U.S. flag

An official website of the United States government

Escherichia coli strain JML108 sequence030, whole genome shotgun sequence

NCBI Reference Sequence: NZ_BFPU01000030.1

FASTA Graphics 

LOCUS       NZ_BFPU01000030        37315 bp    DNA     linear   CON 15-SEP-2024
DEFINITION  Escherichia coli strain JML108 sequence030, whole genome shotgun
            sequence.
ACCESSION   NZ_BFPU01000030 NZ_BFPU01000000
VERSION     NZ_BFPU01000030.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMD00077207
            Sequence Read Archive: DRR102799
            Assembly: GCF_005386745.1
KEYWORDS    WGS; RefSeq; STANDARD_DRAFT.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadati; Pseudomonadota; Gammaproteobacteria;
            Enterobacterales; Enterobacteriaceae; Escherichia.
REFERENCE   1
  AUTHORS   Arimizu,Y. and Ogura,Y.
  TITLE     Large scale genomics of bovine and human commensal E. coli to
            reveal the emerging process of EHEC
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 37315)
  AUTHORS   Arimizu,Y., Tanizawa,Y. and Ogura,Y.
  TITLE     Direct Submission
  JOURNAL   Submitted (24-APR-2018) Contact:Yoshitoshi Ogura Kyushu University,
            Department of Bacteriology, Faculty of Medical Sciences; 3-1-1,
            Maidashi, Higashi-ku, Fukuoka 812-8582, Japan URL
            :http://www.bact.med.kyushu-u.ac.jp
COMMENT     REFSEQ INFORMATION: The reference sequence is identical to
            BFPU01000030.1.
            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/
            
            ##Genome-Assembly-Data-START##
            Assembly Method       :: Platanus v. 1.2.2
            Genome Coverage       :: 69x
            Sequencing Technology :: Illumina MiSeq
            ##Genome-Assembly-Data-END##
            
