LOCUS NC_014750 4916 bp DNA circular BCT 06-DEC-2010 DEFINITION Marivirga tractuosa DSM 4126 plasmid pFTRAC01, complete sequence. ACCESSION NC_014750 VERSION NC_014750.1 GI:313652076 DBLINK Project: 60837 KEYWORDS . SOURCE Marivirga tractuosa DSM 4126 ORGANISM Marivirga tractuosa DSM 4126 Bacteria; Bacteroidetes; Cytophagia; Cytophagales; Flammeovirgaceae; Marivirga. REFERENCE 1 (bases 1 to 4916) AUTHORS Lucas,S., Copeland,A., Lapidus,A., Bruce,D., Goodwin,L., Pitluck,S., Kyrpides,N., Mavromatis,K., Pagani,I., Ivanova,N., Ovchinnikova,G., Chertkov,O., Held,B., Detter,J.C., Han,C., Tapia,R., Land,M., Hauser,L., Markowitz,V., Cheng,J.-F., Hugenholtz,P., Woyke,T., Wu,D., Spring,S., Schroeder,M., Schneider,S., Klenk,H.-P. and Eisen,J.A. CONSRTM US DOE Joint Genome Institute (JGI-PGF) TITLE The complete genome of plasmid of Marivirga tractuosa DSM 4126 JOURNAL Unpublished REFERENCE 2 (bases 1 to 4916) CONSRTM NCBI Genome Project TITLE Direct Submission JOURNAL Submitted (06-DEC-2010) National Center for Biotechnology Information, NIH, Bethesda, MD 20894, USA REFERENCE 3 (bases 1 to 4916) AUTHORS Lucas,S., Copeland,A., Lapidus,A., Bruce,D., Goodwin,L., Pitluck,S., Kyrpides,N., Mavromatis,K., Pagani,I., Ivanova,N., Ovchinnikova,G., Chertkov,O., Held,B., Detter,J.C., Han,C., Tapia,R., Land,M., Hauser,L., Markowitz,V., Cheng,J.-F., Hugenholtz,P., Woyke,T., Wu,D., Spring,S., Schroeder,M., Schneider,S., Klenk,H.-P. and Eisen,J.A. CONSRTM US DOE Joint Genome Institute (JGI-PGF) TITLE Direct Submission JOURNAL Submitted (18-NOV-2010) US DOE Joint Genome Institute, 2800 Mitchell Drive, Walnut Creek, CA 94598-1698, USA COMMENT PROVISIONAL REFSEQ: This record has not yet been subject to final NCBI review. The reference sequence is identical to CP002350. URL -- http://www.jgi.doe.gov JGI Project ID: 4085041 Source DNA and organism available from Hans-Peter Klenk at the German Collection of Microorganisms and Cell Cultures (DSMZ) (hans-peter.klenk@dsmz.de) Contacts: Jonathan A. Eisen (jaeisen@ucdavis.edu) David Bruce (microbe@cuba.jgi-psf.org) Whole genome sequencing and draft assembly at JGI-PGF Finishing done by JGI-LANL Annotation by JGI-ORNL and JGI-PGF The JGI and collaborators endorse the principles for the distribution and use of large scale sequencing data adopted by the larger genome sequencing community and urge users of this data to follow them. It is our intention to publish the work of this project in a timely fashion and we welcome collaborative interaction on the project and analysis. (http://www.genome.gov/page.cfm?pageID=10506376). ##MIGS-Data-START## investigation_type :: bacteria_archaea project_name :: Marivirga tractuosa Lewin H43, DSM 4126 collection_date :: Missing lat_lon :: 12.250 109.199 depth :: Missing alt_elev :: Missing country :: Vietnam environment :: Missing num_replicons :: 2 ref_biomaterial :: DSM 4126, ATCC 23168, IFO 15989, NBRC 15989, NCMB 1408 biotic_relationship :: Free living trophic_level :: Missing rel_to_oxygen :: Missing isol_growth_condt :: 5360476 sequencing_meth :: WGS assembly :: Newbler v. 2.3 (pre-release) finishing_strategy :: Finished GOLD Stamp ID :: Gi03940 Type Strain :: Yes Greengenes ID :: 58628 Funding Program :: DOE-GEBA 2007 Gene Calling Method :: IMG/ER 2.8 Isolation Site :: beach sand from Nha Trang Isolation Comments :: isolated by RA Lewin Temperature Range :: Mesophile Temperature Optimum :: 30C Gram Staining :: Gram- Diseases :: None ##MIGS-Data-END## ##Genome-Assembly-Data-START## Finishing Goal :: Finished Current Finishing Status :: Finished Assembly Method :: Newbler v. 2.3 Genome Coverage :: 30x Sequencing Technology :: Illumina, 454 ##Genome-Assembly-Data-END## COMPLETENESS: full length. FEATURES Location/Qualifiers source 1..4916 /organism="Marivirga tractuosa DSM 4126" /mol_type="genomic DNA" /strain="DSM 4126" /isolation_source="beach sand" /db_xref="taxon:643867" /plasmid="pFTRAC01" /country="Viet Nam: Nha Trang" /lat_lon="12.250 N 109.199 E" /collected_by="RA Lewin" gene 237..1217 /locus_tag="Ftrac_3801" /db_xref="GeneID:10004349" CDS 237..1217 /locus_tag="Ftrac_3801" /note="InterPro IPR005094; KEGG: sli:Slin_7038 relaxase/mobilization nuclease family protein; PFAM: Relaxase/mobilization nuclease family protein; SPTR: Relaxase/mobilization nuclease family protein; PFAM: Relaxase/Mobilisation nuclease domain" /codon_start=1 /transl_table=11 /product="Relaxase/mobilization nuclease family protein" /protein_id="YP_004046754.1" /db_xref="GI:313652077" /db_xref="GeneID:10004349" /translation="MPTVSNGKALAESLQPRASGRAPQACRDGKQPQPNSAQRERRGK AKAFLPARLGADTRTFKQAKMIGKTGTGRSFGGLIEYLLDEKKEAEILAVDGVCDHDK KTAIEDFNMMRKQLPTLGKAVWHSSISFAEGDNMSNEEMKEIASEFMQEMGLENTQYM VVKHNDSKHQHLHIVANRVNYEGKAISDSHSKRKTVDRCEKIAKKHGLTNAKEQGNQR KEAIKKTIYQGIDQGKDLAGIMKGVEKLGYTVQYNQAKTGKISGVSYKMEDKGIIFKA SEIDRNLSYTKLLRHIEEHKEREKTKQKQQDKSKNISTKRSIDQSKGMSR" misc_feature 456..1121 /locus_tag="Ftrac_3801" /note="Relaxase/Mobilisation nuclease domain; Region: Relaxase; cl01584" /db_xref="CDD:174650" gene 1214..1807 /locus_tag="Ftrac_3802" /db_xref="GeneID:10004342" CDS 1214..1807 /locus_tag="Ftrac_3802" /note="KEGG: gga:419769 centrosomal protein 164kDa; SPTR: SMC proteins Flexible Hinge Domain" /codon_start=1 /transl_table=11 /product="hypothetical protein" /protein_id="YP_004046755.1" /db_xref="GI:313652078" /db_xref="GeneID:10004342" /translation="MSNTIEIQLEAIADSLEKLEKQLKGKKEPKDHSADLETISRQIK ALERLSIENANNAPEIDLSSLESKFEALNDKMDKLERSARHMQWLFPDLKATFWKFGV AVKLFLWIAVIGLGIGFYSYYQKADRYEESATKYYFYKYSAYTMSEIDSLYKTHADRI NFIVDSTQEARAKRSEIEARKKQLEEEEKSLNQKQSN" misc_feature <1502..>1606 /locus_tag="Ftrac_3802" /note="Integral membrane protein (DUF2244); Region: DUF2244; cl02302" /db_xref="CDD:154847" gene 1816..2034 /locus_tag="Ftrac_3803" /db_xref="GeneID:10004343" CDS 1816..2034 /locus_tag="Ftrac_3803" /note="KEGG: aga:AgaP_AGAP011062 AGAP011062-PA; SPTR: AGAP011062-PA" /codon_start=1 /transl_table=11 /product="hypothetical protein" /protein_id="YP_004046756.1" /db_xref="GI:313652079" /db_xref="GeneID:10004343" /translation="MQGTRTKERVSVELTLYEVWEHYRRLAYDYDQEPRWHSDDNTTL IESQKKALIAMKSLIEKELESDKFKEQK" gene