ID GQ475301; SV 1; linear; genomic RNA; STD; VRL; 8468 BP. XX AC GQ475301; XX DT 29-SEP-2009 (Rel. 102, Created) DT 29-SEP-2009 (Rel. 102, Last updated, Version 1) XX DE Calicivirus isolate Allston 2009/US, complete genome. XX KW . XX OS Calicivirus isolate Allston 2009/US OC Viruses; ssRNA positive-strand viruses, no DNA stage; Caliciviridae. XX RN [1] RP 1-8468 RA Palermo A., Cao X., Klinger K., Phipps M., Pomponio R., Jones N., RA Plavsic M., Qui Y., Keegan J., Zhou W., Connors T., Yang X., Mattaliano R.; RT "Nucleotide sequences of novel calicivirus isolates"; RL Unpublished. XX RN [2] RP 1-8468 RA Palermo A., Cao X., Klinger K., Phipps M., Pomponio R., Jones N., RA Plavsic M., Qui Y., Keegan J., Zhou W., Connors T., Yang X., Mattaliano R.; RT ; RL Submitted (12-AUG-2009) to the INSDC. RL Functional Genomics, Genzyme Corporation, 49 New York Ave, Framingham, MA RL 01701, USA XX FH Key Location/Qualifiers FH FT source 1..8468 FT /organism="Calicivirus isolate Allston 2009/US" FT /mol_type="genomic RNA" FT /country="USA" FT /collection_date="2009" FT /db_xref="taxon:673764" FT CDS 20..5815 FT /codon_start=1 FT /product="non-structural polyprotein" FT /note="orf1" FT /db_xref="GOA:C9E9F4" FT /db_xref="InterPro:IPR000317" FT /db_xref="InterPro:IPR000605" FT /db_xref="InterPro:IPR001205" FT /db_xref="InterPro:IPR003593" FT /db_xref="InterPro:IPR004004" FT /db_xref="InterPro:IPR007094" FT /db_xref="InterPro:IPR009003" FT /db_xref="InterPro:IPR014759" FT /db_xref="UniProtKB/TrEMBL:C9E9F4" FT /protein_id="ACV95473.1" FT /translation="MAFAITHSSSTAHKTTLCSVASRLQSTDDTDIALWHQTTGTHIRF FT PNWKCARAFCRFVTDAYDMTPYKESARFVSQQLTRLSNYLSTQTGIWTSVTNSACVPDN FT SVSGTSMEFDSMAELTKALTTGFTFSVADANLGLINGLSTGLNKDDLTSPTLTNASDNN FT DTLTSEALTTEFNAEACPSCALYDKCPNCTAELINDDGTSQAPGDIPHWTHHKIASGIV FT NILSQDMTSMEDDDFANIAAHVKKALGTNSHPANNDMSKDQLNWLLNIAEASLIRKSDR FT TALPMNAARITARRGWREKLFNEPADKLYSTLRKSKDSFQKSAIWSIIFEKAANAKHYS FT EIVFQEVVKLIKEECNPSNNFYFKVMAQSFLDHFRMLVIDNPDPVANLPKFILKLKPLN FT LKMIIENHENTAEGWIVTLTAVAELYGWLEFAVDLVPKIVSELYDLLTSATQKCYSMVR FT ELLTNLNILKAESLDLTNPFWYALAALLSYFITGFLPNNAKCSAIKQTLNGATTLVAGI FT TAIQKLAAMFSAWSNESVVDDLSTKVIGLTEVDNPTVTQDIDAVTNLQIMAEQVKDQIK FT LKTLDPTFQPYLPVLRNLMSTAESVISHCAKRKALATQRVAPVCIILTGPAGCGKTTLA FT YAIASRLSSQKPSVLNLNIDHHDAYTGNEVCIIDEFDSNPDSNFTEFVVEMVNTNPMLL FT NCDLIENKGKVFSSKYVIMTSNNETPVKPTSTRAPPFYRRVRIIDVTNPGVMNFKYANP FT