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_005386745.1-RS_2024_09_15
            Annotation Date                   :: 09/15/2024 06:29:51
            Annotation Pipeline               :: NCBI Prokaryotic Genome
                                                 Annotation Pipeline (PGAP)
            Annotation Method                 :: Best-placed reference protein
                                                 set; GeneMarkS-2+
            Annotation Software revision      :: 6.8
            Features Annotated                :: Gene; CDS; rRNA; tRNA; ncRNA
            Genes (total)                     :: 5,363
            CDSs (total)                      :: 5,266
            Genes (coding)                    :: 4,907
            CDSs (with protein)               :: 4,907
            Genes (RNA)                       :: 97
            rRNAs                             :: 6, 5, 6 (5S, 16S, 23S)
            complete rRNAs                    :: 4 (5S)
            partial rRNAs                     :: 2, 5, 6 (5S, 16S, 23S)
            tRNAs                             :: 74
            ncRNAs                            :: 6
            Pseudo Genes (total)              :: 359
            CDSs (without protein)            :: 359
            Pseudo Genes (ambiguous residues) :: 0 of 359
            Pseudo Genes (frameshifted)       :: 106 of 359
            Pseudo Genes (incomplete)         :: 261 of 359
            Pseudo Genes (internal stop)      :: 53 of 359
            Pseudo Genes (multiple problems)  :: 54 of 359
            Pseudo Genes (short protein)      :: 1 of 359
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
FEATURES             Location/Qualifiers
     source          1..37315
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /submitter_seqid="sequence030"
                     /strain="JML108"
                     /isolation_source="feces"
                     /host="Homo sapiens"
                     /db_xref="taxon:562"
                     /geo_loc_name="Japan"
                     /collection_date="2015"
     gene            <487..642
                     /locus_tag="FFD94_RS03615"
                     /pseudo
     CDS             <487..642
                     /locus_tag="FFD94_RS03615"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001395480.1"
                     /note="internal stop; incomplete; partial in the middle of
                     a contig; missing N-terminus; Derived by automated
                     computational analysis using gene prediction method:
                     Protein Homology."
                     /pseudo
                     /codon_start=1
                     /transl_table=11
                     /product="IS630 family transposase"
     gene            complement(662..1498)
                     /locus_tag="FFD94_RS03620"
                     /old_locus_tag="HmCmsJML108_00657"
     CDS             complement(662..1498)
                     /locus_tag="FFD94_RS03620"
                     /old_locus_tag="HmCmsJML108_00657"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001446641.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_223175058.1"
                     /translation="MGTRDTSKIELTELGKSLVYPKSQEEEGNAILSSFLNIDLFKKV
                     YDYYQGGNLPEIEYLKNTLKTEFGIDDQLQDDFYNLYQQNLKYVREKVAREDSISTNS
                     VNDKTATASSSIMLGESQGQSKLIAFVAMPFSEKTSNYPHGYFDEVLKHLITPSAVKA
                     GFNAKTAKKAGSEVIQSTIVNDLDAADLVIVDLTEHNPNVLFELGMRIAFSKPVCLIR
                     AKGTAPIFDIDHMLRVYDYNPCLWPSTLESDIPQLSEHIKETWINRRERSYLDILREN
                     KS"
     gene            complement(1528..1779)
                     /locus_tag="FFD94_RS03625"
                     /old_locus_tag="HmCmsJML108_00658"
     CDS             complement(1528..1779)
                     /locus_tag="FFD94_RS03625"
                     /old_locus_tag="HmCmsJML108_00658"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001287855.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_001287855.1"
                     /translation="MSEDNEISQNETTPEVASETTPVVKVRKPRKKATKPKRDFPQYS
                     LEDCRKIADCLKEFNAGNPWAPGEVAKALGLGKVPIFST"
     gene            complement(1914..>2045)
                     /locus_tag="FFD94_RS03630"
                     /pseudo
     CDS             complement(1914..>2045)
                     /locus_tag="FFD94_RS03630"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_017802842.1"
                     /note="incomplete; partial in the middle of a contig;
                     missing N-terminus; Derived by automated computational
                     analysis using gene prediction method: Protein Homology."
                     /pseudo
                     /codon_start=1
                     /transl_table=11
                     /product="phage virion morphogenesis protein"
     gene            complement(<1994..2428)
                     /locus_tag="FFD94_RS03635"
                     /old_locus_tag="HmCmsJML108_00659"
                     /pseudo
     CDS             complement(<1994..2428)
                     /locus_tag="FFD94_RS03635"
                     /old_locus_tag="HmCmsJML108_00659"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001395480.1"
                     /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="transposase"