complement(2043..2258) /locus_tag="Ftrac_3804" /db_xref="GeneID:10004344" CDS complement(2043..2258) /locus_tag="Ftrac_3804" /note="COGs: COG1724 periplasmic or secreted lipoprotein; InterPro IPR012933; KEGG: cyt:cce_2178 hypothetical protein; PFAM: YcfA family protein; SPTR: YcfA family protein; PFAM: YcfA-like protein" /codon_start=1 /transl_table=11 /product="YcfA family protein" /protein_id="YP_004046757.1" /db_xref="GI:313652080" /db_xref="GeneID:10004344" /translation="MKAKDLIKELQKNGFELARSKGSHHIFKHSDGRRTTVPLHGGDM PTGTYKAIIKQSGIPDPEKQKGKKKGK" misc_feature complement(2085..2258) /locus_tag="Ftrac_3804" /note="YcfA-like protein; Region: YcfA; cl00752" /db_xref="CDD:193928" gene complement(2324..2542) /locus_tag="Ftrac_3805" /db_xref="GeneID:10004345" CDS complement(2324..2542) /locus_tag="Ftrac_3805" /note="COGs: COG1598 conserved hypothetical protein; InterPro IPR005357; KEGG: pmo:Pmob_1308 hypothetical protein; PFAM: Uncharacterised protein family UPF0150; SPTR: Putative uncharacterized protein; PFAM: Uncharacterised protein family (UPF0150)" /codon_start=1 /transl_table=11 /product="Uncharacterized protein family UPF0150" /protein_id="YP_004046758.1" /db_xref="GI:313652081" /db_xref="GeneID:10004345" /translation="MQTFRIVLHPEIEGGYTVTVPSLSGCITWGKDVQEARAMAKEAI ELYLEDLQASGEPIPDDSQSLELSLTVA" misc_feature complement(2393..2536) /locus_tag="Ftrac_3805" /note="Uncharacterised protein family (UPF0150); Region: UPF0150; cl00691" /db_xref="CDD:193911" gene complement(2577..2765) /locus_tag="Ftrac_3806" /db_xref="GeneID:10004346" CDS complement(2577..2765) /locus_tag="Ftrac_3806" /note="KEGG: eok:G2583_1235 hypothetical protein; SPTR: Putative uncharacterized protein yccE" /codon_start=1 /transl_table=11 /product="hypothetical protein" /protein_id="YP_004046759.1" /db_xref="GI:313652082" /db_xref="GeneID:10004346" /translation="MRAKRVNIDGHDFAEVSQVERPELFREWIKGQNVPDIADFDGIY WHDYLRYLDYLKWKEKQC" gene complement(2762..3070) /locus_tag="Ftrac_3807" /db_xref="GeneID:10004347" CDS complement(2762..3070) /locus_tag="Ftrac_3807" /note="KEGG: ddi:DDB_G0271832 hypothetical protein; SPTR: Cell wall-binding protein associated metalloendopeptidase" /codon_start=1 /transl_table=11 /product="hypothetical protein" /protein_id="YP_004046760.1" /db_xref="GI:313652083" /db_xref="GeneID:10004347" /translation="MTEKKRKELEALSFQDLEYLSEKGLKIWDRLTDAYTHIGLISSD PGSSNPETDYYFAMHQDADNILREKVEKIFGEVPRTEKTIYESQKLWDYLDEKDKREK " gene complement(3078..4136) /locus_tag="Ftrac_3808" /db_xref="GeneID:10004348" CDS complement(3078..4136) /locus_tag="Ftrac_3808" /note="InterPro IPR000525; KEGG: cbf:CLI_A0012 RepB family protein; PFAM: initiator RepB protein; SPTR: RepB family protein; PFAM: Initiator Replication protein" /codon_start=1 /transl_table=11 /product="initiator RepB protein" /protein_id="YP_004046761.1" /db_xref="GI:313652084" /db_xref="GeneID:10004348" /translation="MAHKDKRSPQISIPMEYPEKELKEIAKQHWNITFAKQKKVSVVA KRIMDNVLGQIHDNDLTLKPFYQMHVSEVVNYSDSGSAYDITRKAFTDLASTSWLIQD LEKKYFAPRHLLDTTKTEVKDGFETAYKDGMITIAINPVLEPYFVQVAHYTRYERGQL