GEEVPAYLYTYDFAHLQMSMRGFGAFSKTRVIDPEGRKACGLEARPGERVQVDDIVRYM FT QRVHRENQMAFKAEDKKRKTPRFAFVTQREHVDTVYKILAAAKTTYNGYYSLTKDSFDV FT NEGHNIGSSVFVVGDDMAIPPDCKIFRCNHLAMFRHPELAHIEGDNFRAALGVTMSDQD FT VTLMFYHIRGKHIQDEVRLDELPANHHIVTVHSVYDMAWALNRHLSLTGKWQALKAVYD FT LYMTPDILPAALRHWMDQTSFSSEHVVTQFIVPGGTIILETCNGARMWATSKRLIRAGG FT ISHNNGPEGGFRFGSIAPRDIPWSEILREFLNLVSLIWSRIKGATIVLTALLLYMKRYK FT PRSEAKGKTKGGRGAIRHGGKGVVLADDEYDEWRDFKMDKRMDISVDEFLMLKHRAALG FT SDDRDSIQFRSWWSARQMRQDTGLDHEDVTVIGKGKVSHEVHRTEIMKAPKRPKKNGSY FT AWGEDMLAEGDGKVCNHVNAIMPVTGMCNEHIGHAVHIGHGVCISLKHVLKTGSYVFGQ FT KPLNVTFNGELAYFQINTYPSSAAPVGYDSKPVRDPWGRPVSTEWKHEVYNTSAGKMCG FT SIAWTATKTQPGDCGLPYVDDRGRIVGLHAGSGGDASPGRKIIIPVVKVKMNSNGVFAK FT AFWQEDRRTIKYKGLTVQETGEMRSIVKGTRLHVSPAHVDDYHECSHQPANLGAEDPRN FT PISLTNIVVNNLQPYKEPTPGPPENILVRAKKMLIAQLEPYIPKSETHLSMIEAFKKLN FT KDTSCGPYIGGRKKDHIDEETGLPDKLLMNHLADRWQLAEQGLAIPHEYALGLKDELRP FT VDKIAVAKRRLIWGCDVAVATVAAAAFKDVSDAIMSMHEFGFIQVGINMDGRAVETLYD FT RLYRKGMHRYCVDYSKWDSTQPPNVTTHSLDILRHFTDKSPIVDSAVATLSSPPIAVFG FT GVSFKTSGGLPSGMPLTSILNSLNHCLLVGCALIQSIEEKGVDVNWNIYDYMDMFTYGD FT DGVYIVPNFYDSVMPNVFNCLSSYGLKPTRTDKSSAPITEVPEDENVEFLKRTFVKTPN FT GIRALLDRNSLLRQFYYIKGKNSMNWTEPPKEIDTSSRSAQLWNVMLYASQHGEMFFEK FT CRQMLMRAIDHEGLVIEPITYDAALHKYNCYFNGVNDCEVQMLSSDAPNAHEIVFEN" FT CDS 5819..7894 FT /codon_start=1 FT /product="capsid protein precursor" FT /note="orf2" FT /db_xref="InterPro:IPR004005" FT /db_xref="UniProtKB/TrEMBL:C9E9F5" FT /protein_id="ACV95474.1" FT /translation="MARSSEYSSQNSLDEVYNYDTYDPFPNFERNLASYYSTDFCPRIN FT LEDFFLDPEDFDFCDHPFECCFPDYLDSLGVEEYIYEGDEPYIVLKHQLESSTFWEDGS FT FTYPILPPFKTSSVSYFMPKAGEVLHRCLMAVAKGMDPSLQVADRTAPTLFRAESGDAS FT SGSPDITGEEQGVVIATGTQPSAPAMATLATAATGTMPEEWKSFFSYYTTVNWSTTDET FT GKVLFVQGLSPRMNPFLDHLAKMYTGWSGSMEIRFTISGSGVFGGKVAAVMVPPEIGTE FT GGTSLLQFPHVLVDARQTEPVIFSIPDIRTVLWHDMHDTATAHLVILVYNDLLNPYQSA FT GTGTSCTITVETRGGTDFEFHLLKPPSRKMIFGADPSKLIPKKSLFWEGNRLPGKFITF FT SIKPRIFQANRHFDCKRQTYGWSSPEHRGVQLSVRKETNHSKDGAKDIGIHDVNGLSTI FT KSNIPDGWPDYYNNEIVANNTTESFGNVEMAMLGTVVPFGVRGALTWRHLPECAFAHGT FT ANNSRVVCGKVLSGNFYVVGNFTQDGNIIVYPAFYTSKNNENKMIGEDEDMVKRIEVLP FT QAQTTGGNFPLSYVTEFPMAHTNPPRVMNSQLLWTSRMLAQDVYDIGPEALAVFKIKDS FT AGNWFDIGISCEGFSFVGAPSLPFPSLQFPLEASYVGMASAYNKLQHNIAGTSVTL" FT CDS 7891..8295 FT /codon_start=1 FT /product="small structural protein" FT /note="orf3" FT /db_xref="InterPro:IPR007996" FT /db_xref="UniProtKB/TrEMBL:C9E9F6" FT /protein_id="ACV95475.1" FT /translation="MNVAALITAGASATSAGTGLIGSIANAIHEGTRLKLQGTALGAQI FT RFQEAENQFNRDRFEFDKMNSKRWYQLAAEQQALVYKLNTEGPVLRAKAMMEAGFRNNL FT TSNGNQLTFNEVREAQLAAERRFYNPQIYK" XX SQ Sequence 8468 BP; 2334 A; 2147 C; 1860 G; 2127 T; 0 other; ctcagaaatg gaacgagaaa tggcttttgc catcactcac tcgagctcaa ccgctcacaa 60 aactactctt tgctctgtag cctcacggct gcaaagcacc gatgacacag acattgctct 120 gtggcatcaa acaactggca cccacatccg gtttccaaac tggaagtgtg ctcgtgcctt 180 ctgccggttt gttactgacg cttacgacat gaccccctac aaggaatctg ctcgttttgt 240 ctcccaacaa ctgacccggc tttcaaacta cctgtccacc cagacaggta tctggacctc 300 cgttaccaac tctgcttgtg tacccgacaa ctccgtctct ggcacctcaa tggaatttga 360 ctcaatggct gaactgacta aggctttgac tactggattc accttctctg ttgctgacgc 420 caacctcgga ctgattaacg gactttcaac tggactgaac aaggatgacc tgacttctcc 480 aaccctgacc aacgcttctg acaacaacga tactctgacc tctgaagccc tgaccacgga 540 atttaacgct gaagcctgcc cgtcttgtgc cctgtacgac aaatgcccca actgcaccgc 600 cgaactgatt aatgacgacg gaacatccca agcccctgga gacattccac actggactca 660 ccacaagatt gcctctggaa ttgtgaacat cctctcccaa gacatgacct caatggaaga 720 cgatgatttt gcaaacattg ctgcccacgt gaagaaagcc ctcggaacaa attcgcaccc 780 agcaaacaac gacatgtcca aagatcaact caattggctg ctgaacattg ctgaagcttc 840 cctgattcga aagtctgacc gcactgctct cccaatgaat gctgcccgta ttactgcccg 900 ccgtggatgg agagagaaac ttttcaacga acccgctgat aagttatact cgaccctccg 960 caaatccaaa gattcatttc aaaaatctgc aatttggtct ataatctttg aaaaggctgc 1020 caatgcaaaa cactactccg aaattgtttt ccaagaagtt gttaaactca tcaaagaaga 1080 atgcaacccc tctaacaatt tctactttaa ggttatggcc caaagcttcc tggaccactt 1140 caggatgctt gttatcgaca accccgaccc tgtggccaac ctccccaaat tcattctcaa 1200 actcaaaccc ctgaacttga aaatgattat tgaaaaccat gaaaacaccg ccgaaggttg 1260 gattgtaact cttaccgccg tagccgaact ctacggttgg ttagagtttg ctgtcgacct 1320 cgtgcctaaa attgtatctg aactctatga ccttctcact tctgcaaccc aaaagtgcta 1380 ttctatggtt agagagcttc tgaccaatct taatattctg aaagctgaat ctcttgatct 1440 taccaatccc ttttggtatg ctcttgctgc tcttctttca tacttcatta caggcttcct 1500 acccaacaat gctaaatgct ctgccatcaa acaaacattg aatggcgcga caacccttgt 1560 cgctggaatt accgcaatac agaaattagc cgcaatgttc tctgcatggt cgaacgaaag 1620 tgtggtcgat gatctttcaa caaaggttat tggccttacg gaggtggaca acccaacagt 1680 tacacaggac attgatgctg tcaccaactt gcaaattatg gctgaacagg ttaaagatca 1740 aattaagctt aaaacacttg accctacctt tcaaccttac ttgcctgttc ttcgtaatct 1800 tatgtctact gctgaatctg taatatccca