     gene            2962..10038
                     /gene="yeeJ"
                     /locus_tag="FFD94_RS03640"
                     /old_locus_tag="HmCmsJML108_00661"
     CDS             2962..10038
                     /gene="yeeJ"
                     /locus_tag="FFD94_RS03640"
                     /old_locus_tag="HmCmsJML108_00661"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:NP_416485.4"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="inverse autotransporter adhesin YeeJ"
                     /protein_id="WP_032158356.1"
                     /translation="MATKKRSGEEINDRQILCGMGIKLRRLTAGICLITQLAFPMAAA
                     AQGVVNAATQQPVPAQIAIANANTVPYTLGALESAQSVAERFGISVAELRKLNQFRTF
                     ARGFDNVRQGDELDVPAQVSEKKLTPPPGNSSDNLEQQIASTSQQIGSLLAEDMNSEQ
                     AANMARGWASSQASGAMTDWLSRFGTARITLGVDEDFSLKNSQFDFLHPWYETPDNLF
                     FSQHTLHRTDERTQINNGLGWRHFTPTWMSGINFFFDHDLSRYHSRAGIGAEYWRDYL
                     KLSSNGYLRLTNWRSAPELDNDYEARPANGWDVRAESWLPAWPHLGGKLVYEQYYGDE
                     VALFDKDDRQSNPHAITAGLNYTPFPLMTFSAEQRQGKQGENDTRFAVDFTWQPGSAM
                     QKQLDPNEVAARRSLAGSRYDLVDRNNNIVLEYRKKELVRLTLTDPVTGKSGEVKSLV
                     SSLQTKYALKGYNVEATALEAAGGKVVTTGKDILVTLPAYRFTSTPETDNTWPIEVTA
                     EDAKGNLSNREQSMVVVQAPTLSQKDSSVSLSTQTLNADSHSTATLTFIAHDAAGNPV
                     VGLVLSTRHEGVQDITLSDWKDNGDGSYTQILTTGAMSGTLTLMPQLNGVDAAKAPAV
                     VNIISVSSSRTHSSIKIDKDRYLSGNPIEVTVELRDENDKPVKEQKQQLNNAVSIDNV
                     KPGVTTDWKETADGVYKATYTAYTKGSGLTAKLLMQNWNEDLHTAGFIIDANPQSAKI
                     ATLSASNNGVLANENAANTVSVNVADEGSNPINDHTVTFAVLSGSATSFNNQNTAKTD
                     VNGLATFDLKSSKQEDNTVEVTLENGVKQTLIVSFVGDSSTAQVDLQKSKNEVVADGN
                     DSVTMTATVRDAKGNLLNDVMVTFNVNSAEAKLSQTEVNSHDEIATATLTSLKNGDYR
                     VTASVSSGSQANQQVNFIGDQSTAALTLSVPSGDITVTNTAPQYMTATLQDKNGNPLK
                     DKEITFSVPNDVASKFSISNGGKGMTDSNGVAIASLTGTLAGTHMIMARLANSNVSDA
                     QPMTFVADKDRAVVVLQTSKAEIIGNGVDETTLTATVKDPSNHPVAGITVNFTMPQDV
                     AANFTLENNGIAITQANGEAHVTLKGKKAGTHTVTATLGNNNTSDSQPVTFVADKASA
                     QVVLQISKDEITGNGVDSATLTATVKDQFDNEVNNLPVTFSSASSGLTLTPGVSNTNE
                     SGIAQATLAGVAFGEKTVTASLANNGASDNKTVHFIGDTAAAKIIELTPVPDSIIAGT
                     PQNSSGSVITATVVDNNGFPVKGVTVNFTSNAATAEMTNGGQAVTNEQGKATVTYTNT
                     RSSIESGARPDTVEASLENGSSTLSTSINVNADASTAHLTLLQALFDTVSAGETTSLY
                     IEVKDNYGNGVPQQEVTLSVSPSEGVTPSNNAIYTTNHDGNFYASFTATKAGVYQLTA
                     TLENGDSMQQTVTYVPNVANAEITLAASKDPVIADNNDLTTLTATVADTEGNAIANTE
                     VTFTLPEDVKANFTLSDGGKVITDAEGKAKVTLKGTKAGAHTVTASMTGGKSEQLVVN
                     FIADTLTAQVNLNVTEDNFIANNVGMTRLQATVTDGNGNPLANEAVTFTLPADVSASF
                     TLGQGGSAITDINGKAEVTLSGTKSGTYPVTVSVNNYGVSDTKQVTLIADAGTAKLAS
                     LTSVYSFVVSTTEGATMTASVTDANGNPVEGIKVNFRGTSVTLSSTSVETDDRGFAEI
                     LVTSTEVGLKTVSASLADKPTEVISRLLNASADVNSATITSLEIPEGQVMVAQDVAVK
                     AHVNDQFGNPVAHQPVTFSAEPSSQMIISQNTVSTNTQGVAEVTMTPERNGSYMVKAS
                     LPNGASLEKQLEAIDEKLTLTASSPLIGVYAPTGATLTATLTSANGTPVEGQVINFSV
                     TPEGATLSGGKVRTNSSGQAPVVLTSNKVGTYTVTASFHNGVTIQTQTTVKVTGNSST
                     AHVASFIADPSTIAATNTDLSTLKATVEDGSGNLIEGLTVYFALKSGSATLTSLTAVT
                     DQNGIATTSVKGAMTGSVTVSAVTTAGGMQTVDITLVAGPADTSQSVLKSNRSSLKGD
                     YTDSAELRLVLHDISGNPIKVSEGMEFVQSGTNVPYIKISAIDYSLNINGDYKATVTG
                     GGEGIATLIPVLNGVHQAGLSTTIQFTRAEDKIMSGTVSVNGTDLPTTTFPSQGFTGA
                     YYQLNNDNFAPGKTAADYEFSSSASWVDVDATGKVTFKNVGSNSERITATPKSGGPSY
                     VYEIRVKSWWVNAGEAFMIYSLAENFCSSNGYTLPRANYLNHCSSRGIGSLYSEWGDM
                     GHYTTDAGFQSNMYWSSSPANSSEQYVVSLATGDQSVFEKLGFAYATCYKNL"
     gene            complement(10300..11352)
                     /locus_tag="FFD94_RS03645"
                     /old_locus_tag="HmCmsJML108_00662"
                     /pseudo
     CDS             complement(10300..11352)
                     /locus_tag="FFD94_RS03645"
                     /old_locus_tag="HmCmsJML108_00662"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:NP_310804.1"
                     /note="internal stop; Derived by automated computational
                     analysis using gene prediction method: Protein Homology."
                     /pseudo
                     /codon_start=1
                     /transl_table=11
                     /product="glycosyltransferase family 9 protein"
     gene            11667..12983
                     /gene="shiA"
                     /locus_tag="FFD94_RS03650"
                     /old_locus_tag="HmCmsJML108_00663"
     CDS             11667..12983
                     /gene="shiA"
                     /locus_tag="FFD94_RS03650"
                     /old_locus_tag="HmCmsJML108_00663"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:NP_416488.1"
                     /GO_component="GO:0016020 - membrane [Evidence IEA]"
                     /GO_function="GO:0022857 - transmembrane transporter
                     activity [Evidence IEA]"
                     /GO_process="GO:0055085 - transmembrane transport
                     [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="shikimate transporter"
