LOCUS       CP019300                3964 bp    DNA     linear   BCT 18-JAN-2017
DEFINITION  Prevotella intermedia ATCC 25611 = DSM 20706 strain ATCC 25611
            chromosome I, complete sequence.
ACCESSION   CP019300
VERSION     CP019300.1
DBLINK      BioProject: PRJNA313956
            BioSample: SAMN04529094
KEYWORDS    .
SOURCE      Prevotella intermedia ATCC 25611 = DSM 20706
  ORGANISM  Prevotella intermedia ATCC 25611 = DSM 20706
            Bacteria; Bacteroidetes; Bacteroidia; Bacteroidales; Prevotellaceae;
            Prevotella.
REFERENCE   1  (bases 1 to 3964)
  AUTHORS   Johnston,C.D. and Rittling,S.R.
  TITLE     Heterogeneous Restriction-Modification and CRISPR-Cas Mediated
            Barriers to Exogenous DNA Defined by Single Molecule Real-time
            (SMRT) Genome and Methylome Sequencing of Prevotella intermedia ATCC
            25611 and Strain 17
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 3964)
  AUTHORS   Johnston,C.D.
  TITLE     Direct Submission
  JOURNAL   Submitted (17-JAN-2017) Immunology and Infectious disease, The
            Forsyth Institute, 245 First Street, Cambridge, MA 02142, USA
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method :: Celera Assembler v. June 2016; HGAP v.
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 200.0x
            Sequencing Technology             :: PacBio
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 01/17/2017 15:42:55
            Annotation Pipeline               :: NCBI Prokaryotic Genome
            Annotation Method                 :: Best-placed reference protein
            Annotation Software revision      :: 4.0
            Features Annotated                :: Gene; CDS; rRNA; tRNA; ncRNA;
            Genes (total)                     :: 2,351
            CDS (total)                       :: 2,283
            Genes (coding)                    :: 2,191
            CDS (coding)                      :: 2,191
            Genes (RNA)                       :: 68
            rRNAs                             :: 5, 4, 4 (5S, 16S, 23S)
            complete rRNAs                    :: 5, 4, 4 (5S, 16S, 23S)
            tRNAs                             :: 52
            ncRNAs                            :: 3
            Pseudo Genes (total)              :: 92
            Pseudo Genes (ambiguous residues) :: 0 of 92
            Pseudo Genes (frameshifted)       :: 51 of 92
            Pseudo Genes (incomplete)         :: 38 of 92
            Pseudo Genes (internal stop)      :: 20 of 92
            Pseudo Genes (multiple problems)  :: 12 of 92
            CRISPR Arrays                     :: 3
            ##Genome-Annotation-Data-END##
            Bacteria and source DNA available from Christopher D Johnston.
            Annotation was added by the NCBI Prokaryotic Genome Annotation
            Pipeline (released 2013). Information about the Pipeline can be
            found here: https://www.ncbi.nlm.nih.gov/genome/annotation_prok/
            This genome has a base modification file available.
            2.3
            Annotation Pipeline
            set; GeneMarkS+
            repeat_region
FEATURES             Location/Qualifiers
     source          1..3964
                     /organism="Prevotella intermedia ATCC 25611 = DSM 20706"
                     /mol_type="genomic DNA"
                     /strain="ATCC 25611"
                     /isolation_source="Empyema"
                     /host="Homo sapiens"
                     /culture_collection="ATCC:25611"
                     /type_material="type strain of Prevotella intermedia"
                     /db_xref="taxon:1122984"
                     /chromosome="I"
                     /country="USA"
                     /collection_date="1984"
                     /collected_by="LV Holdeman"
     gene            complement(1..882)
                     /locus_tag="BWX39_02890"
     CDS             complement(1..882)
