LOCUS KY325483 10688 bp RNA linear VRL 09-JUN-2017 DEFINITION UNVERIFIED: Zika virus isolate Zika virus/H.sapiens-wt/USA/2016/FLUR015 polyprotein-like gene, complete sequence. ACCESSION KY325483 VERSION KY325483.1 DBLINK BioProject: PRJNA356429 KEYWORDS UNVERIFIED. SOURCE Zika virus ORGANISM Zika virus Viruses; Riboviria; Orthornavirae; Kitrinoviricota; Flasuviricetes; Amarillovirales; Flaviviridae; Orthoflavivirus; Orthoflavivirus zikaense. REFERENCE 1 (bases 1 to 10688) AUTHORS Grubaugh,N.D., Ladner,J.T., Kraemer,M.U.G., Dudas,G., Tan,A.L., Gangavarapu,K., Wiley,M.R., White,S., Theze,J., Magnani,D.M., Prieto,K., Reyes,D., Bingham,A.M., Paul,L.M., Robles-Sikisaka,R., Oliveira,G., Pronty,D., Barcellona,C.M., Metsky,H.C., Baniecki,M.L., Barnes,K.G., Chak,B., Freije,C.A., Gladden-Young,A., Gnirke,A., Luo,C., MacInnis,B., Matranga,C.B., Park,D.J., Qu,J., Schaffner,S.F., Tomkins-Tinch,C., West,K.L., Winnicki,S.M., Wohl,S., Yozwiak,N.L., Quick,J., Fauver,J.R., Khan,K., Brent,S.E., Reiner,R.C. Jr., Lichtenberger,P.N., Ricciardi,M.J., Bailey,V.K., Watkins,D.I., Cone,M.R., Kopp,E.W. Jr., Hogan,K.N., Cannons,A.C., Jean,R., Monaghan,A.J., Garry,R.F., Loman,N.J., Faria,N.R., Porcelli,M.C., Vasquez,C., Nagle,E.R., Cummings,D.A.T., Stanek,D., Rambaut,A., Sanchez-Lockhart,M., Sabeti,P.C., Gillis,L.D., Michael,S.F., Bedford,T., Pybus,O.G., Isern,S., Palacios,G. and Andersen,K.G. TITLE Genomic epidemiology reveals multiple introductions of Zika virus into the United States JOURNAL Nature (2017) In press PUBMED 28538723 REMARK Publication Status: Available-Online prior to print REFERENCE 2 (bases 1 to 10688) AUTHORS Ladner,J., Wiley,M., White,S., Nagle,E., Prieto,K., Reyes,D., Pfeffer,B., Gills,L. and Palacios,G. TITLE Direct Submission JOURNAL Submitted (09-DEC-2016) Center for Genome Sciences, United States Army Medical Research Institute for Infectious Diseases (USAMRIID), 1425 Porter Street, Fort Detrick, MD 21702, USA COMMENT GenBank staff is unable to verify sequence and/or annotation provided by the submitter. FEATURES Location/Qualifiers source 1..10688 /organism="Zika virus" /mol_type="genomic RNA" /isolate="Zika virus/H.sapiens-wt/USA/2016/FLUR015" /isolation_source="urine" /host="Homo sapiens" /db_xref="taxon:64320" /country="USA: Florida" /collection_date="24-Aug-2016" misc_feature 95..10366 /note="similar to polyprotein" gap 2007..2134 /estimated_length=128 gap 3741..4520 /estimated_length=780 gap 5467..5697 /estimated_length=231 gap 6690..6826 /estimated_length=137 gap 7037..7266 /estimated_length=230 BASE COUNT 2509 a 1918 c 2583 g 1867 t ORIGIN 1 tgtgaatcag actgcgacag ttcgagtttg aagcgaaagc tagcaacagt atcaacaggt 61 tttattttgg atttggaaac gagagtttct ggtcatgaaa aacccaaaaa agaaatccgg 121 aggattccgg attgtcaata tgctaaaacg cggagtagcc cgtgtgagcc cctttggggg 181 cttgaagagg ctgccagccg gacttctgct gggtcatggg cccatcagga tggtcttggc 241 gattctagcc tttttgagat tcacggcaat caagccatca ctgggtctca tcaatagatg 301 gggttcagtg gggaaaaaag aggctatgga aataataaag aagttcaaga aagatctggc 361 tgccatgctg agaataatca