                     /protein_id="WP_000378575.1"
                     /translation="MDSTLISTRPDEGTLSLSRARRAALGSFAGAVVDWYDFLLYGIT
                     AALVFNREFFPQVSPAMGTLAAFATFGVGFLFRPLGGVIFGHFGDRLGRKRMLMLTVW
                     MMGIATALIGILPSFSTIGWWAPILLVTLRAIQGFAVGGEWGGAALLSVESAPKNKKA
                     FYSSGVQVGYGVGLLLSTGLVSLISMMTTDEQFLSWGWRIPFLFSIVLVLGALWVRNG
                     MEESAEFEQQQHYQAAAKKRIPVIEALLRHPGAFLKIIALRLCELLTMYIVTAFALNY
                     STQNMGLPRELFLNIGLLVGGLSCLTIPCFAWLADRFGRRRVYITGTLIGTLSAFPFF
                     MALEAQSIFWIVFFSIMLANIAHDMVVCVQQPMFTEMFGASYRYSGAGVGYQVASVVG
                     GGFTPFIAAALITYFAGNWHSVAIYLLAGCLISAMTALLMKDSQRA"
     gene            13085..14539
                     /gene="amn"
                     /locus_tag="FFD94_RS03655"
                     /old_locus_tag="HmCmsJML108_00664"
     CDS             13085..14539
                     /gene="amn"
                     /locus_tag="FFD94_RS03655"
                     /old_locus_tag="HmCmsJML108_00664"
                     /EC_number="3.2.2.4"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:NP_310806.1"
                     /GO_function="GO:0008714 - AMP nucleosidase activity
                     [Evidence IEA]"
                     /GO_process="GO:0044209 - AMP salvage [Evidence IEA];
                     GO:0009116 - nucleoside metabolic process [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="AMP nucleosidase"
                     /protein_id="WP_001060244.1"
                     /translation="MNNKGSGLTPAQALDKLDALYEQSVVALRNAIGNYITSGELPDE
                     NARKQGLFVYPSLTVTWDGSTTNPPKTRAFGRFTHAGSYTTTITRPTLFRSYLNEQLT
                     LLYQDYGAHISVQPSQHEIPYPYVIDGSELTLDRSMSAGLTRYFPTTELAQIGDETAD
                     GIYHPTEFSPLSHFDARRVDFSLARLRHYTGTPVEHFQPFVLFTNYTRYVDEFVRWGC
                     SQILDPDSPYIALSCAGGNWITAETEAPEEAISDLAWKKHQMPAWHLITADGQGITLV
                     NIGVGPSNAKTICDHLAVLRPDVWLMIGHCGGLRESQAIGDYVLAHAYLRDDHVLDAV
                     LPPDIPIPSIAEVQRALYDATKLVSGRPGEEVKQRLRTGTVVTTDDRNWELRYSASAL
                     RFNLSRAVAIDMESATIAAQGYRFRVPYGTLLCVSDKPLHGEIKLPGQANRFYEGAIS
                     EHLQIGIRAIDLLRAEGDRLHSRKLRTFNEPPFR"
     gene            14893..15609
                     /gene="yeeN"
                     /locus_tag="FFD94_RS03660"
                     /old_locus_tag="HmCmsJML108_00665"
     CDS             14893..15609
                     /gene="yeeN"
                     /locus_tag="FFD94_RS03660"
                     /old_locus_tag="HmCmsJML108_00665"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:NP_416490.1"
                     /GO_function="GO:0003677 - DNA binding [Evidence IEA]"
                     /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="YebC/PmpR family DNA-binding transcriptional
                     regulator"
                     /protein_id="WP_000532923.1"
                     /translation="MGRKWANIVAKKTAKDGATSKIYAKFGVEIYAAAKQGEPDPELN
                     TSLKFVIERAKQAQVPKHVIDKAIDKAKGGGDETFVQGRYEGFGPNGSMIIAETLTSN
                     VNRTIANVRTIFNKKGGNIGAAGSVSYMFDNTGVIVFKGTDPDHIFEILLEAEVDVRD
                     VTEEEGNIVIYTEPTDLHKGIAALKAAGITEFSTTELEMIAQSEVELSPEDLEIFEGL
                     VDALEDDDDVQKVYHNVANL"
     gene            complement(16062..16137)
                     /locus_tag="FFD94_RS03665"
                     /old_locus_tag="HmCmsJML108_00666"
     tRNA            complement(16062..16137)
                     /locus_tag="FFD94_RS03665"
                     /old_locus_tag="HmCmsJML108_00666"
                     /product="tRNA-Asn"
                     /inference="COORDINATES: profile:tRNAscan-SE:2.0.12"
                     /note="Derived by automated computational analysis using
                     gene prediction method: tRNAscan-SE."
                     /anticodon=(pos:complement(16102..16104),aa:Asn,seq:gtt)
     gene            complement(16238..17738)
                     /gene="yeeO"
                     /locus_tag="FFD94_RS03670"
                     /old_locus_tag="HmCmsJML108_00668"
                     /pseudo
     CDS             complement(16238..17738)
                     /gene="yeeO"
                     /locus_tag="FFD94_RS03670"
                     /old_locus_tag="HmCmsJML108_00668"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001323172.1"
                     /note="frameshifted; Derived by automated computational
                     analysis using gene prediction method: Protein Homology."
                     /pseudo
                     /codon_start=1
                     /transl_table=11
                     /product="toxic metabolite efflux MATE transporter YeeO"
     gene            17899..17974
                     /locus_tag="FFD94_RS03675"
                     /old_locus_tag="HmCmsJML108_00669"
     tRNA            17899..17974
                     /locus_tag="FFD94_RS03675"
                     /old_locus_tag="HmCmsJML108_00669"
                     /product="tRNA-Asn"
                     /inference="COORDINATES: profile:tRNAscan-SE:2.0.12"
                     /note="Derived by automated computational analysis using
                     gene prediction method: tRNAscan-SE."
                     /anticodon=(pos:17932..17934,aa:Asn,seq:gtt)
     gene            complement(18012..18962)
                     /gene="cbl"
