2401 cgtaatgaga cgttatggta aatggtgtca ggtaacggtt gtaaaagccc cgaagtatgg
     2461 ggctggtgtg cttgtgtgtt atttgttttt tttatttgtg tttttgtctg tgttattttt
     2521 ttgttccata tataaaacca cctatcgctc caactaatgt tgtcattagt gccatcaggt
     2581 tatttgcaaa atctggtagt tctctatctt ttattccgaa ataaacgatt aacataaaaa
     2641 ttgataaaac tattaaaaat ataaaggcca tggagcaaag ccttataaga ccttcgcttt
     2701 cagcctttat ttctttttct gttttcggtc tgtggttttt tatcatttcc tctatttgag
     2761 atcttaaaat gaatccaggc tgtgagtttg tgtcacttcc tgatttcgca ttatttatat
     2821 tgctacttgt ttttgagaat gatggttcta cacgaatgta ttcaatcgca tctgtttttg
     2881 gtttgaaaaa tttcataatc cactcacatc ctcaacatgc ttggagttat aagcaatgga
     2941 tttttcttta aatagggcta aggttaaccc ttcttcaagt ggtgtgttat tatcggttga
     3001 gtt
//