atgctaggaa ggagaagaag agacgaggcg cagatactag 421 tgtcggaatt gttggcctcc tgctgaccac agctatggca gcggaggtca ctagacgtgg 481 gagtgcatac tacatgtact tggacagaaa cgatgctggn nnnnnnnnnn ctttcccaac 541 cacattgggg atgaataagt gttatataca gatcatggat cttggacaca tgtgtgatgc 601 caccatgagc tatgaatgcc ctatgctgga tgagggggtg gaaccagatg acgtcgattg 661 ttggtgcaac acgacgtcaa cttgggttgt gtacggaacc tgccatcaca aaaaaggtga 721 agcacggaga tctagaagag ctgtgacgct cccctcccat tccactagga agctgcaaac 781 gcggtcgcaa acctggttgg aatcaagaga atacacaaag cacttgatta gagtcgaaaa 841 ttggatattc aggaaccctg gcttcgcgtt agcagcagct gccatcgctt ggcttttggg 901 aagctcaacg agccaaaaag ttatatactt ggtcatgata ctgctgattg ccccggcata 961 cagcatcagg tgcataggag tcagcaatag ggactttgtg gaaggtatgt caggtgggac 1021 ttgggttgat gttgtcttgg aacatggagg ctgtgtcacc gtaatggcac aggacaaacc 1081 gactgtcgac atagagctgg ttacaacaac agtcagcaac atggcggagg taagatccta 1141 ctgctatgag gcatcaatat cagacatgnc ttcggacagc cgctgcccaa cacaaggtga 1201 agcctacctt gacaagcaat cagacactca atatgtctgc aaaagaacgt tagtggacag 1261 aggctgggga aatggatgtg gactttttgg caaagggagc ctggtgacat gcgctaagtt 1321 tgcatgctcc aagaaaatga ccgggaagag catccagcca gagaatctgg agtaccggat 1381 aatgctgtca gttcatggct cccagcacag tgggatgatc gttaatgaca caggacatga 1441 aactgatgag aatagagcga aggttgagat aacgcccaat tcaccnnnnn nnnnnnnnnn 1501 nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn nnnacaggcc ttgacttttc 1561 agatttgtat tacttgacta tgaataacaa gcactggttg gttcacaagg agtggttcca 1621 cgacattcca ttaccttggc acgctggggc agacaccgnn nnnnnnnnnn nnnnnnnnnn 1681 nnnnnnnnnn nnnnngttca aggacgcaca tgccaaaagg caaactgtcg tggttctagg 1741 gagtcaagaa ggagcagttc acacggccct tgctggagct ctggaggctg agatggatgg 1801 tgcaaaggga aggctgtcct ctggccactt gaaatgtcgc ctgaaaatgg ataaacttag 1861 attgaagggc gtgtcatact ccttgtgtac cgcagcgttc acattcacca agatcccggc 1921 tgaaacactg cacgggacag tcacagtgga ggtacagtac gcagggacag atggaccttg 1981 caaggttcca gctcagatgg cggtggnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn 2041 nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn 2101 nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn nnnngtcggg gagaagaaga tcacccacca 2161 ctggcacagg agtggcagca ccattggaaa agcatttgaa gccactgtga gaggtgccaa 2221 gagaatggca gtcttgggag atacagcctg ggactttgga tcagttggag gcgctctcaa 2281 ctcattgggc aagggcatcc atcaaatttt tggagcagct ttcaaatcat tgtttggagg 2341 aatgtcctgg ttctcacaaa tcctcattgg aacgttgctg atgtggttgg gtctgaacac 2401 aaagaatgga tctatttccc tcatgtgctt ggccttaggg ggagtgttga tcttcttatc 2461 cacagccgtc tctgctgatg tggggtgctc ggtggacttc tcaaagaagg agacgagatg 2521 cggtacaggg gtgttcgtct ataacgacgt tgaagcctgg agggacaggt acaagtacca 2581 tcctgactcc ccccgtagat tggcagcagc agtcaagcaa gcctgggaag atggtatctg 2641 cgggatctcc tctgtttcaa gaatggaaaa catcatgtgg agatcagtag aaggggagct 2701 caatgcaatc ctggaagaga atggagttca actgacggtc gttgtgggat ctgtaaaaaa 2761 ccccatgtgg agaggtccac agagattgcc cgtgcctgtg aacgagctgc cccacggctg 2821 gaaggcttgg gggaaatcgt acttcgttag agcagcaaag acaaataaca gctttgtcgt 2881 ggatggtgac acactgaagg aatgcccact caaacataga gcatggaaca