                     /locus_tag="FFD94_RS03680"
                     /old_locus_tag="HmCmsJML108_00670"
     CDS             complement(18012..18962)
                     /gene="cbl"
                     /locus_tag="FFD94_RS03680"
                     /old_locus_tag="HmCmsJML108_00670"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:NP_416492.1"
                     /GO_function="GO:0003700 - DNA-binding transcription
                     factor activity [Evidence IEA]"
                     /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="HTH-type transcriptional regulator Cbl"
                     /protein_id="WP_001011006.1"
                     /translation="MNFQQLKIIREAARQDYNLTEVANMLFTSQSGVSRHIRELEDEL
                     GIEIFVRRGKRLLGMTEPGKALLVIAERILNEASNVRRLADLFTNDTSGVLTIATTHT
                     QARYSLPEVIKAFRELFPEVRLELIQGTPQEIATLLQNGEADIGIASERLSNDPQLVA
                     FPWFRWHHSLLVPHDHPLTQISPLTLESIAKWPLITYRQGITGRSRIDDAFARKGLLA
                     DIVLSAQDSDVIKTYVALGLGIGLVAEQSSGEQEEENLIRLDTRHLFDANTVWLGLKR
                     GQLQRNYVWRFLELCNAGLLVEDIKRQVMESSEEEIDYQI"
     gene            complement(19064..19981)
                     /gene="nac"
                     /locus_tag="FFD94_RS03685"
                     /old_locus_tag="HmCmsJML108_00671"
     CDS             complement(19064..19981)
                     /gene="nac"
                     /locus_tag="FFD94_RS03685"
                     /old_locus_tag="HmCmsJML108_00671"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:NP_416493.1"
                     /GO_function="GO:0003700 - DNA-binding transcription
                     factor activity [Evidence IEA]"
                     /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="nitrogen assimilation transcriptional regulator
                     NAC"
                     /protein_id="WP_001011462.1"
                     /translation="MNFRRLKYFVKIVDIGSLTQAAEVLHIAQPALSQQVATLEGELN
                     QQLLIRTKRGVTPTDAGKILYTHARAILRQCEQAQLAVHNVGQALSGQVSIGFAPGTA
                     ASSITMPLLQAVRAEFPEIVIYLHENSGAVLNEKLINHQLDMAVIYEHSPVAGVSSQA
                     LLKEDLFLVGTQDCPGQSVDVNAIAQMNLFLPSDYSAIRLRVDEAFSLRRLTAKVIGE
                     IESIATLTAAIASGMGVAVLPESAARSLCGAVNGWMSRITTPSMSLSLSLNLPARANL
                     SPQAQAVKELLMSVISSPVMEKRQWQLVS"
     gene            20308..20383
                     /locus_tag="FFD94_RS03690"
                     /old_locus_tag="HmCmsJML108_00672"
     tRNA            20308..20383
                     /locus_tag="FFD94_RS03690"
                     /old_locus_tag="HmCmsJML108_00672"
                     /product="tRNA-Asn"
                     /inference="COORDINATES: profile:tRNAscan-SE:2.0.12"
                     /note="Derived by automated computational analysis using
                     gene prediction method: tRNAscan-SE."
                     /anticodon=(pos:20341..20343,aa:Asn,seq:gtt)
     gene            complement(20439..21374)
                     /gene="ldtA"
                     /locus_tag="FFD94_RS03695"
                     /old_locus_tag="HmCmsJML108_00673"
     CDS             complement(20439..21374)
                     /gene="ldtA"
                     /locus_tag="FFD94_RS03695"
                     /old_locus_tag="HmCmsJML108_00673"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:NP_310812.2"
                     /GO_function="GO:0016740 - transferase activity [Evidence
                     IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="L,D-transpeptidase"
                     /protein_id="WP_000986321.1"
                     /translation="MMRRVNILCSFALLFASHTSLAVTYPLPPEGSRLVGQSFTVTVP
                     DHNTQPLETFAAQYGQGLSNMLEANPGADVFLPKSGSQLTIPQQLILPDTVRKGIVVN
                     VAEMRLYYYPPDSNTVEVFPIGIGQAGRETPRNWVTTVERKQEAPTWTPTPNTRREYA
                     KRGESLPAFVPAGPDNPMGLYAIYIGRLYAIHGTNANFGIGLRVSQGCIRLRNDDIKY
                     LFDNVPVGTRVQIIDQPVKYTTEPDGSNWLEVHEPLSRNRAEYESDRKVPLPVTPSLR
                     AFINGQEVDVNRANAALQRRSGMPVQISSGSRQMF"
     gene            complement(21436..22515)
                     /gene="cobT"
                     /locus_tag="FFD94_RS03700"
                     /old_locus_tag="HmCmsJML108_00674"
     CDS             complement(21436..22515)
                     /gene="cobT"
                     /locus_tag="FFD94_RS03700"
                     /old_locus_tag="HmCmsJML108_00674"
                     /EC_number="2.4.2.21"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:NP_416495.1"
                     /GO_function="GO:0008939 -
                     nicotinate-nucleotide-dimethylbenzimidazole
                     phosphoribosyltransferase activity [Evidence IEA]"
                     /GO_process="GO:0009236 - cobalamin biosynthetic process
                     [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="nicotinate-nucleotide--dimethylbenzimidazole
                     phosphoribosyltransferase"
                     /protein_id="WP_001166160.1"
                     /translation="MQILADLLNTIPAIDSTAMSRAQRHIDGLLKPVGSLGKLEVLAI
                     QLAGMPGLNGIPHVGKKAVLVMCADHGVWEEGVAISPKEVTAIQAENMTRGTTGVCVL
                     AEQAGANVHVIDVGIDTAEPIPGLINMRVARGSGNIASAPAMSRRQAEKLLLDVICYT
                     QELAKNGVTLFGVGELGMANTTPAAAIVSTITGRDPEEVVGIGANLPTDKLANKIDVV
