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Treponema lecithinolyticum ATCC 700332 genomic scaffold Scaffold0, whole genome shotgun sequence

GenBank: KI260551.1

FASTA Graphics 

LOCUS       KI260551                5323 bp    DNA     linear   CON 22-MAR-2015
DEFINITION  Treponema lecithinolyticum ATCC 700332 genomic scaffold Scaffold0,
            whole genome shotgun sequence.
ACCESSION   KI260551 AWVH01000000
VERSION     KI260551.1
DBLINK      BioProject: PRJNA198879
            BioSample: SAMN02436727
KEYWORDS    WGS; HIGH_QUALITY_DRAFT.
SOURCE      Treponema lecithinolyticum ATCC 700332
  ORGANISM  Treponema lecithinolyticum ATCC 700332
            Bacteria; Pseudomonadati; Spirochaetota; Spirochaetia;
            Spirochaetales; Treponemataceae; Treponema.
REFERENCE   1  (bases 1 to 5323)
  AUTHORS   Weinstock,G., Sodergren,E., Wylie,T., Fulton,L., Fulton,R.,
            Fronick,C., O'Laughlin,M., Godfrey,J., Miner,T., Herter,B.,
            Appelbaum,E., Cordes,M., Lek,S., Wollam,A., Pepin,K.H.,
            Palsikar,V.B., Mitreva,M. and Wilson,R.K.
  TITLE     Direct Submission
  JOURNAL   Submitted (09-AUG-2013) The Genome Institute, Washington University
            School of Medicine, 4444 Forest Park, St. Louis, MO 63108, USA
COMMENT     Source DNA provided by Cori Leonetti, Jessica M. Blanton, Floyd E.
            Dewhirst, and Jacques Izard (The Forsyth Institute, Department of
            Microbiology, 245 First St, Cambridge, Massachusetts, 02142).
            Funded by NIDCR DE016937, 'A Foundation for the Oral Microbiome and
            Metagenome'.
            Bacteria obtained from American Type Culture Collection (P.O. Box
            1549, Manassas, VA 20108, USA). The phylogenetic relative position
            is available at www.homd.org.
            
            Coding sequences were predicted using GeneMark and Glimmer3.
            Intergenic regions not spanned by GeneMark and Glimmer3 were
            blasted against NCBI's non-redundant (NR) database and predictions
            generated based on protein alignments. tRNA genes were determined
            using tRNAscan-SE and non-coding RNA genes by RNAmmer and Rfam. The
            final gene set is processed through several programs such as Kegg,
            psortB and Interproscan to determine possible function. Gene
            product names are determined by BER. Gene names are generated at
            the contig level and may not necessarily reflect any known order or
            orientation between contigs.
            
            This is a reference genome for the Human Microbiome Project. This
            project is co-owned with the Human Microbiome Project DACC.
            
            This work was funded by the National Human Genome Research
            Institute (NHGRI)/National Institutes of Health (NIH) grant
            5U54HG00496804 for characterization of this genome.
            