gctttcttgt 2941 ggaggatcat gggttcgggg tatttcacac tagtgtctgg ctcaaggtta gagaagatta 3001 ttcattagag tgtgatccag ccgttattgg aacagctgtt aagggaaagg aggctgtaca 3061 cagtgatcta ggctactgga ttgagagtga gaagaatgac acatggaggc tgaagagggc 3121 ccatctgatc gagatgaaaa catgtgaatg gccaaagtcc cacacattgt ggacagatgg 3181 aatagaagag agtgatctga tcatacccaa gtctttagct gggccactca gccatcacaa 3241 taccagagag ggctacagga cccaaatgaa agggccatgg cacagtgaag agcttgaaat 3301 tcggtttgag gaatgcccag gcactaaggt ccacgtggag gaaacatgtg gaacaagagg 3361 accatctctg agatcaacca ctgcaagcgg aagggtgatc gaggaatggt gctgcaggga 3421 gtgcacaatg cccccactgt cgttccgggc taaagatggc tgttggtatg gaatggagat 3481 aaggcccagg aaagaaccag aaagcaactt agtaaggtca gtggtgactg caggatcaac 3541 tgatcacatg gatcacttct cccttggagt gcttgtgatt ctgctcatgg tgcaggaagg 3601 gctgaagaag agaatgacca caaagatcat cataagcaca tcaatggcag tgctggtagc 3661 tatgatcctg ggaggatttt caatgagtga cctggctaag cttgcaattt tgatgggtgc 3721 caccttcgcg gaaatgaaca nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn 3781 nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn 3841 nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn 3901 nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn 3961 nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn 4021 nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn 4081 nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn 4141 nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn 4201 nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn 4261 nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn 4321 nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn 4381 nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn 4441 nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn 4501 nnnnnnnnnn nnnnnnnnnn tgaccatctg tggcatgaac ccaatagcca taccctttgc 4561 agctggagcg tggtacgtat acgtgaagac tggaaaaagg agtggtgctc tatgggatgt 4621 cctgctccca aggaagtaaa aaagggggag accacagatg gagtgtacag agtaatgact 4681 cgtagactgc taggttcaac acaagttgga gtgggagtta tgcaagaggg ggtctttcac 4741 actatgtggc acgtcacaaa aggatccgcg ctgagaagcg gtgaagggag acttgatcca 4801 tactggggag atgtcaagca ggatctggtg tcatactgtg gtccatggaa gctagatgcc 4861 gcctgggacg ggcacagcga ggtgcagctc ttggccgtgc cccccggaga gagagcgagg 4921 aacatccaga ctctgcccgg aatatttaag acaaaggatg gggacattgg agcggttgcg 4981 ctggattacc cagcaggaac ttcaggatct ccaatcctag acaagnnngg gagagtgata 5041 ggactttatg gcaatggggt cgtgatcaaa aatgggagtt atgttagtcc atcacccaag 5101 ggaggaggga ggaagagact cctgttgagt gcttcgagcc ttcgatgctg aagaagaagc 5161 agctaactgt cttagacttg catcctggag ctgggaaaac caggagagtt cttcctgaaa 5221 tagtccgtga agctataaaa acaagactcc gtactgtgat cttagctcca accagggttg 5281 tcgctgctga aatggaggaa gcccttagag ggcttccagt gcgttatatg acaacagcag 5341 tcaatgtcac ccattctgga acagaaatcg tcgacttaat gtgccatgcc accttcactt 5401 cacgtctact acagccaatc agagtcccca actataatct gtatattatg gatgaggccc 5461 acttcannnn nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn 5521 nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn 5581 nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn 5641 nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnngga 5701 acggcaatga gatcgcagct tgtctgacaa aggctggaaa acgggtcata cagctcagca 5761 gaaagacttt tgagacagag ttccagaaaa caaaacatca agagtgggac tttgtcgtga 5821 caaccgacat ttcagagatg ggcgccaact ttaaagctga ccgtgtcata gattccagga 5881 gatgcctaaa gccggtcata cttgatggcg agagagtcat tctggctgga cccatgcctg 5941 tcacacatgc cagcgctgcc cagaggaggg ggcgcatagg caggaatccc aacaaacctg 6001 gagatgagta tctgtatgga ggtgggtgcg cagagactga cgaagaccat gcacactggc 6061 ttgaagcaag aatgctcctt gacaatattt acctccaaga tggcctcata gcctcgctct 6121 atcgacctga ggccgacaaa gtagcagcca ttgagggaga gttcaagctt aggacggagc 6181 aaaggaagac ctttgtggaa ctcatgaaaa gaggagatct tcctgtttgg ctggcctatc 6241 aggttgcatc tgccggaata acttacacag atagaagatg gtgctttgat ggcacgacca 6301 acaacaccat aatggaagac agtgtgccgg cagaggtgtg gaccagacac ggagagaaaa 6361 gagtgctcaa accgaggtgg atggacgcca gagtttgttc agatcatgcg gccctgaagt 6421 cattcaagga gtttgccgct gggaaaagag gagcggcttt tggagtgatg gannnnnnnn 6481 nnnnnnnnnn nnnnnnnnnn nnnnnnagat tccaggaanc cattgacaac ctcgctgtgc 6541 tcatgcgggc agagactgga agcaggcctt acaaagccgc ggcggcccaa ttgccggaga 6601 ccctagagac cattatgctt ttggggttgc tgggaacagt ctcgctggga atctttttcg 6661 tcttgatgag gaacaagggc atagggaagn nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn 6721 nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn 6781 nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnaaga tctccccagg 6841 acaaccaaat ggcaatcatc atcatggtag cagtaggtct tctaggcttg atcaccgcca 6901 atgaactcgg atgnnnnnnn nnnnnnaaga gtgacctaag ccatctaatg ggaaggagag 6961 aggagggagc aaccatagga ttctcaatgg acattgacct gcggccagcc tcagcttggg 7021 ccatctatgc tgccttnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn 7081 nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn 7141 nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn 7201 nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn 7261 nnnnnntgat cccagggctg caggcagcag ctgcgcgtgc tgcccagaag agaacggcag 7321 ctggcatcat gaagaaccct gttgtggatg gaatagtggt gactgacatt gacacaatga 7381 caattgaccc ccaagtggag aaaaagatgg nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn 7441 nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn nnctnnnncc ntnatcacag 7501 ccgcaacttc cactttgtgg gaaggctctc cgaacaagta ctggaactcc tctacagcca 7561 cttcactgtg taacattttt aggggaagtt acttggctgg agcttctcta atctacacag 7621 taacaagaaa cgctggcttg gtcaagagac gtgggggtgg aacaggagag accctgggag 7681 agaaatggaa ggcccgcttg aaccagatgt cggccctgga gttctactcc tacaaaaagt 7741 caggcatcac cgaggtgtgc agagaagagg cccgccgcgc cctcaaggac ggtgtggcaa 7801 cgggaggcca tgctgtgtcc cgaggaagtg caaagctgag atggttggtg gagcggggat 7861 acctgcagcc ctatggaaag gtcattgatc ttggatgtng cngagggngc nggagtnact 7921 acgccgccnc catccgcaaa gttcaagaag tgaaaggata cacaaaagga ggccctggnn 7981 nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnacat agtccgtctc aagagtgggg 8041 tggacgtctt tcatatggcg gctgagccgt gtgacacgtt gctatgtgac ataggtgagt 8101 catcatctag tcctgaagtg gaagaagcac