                     RRAITLNQPNPQDGVDVLAKVGGFDLVGIAGVMLGAASCGLPVLLDGFLSYAAALAAC
                     QMSPAIKPYLIPSHLSAEKGARIALSHLGLEPYLNMEMRLGEGSGAALAMPIIEAACA
                     IYNNMGELAASNIVLPGNTTSDLNS"
     gene            complement(22527..23270)
                     /gene="cobS"
                     /locus_tag="FFD94_RS03705"
                     /old_locus_tag="HmCmsJML108_00675"
     CDS             complement(22527..23270)
                     /gene="cobS"
                     /locus_tag="FFD94_RS03705"
                     /old_locus_tag="HmCmsJML108_00675"
                     /EC_number="2.7.8.26"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:NP_416496.1"
                     /GO_function="GO:0051073 - adenosylcobinamide-GDP
                     ribazoletransferase activity [Evidence IEA]; GO:0008818 -
                     cobalamin 5'-phosphate synthase activity [Evidence IEA]"
                     /GO_process="GO:0009236 - cobalamin biosynthetic process
                     [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="adenosylcobinamide-GDP ribazoletransferase"
                     /protein_id="WP_016238101.1"
                     /translation="MSKLFWAMLSFITRLPVPRRWSQGLDFEHYSRGIITFPLIGLLL
                     GAISGLVFMVLQAWCGAPLAALFSVLVLVLMTGGFHLDGLADTCDGVFSARSRDRMLE
                     IMRDSRLGTHGGLALIFVVLAKILVLSELALRGESILASLVAACAVSRGTAALLMYRH
                     RYAREEGLGNVFIGKIDGRQTCVTLGLAAIFAAVLLPGMHGVAAMVVTMVAIFILGQL
                     LKRTLGGQTGDTLGAAIELGELVFLLALL"
     gene            complement(23267..23812)
                     /gene="cobU"
                     /locus_tag="FFD94_RS03710"
                     /old_locus_tag="HmCmsJML108_00676"
     CDS             complement(23267..23812)
                     /gene="cobU"
                     /locus_tag="FFD94_RS03710"
                     /old_locus_tag="HmCmsJML108_00676"
                     /EC_number="2.7.1.156"
                     /EC_number="2.7.7.62"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:NP_416497.1"
                     /GO_function="GO:0043752 - adenosylcobinamide kinase
                     activity [Evidence IEA]; GO:0000166 - nucleotide binding
                     [Evidence IEA]"
                     /GO_process="GO:0009236 - cobalamin biosynthetic process
                     [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="bifunctional adenosylcobinamide
                     kinase/adenosylcobinamide-phosphate guanylyltransferase"
                     /protein_id="WP_000973176.1"
                     /translation="MMILVTGGARSGKSRHAEALIGDSSQVLYIATSQILDDEMAARI
                     EHHRQGRPEHWRTVERWQHLDELIHADINPNEVVLLECVTTMVTNLLFDYGGDKDPDE
                     WDYQAMEQAINAEIQSLIAACQRCPAKVVLVTNEVGMGIVPESRLARHFRDIAGRVNQ
                     QLAAAANEVWLVVSGIGVKIK"
     gene            complement(23964..>24107)
                     /locus_tag="FFD94_RS27645"
                     /pseudo
     CDS             complement(23964..>24107)
                     /locus_tag="FFD94_RS27645"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001524956.1"
                     /note="incomplete; partial in the middle of a contig;
                     missing N-terminus; Derived by automated computational
                     analysis using gene prediction method: Protein Homology."
                     /pseudo
                     /codon_start=1
                     /transl_table=11
                     /product="cobalamin biosynthesis protein"
     gene            complement(<24116..>24304)
                     /locus_tag="FFD94_RS27650"
                     /pseudo
     CDS             complement(<24116..>24304)
                     /locus_tag="FFD94_RS27650"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_012904641.1"
                     /note="internal stop; incomplete; partial in the middle of
                     a contig; missing N-terminus and C-terminus; Derived by
                     automated computational analysis using gene prediction
                     method: Protein Homology."
                     /pseudo
                     /codon_start=1
                     /transl_table=11
                     /product="IS4 family transposase"
     gene            25484..>25984
                     /locus_tag="FFD94_RS03730"
                     /old_locus_tag="HmCmsJML108_00677"
                     /pseudo
     CDS             25484..>25984
                     /locus_tag="FFD94_RS03730"
                     /old_locus_tag="HmCmsJML108_00677"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:NP_310819.1"
                     /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="TonB-dependent receptor plug domain-containing
                     protein"
     gene            complement(<26172..26862)
                     /locus_tag="FFD94_RS03740"
                     /pseudo
     CDS             complement(<26172..26862)
                     /locus_tag="FFD94_RS03740"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_076611483.1"
                     /GO_function="GO:0003677 - DNA binding [Evidence IEA];
                     GO:0004803 - transposase activity [Evidence IEA]"
                     /GO_process="GO:0006313 - DNA transposition [Evidence
                     IEA]"