KNFTSWYSVRIWEILSGFEDILQKGEKWYVSLEELRGWMDCEKKYKNNTKDLLYNIFK EPLIELKGTKLEFDYDKVYAKGVKGRPPIIGLEFYLVNPQGLKPASKILEEWIEKTPE QDREKKRRCIEKGREWKISDENLVKCLPIIKEAGAWKLYKQFSEKDNARGTEKKIQDK KAFCNSAMLIAAGLKKPK" misc_feature complement(3378..4070) /locus_tag="Ftrac_3808" /note="Initiator Replication protein; Region: Rep_3; cl03080" /db_xref="CDD:186548" ORIGIN 1 aaaaccctcc taaaggagtg atttttaata cgcattcaac catcttgttt tgcgcccttc 61 ggttgcaaaa gggtagccca gaacaaagtt tgtgctatgg aaaaagagaa caacaaaggc 121 ggacggccac gagtggcagt ccagaagaaa aagcgaatta cccttaactg cacatcagca 181 gaatatcggg caatcaagag caaagccgaa aggtcaaact tgagcctttc cgactattgc 241 ctacggtcag caatggcaaa gcccttgccg aaagtttaca gccccgagcg agtggacgag 301 ctccgcaagc ttgcagggat ggcaaacaac ctcaaccaaa tagcgcacag cgtgaacgca 361 ggggaaaggc taaagctttc ctccctgcaa gacttggagc agatacgaga acttttaagc 421 aagctaaaat gataggaaag acaggcacag gcagaagctt cggaggactg atagaatacc 481 ttctggacga aaagaaggaa gcggagatcc tcgcagtcga tggagtttgc gaccatgaca 541 aaaaaacggc tattgaggat ttcaacatga tgcgaaaaca attgccaaca ctaggaaaag 601 cggtttggca cagctctatt tcctttgctg aaggagacaa catgagcaat gaagaaatga 661 aagaaattgc aagcgaattt atgcaggaaa tggggcttga aaatacgcaa tacatggttg 721 taaagcacaa cgacagcaag caccaacatt tacacattgt cgccaatcgg gtcaactatg 781 aaggcaaagc catatccgac agccacagca aacgaaagac agttgacaga tgcgaaaaaa 841 tagctaagaa acacggattg acgaacgcca aagagcaagg caaccaacgc aaagaagcca 901 tcaagaaaac catataccag ggcatcgacc aggggaagga tttagccggc atcatgaaag 961 gcgttgaaaa gttgggctat acagtccaat acaaccaagc gaaaacaggg aaaataagcg 1021 gtgtaagcta caaaatggaa gataaaggaa tcatattcaa ggcttctgaa atagaccgaa 1081 acctaagtta cactaagctt ttaaggcaca ttgaggaaca caaagagcga gaaaaaacca 1141 agcagaaaca acaggataaa tccaagaata ttagtacaaa acgaagtatt gaccaatcaa 1201 aaggaatgag ccgatgagta ataccataga aatacaactg gaagccattg cagacagctt 1261 agagaagttg gagaagcaac tgaaagggaa gaaagaaccg aaagaccaca gcgcagattt 1321 agaaactatt tcacgccaaa taaaggcttt agaaagactt tcaattgaaa acgctaacaa 1381 tgcacccgaa attgatttga gtagcttaga atcgaaattt gaagccttaa acgataaaat 1441 ggataagcta gaaaggtcag cccgacacat gcaatggctt tttcccgatt tgaaagccac 1501 cttttggaaa ttcggggtag ccgtcaaatt gtttctttgg attgccgtaa taggcttagg 1561 aattggtttt tacagctatt accaaaaggc ggacagatac gaggaatcag ccacaaaata 1621 ctatttttac aagtacagtg cctacacaat gagcgaaatt gacagccttt acaaaacaca 1681 tgctgacagg ataaatttca ttgtcgacag cacacaggaa gcaagagcca aaagatccga 1741 aatcgaagct agaaagaaac agcttgaaga ggaagaaaaa tcattaaacc aaaaacaatc 1801 aaattaacta tagaaatgca aggaacaaga acgaaagaaa gagtatccgt tgagcttacc 1861 ctatatgaag tatgggagca ttacagaaga ttagcatacg attacgacca agagccacga 1921 tggcacagcg atgataatac aacactcatt gaaagccaaa aaaaggcttt aatagctatg 1981 aagtcattaa ttgagaaaga acttgaaagc gataaattta aagaacagaa atagagggga 2041 tgttattttc cctttttctt tcccttttgt ttttcagggt ctggaatacc agattgtttg 2101 ataatcgctt tgtaagtacc tgtaggcata tccccaccat gcaaaggaac agttgtgcgc 2161 cttccgtcag aatgtttgaa aatatgatgg ctccctttgc ttctagcaag ttcaaagccg 2221 tttttttgaa gttccttgat taagtctttt gctttcataa cagtgtttct taataaatac 2281 tgtcaaagct tgaaaaagcc gatcagtatt cagaagacaa tttttaagcg