                     /locus_tag="BWX39_02890"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_009435495.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="STP|PfkB"
                     /protein_id="APW31679.1"
                     /translation="MKQYIVGLGEALWDCLPEGKKIGGAPANFAFHAGQFGHDSIAISA
                     IGNDKLGEETLAEFDKKHVNYLMPVVDYPTGTVQVTLDEAGIPTYEIKEGVAWDNIPFT
                     SEIEEVAKNCRAVCFGSLAQRSSVSRNTIQQFLDATPDDCLKIFDINLRQNFYNENIIR
                     NSLKQCNILKINDEELVAIGRIFGYPGLDMENKCWLLIGKYNLDMLVLTCGVNGSYVFA
                     PNLVSFQETPKVDVADTVGAGDSFTGTFAAAILAGKCIPEAHKLAVEASAYVCTQNGAM
                     PILPKELIEKAK"
     gene            complement(894..2048)
                     /locus_tag="BWX39_02895"
     CDS             complement(894..2048)
                     /locus_tag="BWX39_02895"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_004367352.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="gnl|TC-DB|Q8A6W8|2.A.1.7.17"
                     /protein_id="APW31680.1"
                     /translation="MNNSKTLKLIPIMFCFFAMGFVDLVGIASNYVKADLNLTDATANV
                     FPSLVFFWFLIFSVPTGMLMNKIGRKKTVLLSLIITVFSLLLPIFGQSYELMLVSFSLL
                     GIGNALMQTSINPLVMTVVQGGNMAATFTFGQFIKAIASFLAPYIAMWGAMATIPSFGL
                     GWRVLFPIYMIIGVLASLFLVSTPIEEEKIEGKASSFLECIQLLGKPAVLFSFFGIMCH
                     VGIDVGTNATAPKILMERLDMTLNDAAFATSLYFIFRTIGCLTGSFFLRTMKMKHFFII
                     SVVLMALSMCGLYVGSSKAILYTAIALVGYGNSNIFSMVLARALESVPEKQNEVSGLMI
                     MGLFGGTIFPLLMGFASDSMGQAGAVLIMAIGVLYLFTYIPKIK"
     gene            complement(2066..3964)
                     /locus_tag="BWX39_02900"
     CDS             complement(2066..3964)
                     /locus_tag="BWX39_02900"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_004364471.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="GH32"
                     /protein_id="APW31681.1"
                     /translation="MKRTNMYIMCAAMTLAATSAKAQTIQMSQKGDTTILNITNPTKYL
                     LLPIEEAKDEARVLLDTSNPADTWMDVRLAQDKIDYYVPFELGSGTRATVKILNLKHDA
                     ICYKPNVLKLSNEWNTANTDFYRPSYHHTPSYGWMNDPNGMFYMDGIYHLCYQYNPYGS
                     KWGNMHWGHATSTDLIHWKEEKPSIARDTLGHIFSGSAVIDKDNTAGYGKNAIIALYTS
                     ASDKNGQIECMAYSTDKGYTYTKYEHNPVLTPFDGLKDFRDPKIFWYEPAKKWYMIISA
                     DKEMRFYKSSNLKKWDYVSAFGKGYGMQPNQFECPDFVQLPVDGDKNKMKYVMLVNINP
                     GCLFGGSATEYFVGDFDGKNFKCDTPPNEYNFLDYGKDNYATVCFSGVEDRVLSIAWMS
                     NWQYANITPIKQYRGANTLPRELKLYTGTDGKLYVSNNVAPEVKALRKNALTLPAMNVK
                     TITDRKNTIKSKENAFELEMDVTPASMATTGIELYNAKGEKVNIYFDMKERKLVMDRTE
                     SGLIEFGKLAVPHDIEKNYADIHQGVGNTPFRVFNSINYKNDFALGTWAPLSLCEGKTY
                     HVDIFVDKCSVEIFVDGGRIAMTNLVFPTTPYTSVKFYNKGASSSFRNIKISELSL"
ORIGIN
        1 ttatttcgcc ttttctatca gttcttttgg cagaatgggc attgcgccat tttgtgtaca
       61 tacgtatgca cttgcctcaa cagccaactt gtgggcttca ggaatacatt tgcctgcgag
      121 aatggctgca gcaaacgtgc ctgtgaacga gtcgcccgct ccaacggtgt cggcaacatc
      181 gaccttcggt gtttcttgga acgacacaag attaggggca aacacgtaag agccgtttac
      241 gccacacgtc agcacgagca tatcaaggtt atatttgcca atgagcagcc agcatttgtt
      301 ctccatatcc aagccgggat agccgaaaat gcggccaata gcaaccaact cttcgtcgtt
      361 aatcttcagt atgttgcatt gtttgagcga gttgcggata atgttctcgt tatagaagtt
      421 ctgccgaaga ttaatatcga agattttcag acagtcgtct ggcgtggcat cgaggaactg
      481 ctgaatggtg tttcggctta cgctgctgcg ctgtgcgagc gaaccgaagc agacggcacg
      541 gcagtttttt gccacttctt caatctccga agtgaacgga atgttgtccc aagccacacc
      601 ttcctttatt tcgtaagtgg gaatacccgc ctcgtcgagc gttacttgta ccgttcctgt
      661 gggataatct accacaggca tcaggtagtt tacgtgcttc ttgtcgaact ctgccaaggt
      721 ttcttcgccc aatttgtcgt ttcctattgc actgatagca atggaatcgt gtccgaattg
      781 tcctgcgtgg aaagcgaagt ttgcgggtgc tccgcctatc tttttacctt cggggaggca