                     /note="frameshifted; internal stop; 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="transposase"
     gene            <26924..27284
                     /locus_tag="FFD94_RS03745"
                     /pseudo
     CDS             <26924..27284
                     /locus_tag="FFD94_RS03745"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000080195.1"
                     /note="frameshifted; incomplete; partial in the middle of
                     a contig; missing N-terminus; Derived by automated
                     computational analysis using gene prediction method:
                     Protein Homology."
                     /pseudo
                     /codon_start=1
                     /transl_table=11
                     /product="transposase"
     gene            27480..28694
                     /locus_tag="FFD94_RS03755"
                     /old_locus_tag="HmCmsJML108_00680"
                     /pseudo
     CDS             27480..28694
                     /locus_tag="FFD94_RS03755"
                     /old_locus_tag="HmCmsJML108_00680"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:NP_462448.3"
                     /note="internal stop; Derived by automated computational
                     analysis using gene prediction method: Protein Homology."
                     /pseudo
                     /codon_start=1
                     /transl_table=11
                     /product="PfkB family carbohydrate kinase"
     gene            28708..29466
                     /locus_tag="FFD94_RS03760"
                     /old_locus_tag="HmCmsJML108_00681"
     CDS             28708..29466
                     /locus_tag="FFD94_RS03760"
                     /old_locus_tag="HmCmsJML108_00681"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001066371.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="glutamine amidotransferase"
                     /protein_id="WP_001066367.1"
                     /translation="MNNTKKSLKVLFIGESWHIHMIHSKGYDSFTSSKYEEGATWLLQ
                     CLKNSQVDVTYMPAHTVQIAFPEDVAQLEQYDAIVISDIGSNTFLLQNDTFYQLRIKP
                     NALELIKEYVNNGGGLLMIGGYLSFMGIEAKANYKNTVLADVLPVTMLDGDDRVEKPE
                     GVIAQPSQPDHPVIKGFSEYPFFLGYNRAIAKENAEVVLTINNDPLLVFGNYHNGKIA
                     CFMSDCSPHWGTQQFMSWPFYTALWVNILTHIAR"
     gene            29523..30488
                     /locus_tag="FFD94_RS03765"
                     /old_locus_tag="HmCmsJML108_00682"
     CDS             29523..30488
                     /locus_tag="FFD94_RS03765"
                     /old_locus_tag="HmCmsJML108_00682"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001560587.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="DMT family transporter"
                     /protein_id="WP_000739825.1"
                     /translation="MKKNKYSTPLWVLATILAGMLSPMQSAVNGQLGHWLQDGNACAV
                     ISFASGLVVMFFIIMARKEIRQQFAAIPSLIKNRKVPLWNWFAGLCGAMVVFSEGASA
                     SALGVATFQTALISALLLSGLLCDRFGIGVDEKKYFTPYRIIGALFAVIATIFVVSPQ
                     WHSTSFILLAILPFLAGLLAGWQPAGNAKVAEATGSMLVSITWNFIVGFCVLGTALAI
                     RVALGHVTVQLPDVWWMYLGGPLGLMSIGLMAILVRGLGLLMLGVASTAGQLLGSVLI
                     DVLIPSLGNTVYLVTIIGTLFALVGAIVTTIPEYRASKTMKKMEV"
     gene            30491..31525
                     /locus_tag="FFD94_RS03770"
                     /old_locus_tag="HmCmsJML108_00683"
     CDS             30491..31525
                     /locus_tag="FFD94_RS03770"
                     /old_locus_tag="HmCmsJML108_00683"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:NP_462451.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="phosphotriesterase-related protein"
                     /protein_id="WP_000656344.1"
                     /translation="MKDYLQTVTGPVAREDMGLTLPHEHLFNDLSSVVDAPCYPFSQQ
                     LVDKKVTAEIQWALKHDPYCCADNMDRKPIEDVIFEINNFISLGGRTIVDATGSESIG
                     RDAQALREVALKTGLNIVASSGPYLEKFESQRIHKTVDELATTIDKELNQGIGDTDIR
                     AGMIGEIGVSPTFTEAEHNSLRAASLAQINNPHVAMNIHMPGWLRRGDEVLDIVLGEM
                     GVSPNKVSLAHSDPSGKDVAYQRKMLDKGVWLEFDMIGLDITFPKEGIAPGVQETADA
                     VAHLIELGYADQLVLSHDVFLKQMWAKNGGNGWGFVPDVFLAYLAERGVDKTILKKLC
                     IDNPGRLLTA"
     gene            complement(31565..>31857)
                     /locus_tag="FFD94_RS03775"
                     /pseudo
     CDS             complement(31565..>31857)
                     /locus_tag="FFD94_RS03775"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:NP_709217.2"
                     /note="frameshifted; incomplete; partial in the middle of
                     a contig; missing N-terminus; Derived by automated
                     computational analysis using gene prediction method:
                     Protein Homology."
                     /pseudo
                     /codon_start=1
                     /transl_table=11
                     /product="gamma-glutamyltransferase"
     gene            complement(31937..33556)
                     /locus_tag="FFD94_RS03780"
                     /pseudo
     CDS             complement(31937..33556)
                     /locus_tag="FFD94_RS03780"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001368704.1"
                     /GO_function="GO:0004803 - transposase activity [Evidence
                     IEA]"