actgttaatg 2341 agagttctag actttgacta tcgtcaggaa ttggctctcc cgaagcttgc agatcctcga 2401 gataaagttc aatagcttcc ttagccattg cccttgcttc ttggacatct ttcccccaag 2461 tgatacagcc agacaaggaa ggaacagtaa cggtatatcc tccctcaatc tcgggatgta 2521 ggactattct gaatgtttgc atagttcaaa tttaagcgtt tttattagac tttagttcag 2581 cattgttttt ctttccattt aagataatcc agatagcgca aatagtcgtg ccagtatatc 2641 ccgtcaaagt ctgcgatatc gggaacgttt tgccccttga tccattccct gaacagctca 2701 ggacgttcga cttggcttac ctcagcgaaa tcatgaccgt caatatttac ccttttagcc 2761 ctcatttttc ccttttgtct ttttcgtcta agtaatccca aagcttctga ctttcataaa 2821 tcgtcttttc tgttctagga acctcaccga atatcttttc tactttttca cgcaaaatat 2881 tatctgcatc ctgatgcatt gcaaaataat aatcagtctc tggattagaa gatccaggat 2941 cagagcttat caaaccaatg tgcgtataag catcagtaag cctatcccaa atctttaatc 3001 ctttttcact tagatattcc aaatcttgaa atgataatgc ttctagttct tttctttttt 3061 tctcggtcat ttccttctta ttttggtttc tttaagccag cagcaatcaa catagcacta 3121 ttgcaaaaag cctttttatc ttgtattttc ttttccgtac ctcttgcatt atccttttca 3181 gaaaattgct tatatagctt ccatgcgcct gcttctttaa tgataggcaa gcactttact 3241 agattttcat ctgatatttt ccattcacgc cccttttcaa tgcaccgtct tttcttttcc 3301 ctatcttgtt caggggtctt ttcaatccat tcctcgagta ttttagaagc aggtttcaac 3361 ccttgtggat tgactaaata gaattctaaa ccaattatag gcggcctccc tttaacccct 3421 ttggcataaa ctttatcata gtcaaattca agttttgtgc ctttcaattc aatcaaaggc 3481 tctttgaaaa tattataaag cagatccttt gtattgtttt tgtatttctt ctcacagtcc 3541 atccaacccc ttaattcttc aagcgaaaca taccattttt cccccttctg taatatatcc 3601 tcaaatcctg aaagaatctc ccagatacgc acagaatacc atgaagtaaa attctttaat 3661 tgacccctct catatcgagt ataatgagca acttgcacga aatatggctc taaaactgga 3721 ttgattgcta tagtgatcat tccgtcttta tatgctgttt caaaaccatc cttaacctct 3781 gtttttgtag tgtcaagcaa atgacgaggg gcaaaatatt ttttttctaa gtcttgaatg 3841 agccaagaag tacttgccaa atctgtaaaa gctttcctcg ttatatcata agcacttcca 3901 ctatcagagt aattaaccac ttctgaaacg tgcatttgat aaaagggctt taaagtaaga 3961 tcattatcat gaatttgacc taaaacatta tccattatcc gttttgccac cacagaaact 4021 ttcttctgtt tagcaaacgt aatgttccag tgttgcttag caatctcctt caactccttt 4081 tcagggtatt ccatcgggat ggaaatttgc ggacttcttt tgtctttatg agccatgcac 4141 aaacataata aaagtagttt aaaaaacaaa ctcaatataa gagccacaaa cctcccttta 4201 aataattact tcacgccact ccactccctt taactcacgc cacaaacctc cctttaatta 4261 gttttactcc ttatagtaac tatttagtaa atactactat ttagttatgc tatgaaaaac 4321 gaattaaaaa acgtctaaaa atttcattca agatgatgaa ataggaacga gtgcagtcca 4381 ttaaatcagg gtgcaaacca aaacaaaaac aaaagggaaa aaaagaaatg ggcaacgaag 4441 tgccaccatt tagaaaagga aaattgcgcg cggtttatat atgctaaagg tgtatataaa 4501 aaaggaagcc atcaggaccc ctcccgatgg ctcatttcaa ccaaaacctt agcaaagtca 4561 agagcttgac ttcggtaaga taagcttcaa aggtaatgta ttttcctcac ccctgaaaat 4621 gcaaagttaa ttccgaccat tcgggagcca gtcaaggttt cccttcggca gtcttcaaaa 4681 aaatctccac cctttgggta gtattttttc ttgcctgacc ttgcccgtcc cgaaggtgcg 4741 gagttaaggg gcatttaaga ggttgaggga aaaaggagtg ttcgcaatgg tggcattcca 4801 tagcgagcat cctgtttgtt caacggctct cacaaagctt gcaaatttcc ttgcatggca 4861 attcatttag cagtagcttt gtagagagag gaagcaagat gtgttaaatg cattaa //