ggacgctcag agtcctctcc atggtggggg 8161 attggcttga aaaaagacca ggagcctttt gtataaaagt gttgtgccca tacaccagca 8221 ctatgatgga aaccctggag cgactgcagc gtaggtatgg gggaggactg gtcagagtgc 8281 cactctcccg caactctaca catgagatgt actgggtctc tggagcgaaa agcaacacca 8341 taaaaagtgt gtccaccang nnncngcncc tcttggggcg catggacggg cctaggaggc 8401 cagtgaaata tgaggaggat nnnnnnnnnn nnnnnnnnac gcgggctgtg gtaagctgcg 8461 ctgaagctcc caacatgaag atcattggta accgcattga aaggatccgc agtgagcacg 8521 cggaaacgtg gttctttgac gagaaccacc catataggac atgggcttac catggaagct 8581 atgaggcccn cacacaaggg tcagcatcct ctctagtaaa cggggttgtc aggctcctgt 8641 caaaaccctg ggatgtggtg actggagtca caggaatagc catgaccgac accacaccgt 8701 atggtcagca aagagttttc aaggaaaaag tggacactag ggtgccagac ccccaagaag 8761 gcactcgtca ggttatgagc atggtctctt cctggttgtg gaaagagcta ggtaaacaca 8821 aacggccacg agtctgtacc aaagaagagt tcatcaacaa ggttcgtagc aatgcagcat 8881 taggggcaat atttgaagag gaaaaagagt ggaagactgc agtggaagct gtgaacgatc 8941 caaggttctg ggctctagtg gacaaggaaa gagagcacca cctgagagga gagtgccaga 9001 gttgtgtgta caacatgatg ggaaaaagag aaaagaaaca aggggaattt ggaaaggcca 9061 agggcagccg cgccatctgg tatatgtggc taggggctag atttctagag ttcgaagccc 9121 ttggattctt gaacgaggat cactggatgg ggagagagaa ctcaggaggt ggtgttgaag 9181 ggctgggatt acaaagactc ggatatgtcc tagaagagat gagtcgcata ccaggaggaa 9241 ggatgtatgc agatgacact gctggctggg atacccgcat cagcaggttt gatctagaga 9301 atgaagctct aatcaccaac caaatggaga aagggcacag ggccttggca ttggccataa 9361 tcaagtacac ataccaaaac aaagtggtaa aggtccttag accagctgaa aaagggaaaa 9421 cagttatgga cattatttcg agacaagacc aaagggggag cggacaagtt gtcacttacg 9481 ctcttaacac atttaccaac ctagtggtgc aactcattcg gaatatggag gctgaggaag 9541 ttctagagat gcaagacttg tggctgctgc ggaggtcaga gaaagtgacc aactggttgc 9601 agagcaacgg atgggatagg ctcaaacgaa tggcagtcag tggagatgat tgcgttgtga 9661 agccaattga tgataggttt gcacatgccc tcaggttctt gaatgatatg ggaaaagtta 9721 ggaaggacac acaagagtgg aaaccctcaa ctggatggga caactgggaa gaagttccgt 9781 tttgctccca ccacttcaac aagctccatc tcaaggacgg gaggtccatt gtggttccct 9841 gccgccacca agatgaactg attggccggg cccgcgtctc tccaggggcg ggatggagca 9901 tccgggagac tgcttgccta gcaaaatcat atgcgcaaat gtggcagctc ctttatttcc 9961 acagaaggga cctccgactg atggccaatg ccatttgttc atctgtgcca gttgactggg 10021 ttccaactgg gagaactacc tggtcaatcc atggaaaggg agaatggatg accattgaag 10081 acatgcttgt ggtgtggaac agagtgtgga ttgaggagaa cgaccacatg gaagacaaga 10141 ccccagttac gaaatggaca gacattccct atttgggaaa aagggaagac ttgtggtgtg 10201 gatctctcat agggcacaga ccgcgcacca cctgggctga gaacattaaa aacacagtca 10261 acatggtgcg caggatcata ggtgaggaag aaaagtacat ggactaccta tccacccaag 10321 tccgctactt gggtgaagaa gggtctacac ctggagtgct gtaagcacca atcttaatgt 10381 tgtcaggcct gctagtcagc cacagcttgg ggaaagctgt gcagcctgtg acccccccag 10441 gagaagctgg gaaaccaagc ctatagtcag gccgagaacg ccatggcacg gaagaagcca 10501 tgctgcctgt gagcccctca gaggacactg agtcaaaaaa ccccacgcgc ttggaggcgc 10561 aggatgggaa aagaaggtgg cgaccttccc cacccttcaa tctggggcct gaactggaga 10621 tcagctgtgg atctccagaa gagggactag tggttagagg agaccccccg gaaaacgcaa 10681 aacagcat //