            ##Genome-Assembly-Data-START##
            Finishing Goal           :: High-Quality Draft
            Current Finishing Status :: High-Quality Draft
            Assembly Method          :: Velvet v. 1.1.06
            Genome Coverage          :: 170x
            Sequencing Technology    :: Illumina
            ##Genome-Assembly-Data-END##
FEATURES             Location/Qualifiers
     source          1..5323
                     /organism="Treponema lecithinolyticum ATCC 700332"
                     /mol_type="genomic DNA"
                     /submitter_seqid="Scaffold0"
                     /strain="ATCC 700332"
                     /isolation_source="oral cavity- mouth"
                     /host="Homo sapiens"
                     /culture_collection="ATCC:700332"
                     /type_material="type strain of Treponema lecithinolyticum"
                     /db_xref="HMP:9193"
                     /db_xref="taxon:1321815"
     gene            <1..272
                     /locus_tag="HMPREF9193_00001"
     CDS             <1..272
                     /locus_tag="HMPREF9193_00001"
                     /codon_start=3
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="ERJ94595.1"
                     /translation="EARSPAEHSPTLSAADKEKLRMARINANYEHDKAALAKSDPLFA
                     KNQFWDVGHAEEDGEKLDEEQVKKDTAWFENSLNDEIKNRLGVHG"
     gene            269..1033
                     /locus_tag="HMPREF9193_00002"
     CDS             269..1033
                     /locus_tag="HMPREF9193_00002"
                     /inference="protein motif:HMMPfam:IPR025295"
                     /note="Psort location: Cytoplasmic, score: 8.96"
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="ERJ94596.1"
                     /db_xref="InterPro:IPR025295"
                     /translation="MSGKDNMDKQYTYTELLKAADSFIKKIDNFIGKAINFAKSHNRK
                     NYLKLQIDSESPKKEAEFMEYQTPDQIVYKSWEYNREHSLDTVILNEFNRTNDTDIEQ
                     VKISYGPAADEYARQNHALALVVANTIYFRNGAYKPETEEGRKLLAHELTHIAQNKNT
                     EAYRNSTVEEKEAEAEAKEVQQEYNPDPEIVIKIKGKYKRIRKSKIKREISALAEMEV
                     EKIQNEYAMISNEKKKLDYLINLETRLKRGEIKWLQ"
     gene            1021..2313
                     /locus_tag="HMPREF9193_00003"
     CDS             1021..2313
                     /locus_tag="HMPREF9193_00003"
                     /note="Psort location: Cytoplasmic, score: 8.96"
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="ERJ94597.1"
                     /translation="MAAISRYKAEQYVTKIFKEYLGALKEAKRNKKKLLPEANILFEG
                     MDEFAGFINSNNLQQKVYNRLNLEGIKELFNEAKLLALYYDLESFTSVKDCQIDTDTP
                     NDFQGWIVRLSSNGQVESIEYKNGNDVLEIFPDGKEEYHKYPGNGSRAGFLARYAGLP
                     VLADGTSTEMENVLCNAGYKYDIDAKKWIAEKNAEAEFDCYGNKIEKIPEPKDEIKKE
                     IYEKYYTIYKKWSKLITGINGNIIELDNGKGKIITTVPYYSQRDNATEDPPVRAGYMC
                     QITSLAMVLKTKGIKQKYPQMQFEDELYKIAKEKGYGGDNLWEKTAKLYDVVIKEVSS
                     DYTVAGIDNGYETEDVKQEIDKGNPVIMSINFKSGGHIIVVVGYTQCGFIVHDPYGNL
                     NKGRDDSYGFDSDGAYVEYPYNKWSIGEKWIRYLSKRK"
     gene            2315..2998
                     /locus_tag="HMPREF9193_00004"
     CDS             2315..2998
                     /locus_tag="HMPREF9193_00004"
                     /note="Psort location: Cytoplasmic, score: 8.96"
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="ERJ94598.1"
                     /translation="MKKQIIIALVLAIYTISKLTGQSSFFSIEDVTAYIERFKNNGLW
                     QEGRSSVLIERNKPETEYELNKIWDRSISTTWAEGAAGAGIGEYVTIEVRFLPSLFFE
                     DILSNIKIEGKLQINNGFCRSEKLFKDNNRVKRALITIYAVPLRVAQTGTFALKPGPM
                     ILKEFEIHIDDTNKLQVFNFDTEIQSFTDVEGSVDLFLRLTILEIYPGEKYNDTCISE
                     LHATAEIGN"
     gene            2999..3571
                     /locus_tag="HMPREF9193_00005"
     CDS             2999..3571
                     /locus_tag="HMPREF9193_00005"
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="ERJ94599.1"
                     /translation="MMKKKMYCLSIFILCICFCCKASDDVKKTADTFLHAMISGDYVK
                     MASFIKDKEGIRLSPIPFIYPDFQRKFVKNEIANCESDTALYNWFTDDPDNPDELTIK
                     DFIQRNYRCEAERFSKDSINKFITSTGYDDSRRYNNFYEIYPKCKFVEYYASPSGTYG
                     EMDWFSVCIILQAIDGDYYVVAVTCNYQGI"
     gene            3603..4523
                     /locus_tag="HMPREF9193_00006"
     CDS             3603..4523
                     /locus_tag="HMPREF9193_00006"
                     /note="Psort location: Cytoplasmic, score: 8.96"
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="ERJ94600.1"
                     /translation="MYRTNFSSTNSEKSSRSKFFGEKLGIGQKRADMMLQVAGYDYDS
                     TAGMNIPTKDKKRRTFTDFNIYGNELKIDITPEHKGDKIKEEAFNKFPEIYAVFGSRI
                     SGMNGTIIELDDGTGKVLGNVPYFHQRDNTTDEGTGKNRVYGDVMCQLTSLAMVLASK
                     GIKPTDPTKQLEDELYEIAKKEGRSGEKLWTPVKATYEKVIPKITDIYDASTGFKSED
                     EDLSKITEQIDIGNPVIVDIKFNSGGHVVVCVGYTAKTLIFHDPYGNLEKGKNNQYGS
                     DKNGAYVEYPKNKYRIGKNWIRYLSEKEDK"
     gene            4523..5251
                     /locus_tag="HMPREF9193_00007"
     CDS             4523..5251
                     /locus_tag="HMPREF9193_00007"
                     /note="Psort location: Cytoplasmic, score: 8.96"
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="ERJ94601.1"
                     /translation="MKKLIVLVYNILILSLFAYSFTKESASGFWEWLQKDVYWQAGRS
                     SVLIEKGYSAREYEWEKIRDKNLATAWVEGDNNAGIGAWIIIPINGDYQYLGYEHDIL
                     KKRINITLRINNGFCKNEIVFKNNNRVKKAKITIYEVPLCAYEDFRGTQAIGEPWISY
                     ETEIELEDRMDEQKFNFIFNPKAPYKEGSLYLFLKLTILEVYPGEKYDDTCISELHAT
                     ADVVKEKKPEVTKRKKSFFRKDKE"
CONTIG      join(AWVH01000001.1:1..5323)
//
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