      841 gtcccataga gcctcgccca aaccaacgat atattgtttc atagctattg tgtttatttt
      901 attttaggaa tgtatgtgaa aaggtagagt acacctattg ccataatgag cacggcacct
      961 gcttgtccca tactgtcgct tgcaaaaccc ataagcaaag ggaagatggt gccaccgaaa
     1021 agtcccatta tcataagtcc gctcacctcg ttttgcttct cgggcacact ctccaaggca
     1081 cgtgccagca ccattgagaa gatgttgctg ttgccgtagc cgacaagtgc aatggctgtg
     1141 tagagaatgg ctttgctgct tcctacatat agtccgcaca tactcaatgc cataagaaca
     1201 acggagataa tgaagaaatg tttcatcttc atcgtgcgaa ggaagaacga acccgtaaga
     1261 caaccgatgg tacggaagat gaaatacagc gaagtggcaa aggcggcgtc gttgagtgtc
     1321 atatccaaac gttccatcag gattttcggt gcagtagcat tggtgcccac atcaatgccc
     1381 acgtggcaca taatgccgaa gaaactgaat agcacagcag gtttgcccag cagctgaatg
     1441 cactctaaga agctgcttgc cttgccctca atcttctctt cttcgatagg tgtagacaca
     1501 aggaagagcg atgccaacac gcctataatc atataaatgg ggaagagaac acgccagcca
     1561 agaccgaagg aaggtatggt ggccattgcg ccccacatag caatgtaagg tgcaaggaac
     1621 gaggcaatcg ccttgatgaa ttgtccgaag gtgaaggtgg cagccatatt gcctccttgc
     1681 accactgtca ttaccagcgg attgatagat gtctgcatca gtgcatttcc gattccgagc
     1741 agcgagaacg acaccagcat aagttcatac gattgcccga agataggcaa aagcaatgaa
     1801 aagacagtta tgatgaggct taacagcacg gttttcttgc gcccaatctt gttcatcagc
     1861 attcctgtgg gtacagagaa tatcaagaac cagaagaaaa caagcgacgg aaatacgttt
     1921 gccgttgcat cggtgagatt taagtctgct ttaacatagt tggaggcaat gccaactaag
     1981 tctacaaagc ccatcgcaaa gaagcagaac atgatgggaa tgagctttaa agtcttggaa
     2041 ttgttcatag ttcaatagcc ttttattaga gtgatagctc actgattttt atgttgcgga
     2101 agcttgacga tgcccccttg ttataaaact taaccgatgt gtaaggcgtt gttgggaaca
     2161 caaggttggt cattgcgatg cgaccgccat cgacaaagat ttcgacagag catttatcca
     2221 cgaatatatc aacgtggtag gtcttgccct cgcacagact tagtggtgcc caagtaccaa
     2281 gagcgaagtc gtttttatag ttgattgagt tgaaaacacg gaacggcgtg ttgcccactc
     2341 cttgatgaat atcggcatag ttcttctcta tgtcgtgagg aacggcaagc tttccaaact
     2401 cgatgagtcc gctttcggtg cggtccataa cgagctttct ctctttcata tcaaagtaga
     2461 tgtttacttt ttcgcctttt gcgttgtaga gttcgatgcc tgttgttgcc attgaagcgg
     2521 gtgttacgtc catctcaagt tcaaaggcat tctccttact cttgatggtg ttcttcctgt
     2581 cggtaatggt tttaacgttc attgcaggca gtgtaagggc gtttttgcgc aatgccttga
     2641 cctcgggagc aacgttgttg gatacataca gcttgccgtc tgtgcccgtg tagagcttca
     2701 attcgcgtgg caaggtgttg gcaccacgat attgtttgat aggtgtaatg ttggcatact
     2761 gccagttgct catccacgca atggagagaa cacggtcttc aacgccagag aaacaaacgg
     2821 tggcatagtt gtctttgccg taatccaaga agttgtattc gttcggagga gtatcgcatt
     2881 tgaagttctt tccgtcgaaa tcgcccacga aatattccgt ggctgaaccg ccaaacaagc
     2941 agccagggtt gatgtttacc aacataacgt acttcatttt gttcttgtcg ccatcgacag
     3001 gaagctgtac aaagtcggga cattcgaact gattaggttg cattccgtaa ccttttccaa
     3061 aggcactgac gtagtcccac ttctttaaat tggaagattt gtagaagcgc atctccttgt
     3121 cggctgatat aatcatatac catttctttg ctggctcgta ccagaagatc ttcgggtcgc
     3181 ggaagtcttt cagcccatcg aacggcgtca agactggatt atgctcgtat ttagtgtacg
     3241 tatagccctt gtcggtgctg taagccatac actctatctg cccgttcttg tcgcttgcgg
     3301 aggtgtagag ggctataatg gcattctttc cgtagcccgc cgtgttgtct ttatctatta
     3361 cggcacttcc agaaaagatg tgtcctaagg tgtcgcgggc gattgaaggc ttctcttctt
     3421 tccaatgaat gaggtctgta ctggtagcgt ggccccagtg catattgccc catttcgagc
     3481 cgtaggggtt gtattggtag caaagatgat agataccgtc catatagaac atgccattgg
     3541 ggtcgttcat ccacccgtat gaaggtgtgt ggtggtaaga tggacgatag aaatcggtat
     3601 ttgccgtgtt ccattcgttc gatagtttca gtacgttagg cttgtaacag atggcgtcgt
     3661 gcttgagatt gagaatctta accgttgccc ttgtgccact gcccaactcg aatgggacgt
     3721 agtaatctat cttgtcttgt gccaaacgca cgtccatcca cgtgtcagca gggttcgatg
     3781 tgtcgagcag aacccgtgct tcgtctttcg cttcttctat tggaagcagc aaatactttg
     3841 ttggattggt gatgttcagt atggttgtgt cgcctttctg cgacatttgt atggtctgag
     3901 ccttcgctga tgtggctgct aaagtcatag cagcacacat tatatacatg ttggtacgtt
     3961 tcat
//