                     /note="internal stop; Derived by automated computational
                     analysis using gene prediction method: Protein Homology."
                     /pseudo
                     /codon_start=1
                     /transl_table=11
                     /product="ISL3 family transposase"
     gene            complement(33840..34247)
                     /locus_tag="FFD94_RS03785"
                     /old_locus_tag="HmCmsJML108_00685"
     CDS             complement(33840..34247)
                     /locus_tag="FFD94_RS03785"
                     /old_locus_tag="HmCmsJML108_00685"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_016238421.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="zinc-ribbon domain-containing protein"
                     /protein_id="WP_001221623.1"
                     /translation="MRILNCYMANDSKGHFVTAKEAAKHNRQDVLCCVSCGCPLTLQR
                     GNDGQPPWFEHDQMTVAEKILLRCTWLDPAEKEARRLHLQGMTVPDYTVKVRKWFCVM
                     CDENYEGEKCCPSCGTGVYSREGGQEGNWKDRN"
     gene            complement(34235..34636)
                     /locus_tag="FFD94_RS03790"
                     /old_locus_tag="HmCmsJML108_00686"
     CDS             complement(34235..34636)
                     /locus_tag="FFD94_RS03790"
                     /old_locus_tag="HmCmsJML108_00686"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_004020115.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="putative zinc ribbon protein"
                     /protein_id="WP_000270974.1"
                     /translation="MYAKSFIALDGNGRLTGARTAQAAPYANYTCHLCGSALRYHPQY
                     DTELPWFEHTDDRLTEHGQQCPYVRPERREIQLIKRLQQFVPDALPVVRKASWHCRQC
                     HHDYYGERYCTHCQTGGFSIPRTTQEEICEF"
     gene            complement(34896..35465)
                     /locus_tag="FFD94_RS03795"
                     /old_locus_tag="HmCmsJML108_00687"
     CDS             complement(34896..35465)
                     /locus_tag="FFD94_RS03795"
                     /old_locus_tag="HmCmsJML108_00687"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000221568.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="inovirus Gp2 family protein"
                     /protein_id="WP_000221530.1"
                     /translation="MTYKYNPFWQQRIRETVRHALNVHPRLTALRVDLRFPDVPAATD
                     AAVISRFINALKARIDAYQKRKHREGKRVHPTTLHYVWAREFGECKGKKHYHLMLLVN
                     RDTWCRAGDYRAPGSLAGMIKQAWCSALGVDVGCHATLVHFPAWPAVWLERDDDTGFQ
                     QVLERADYLAKEHTKAHCTGERNFGCSRS"
     gene            35665..35865
                     /locus_tag="FFD94_RS27655"
                     /old_locus_tag="HmCmsJML108_00688"
     CDS             35665..35865
                     /locus_tag="FFD94_RS27655"
                     /old_locus_tag="HmCmsJML108_00688"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001297900.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_001297900.1"
                     /translation="MVIRKKKCRDCGNAITHNTVCCPYCGSVDPFGYYRNTDRIVTIL
                     LALIIVVLLTTVSVSVYILCSW"
     gene            <36547..36660
                     /locus_tag="FFD94_RS27140"
                     /pseudo
     CDS             <36547..36660
                     /locus_tag="FFD94_RS27140"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:NP_310828.1"
                     /note="incomplete; partial in the middle of a contig;
                     missing N-terminus; Derived by automated computational
                     analysis using gene prediction method: Protein Homology."
                     /pseudo
                     /codon_start=1
                     /transl_table=11
                     /product="DUF945 domain-containing protein"
     gene            36742..37221
                     /locus_tag="FFD94_RS03810"
                     /old_locus_tag="HmCmsJML108_00689"
     CDS             36742..37221
                     /locus_tag="FFD94_RS03810"
                     /old_locus_tag="HmCmsJML108_00689"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:NP_310829.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="antirestriction protein"
                     /protein_id="WP_000860076.1"
                     /translation="MKTVSQNTPTIYSATTPENNPPQLVASLVPDEQRISFWPQHFGL
                     IPQWVTLEPRVFGWMDRLCEDYCGGIWNLYTLNNGGAFMAPEPDDDDDETWVLFNAMN
                     GNRAEMSPEAAGIAACLMTYSHHACRTENYAMTVHYYRLRDYALQHPECSAIMRIID"
     gene            37237..>37315
                     /locus_tag="FFD94_RS27660"
                     /pseudo
     CDS             37237..>37315
                     /locus_tag="FFD94_RS27660"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:NP_310830.1"
                     /note="incomplete; too short partial abutting assembly
                     gap; missing C-terminus; Derived by automated
                     computational analysis using gene prediction method:
                     Protein Homology."
                     /pseudo
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
CONTIG      join(BFPU01000030.1:1..37315)
//
Feature
Display: FASTA GenBank Help
Details

Supplemental Content

Change region shown

Customize view

Recent activity

Your browsing activity is empty.

Activity recording is turned off.

Turn recording back on

See more...
External link. Please review our privacy policy.