ctgtgctaaa cggaaagccc tcgctaccca 1860 gcgcgtggct cccgtttgca tcattcttac tggtcccgct ggctgtggca agacaaccct 1920 tgcttacgcc atcgcttcca gactttcctc tcaaaaacct tctgttctca acctcaacat 1980 cgatcaccac gatgcctaca caggcaacga ggtgtgcata attgatgaat ttgactcaaa 2040 tccggactca aatttcacag aatttgttgt agagatggtg aataccaacc ccatgctcct 2100 aaattgtgat ttgattgaaa acaaaggaaa ggtgttctct tccaagtacg tcatcatgac 2160 atccaacaat gagacacctg tgaagcccac atccacccgg gctccaccat tttaccggcg 2220 tgtgcgtatt attgatgtca ccaatccagg tgtcatgaat tttaaatacg caaatcccgg 2280 tgaagaagtc cccgcctacc tgtacacata tgactttgca cacttgcaaa tgtctatgcg 2340 agggtttggc gcgttctcca aaaccagggt tattgaccct gaaggccgca aggcttgtgg 2400 gcttgaggct cgccctggtg agcgcgtgca agttgacgac attgtcagat acatgcaacg 2460 tgttcatagg gagaaccaaa tggccttcaa agccgaagac aagaagcgca aaacgccccg 2520 ctttgctttc gtaacccaac gggagcatgt ggacaccgtt tacaagattc ttgctgcggc 2580 aaagaccacc tacaacgggt actactcgtt gacaaaagac tccttcgacg tgaacgaggg 2640 tcacaacatc ggttcctccg tattcgttgt tggagatgac atggccatac cacctgattg 2700 caaaattttc aggtgcaacc atcttgccat gtttcgtcac ccagaattgg cccacattga 2760 gggtgacaac ttcagagccg ctcttggagt cacaatgtca gatcaggacg taacacttat 2820 gttctatcac attcgtggca aacacatcca agatgaagtt cgcctcgacg agcttcctgc 2880 aaaccaccac atcgtcacag ttcactctgt atacgatatg gcttgggctc tgaaccgcca 2940 cttgtcatta accgggaaat ggcaagcact gaaggctgtg tacgatttgt acatgactcc 3000 cgacattctt ccagcggccc tgcgtcactg gatggatcaa acaagttttt cctccgagca 3060 tgttgtcaca caattcatcg tccctggtgg aaccatcatt cttgaaacct gtaacggtgc 3120 aaggatgtgg gcaacatcaa aacgattgat tcgtgctggc ggcatttccc acaacaatgg 3180 gccggaaggt ggattcagat ttggatccat tgcaccacgc gacatcccat ggagtgaaat 3240 actccgtgag ttccttaatc tcgtttcatt gatttggagc cggattaagg gagcaaccat 3300 tgtgctaact gccctcctgc tatacatgaa aaggtataag cctaggagtg aagccaaggg 3360 caagacaaag ggaggacgtg gagccatccg ccatggaggg aagggggtgg tcctcgccga 3420 tgatgagtac gatgaatgga gagacttcaa gatggacaag agaatggaca tctctgtgga 3480 tgaattcttg atgctcaaac atcgtgctgc cttgggttcc gacgatcggg actcaatcca 3540 gtttcgttcc tggtggtccg ccaggcaaat gagacaggac actggccttg atcatgaaga 3600 cgtcaccgta attggcaaag gaaaggtgag tcacgaagtg catcgcaccg aaatcatgaa 3660 agcaccaaaa cgacccaaga aaaacggaag ttacgcttgg ggcgaagaca tgctggctga 3720 gggtgatggt aaagtttgca accatgtgaa cgctatcatg cccgtaactg gtatgtgcaa 3780 tgaacacatt ggacacgcag tccacattgg ccatggtgtg tgcatttcac tgaaacatgt 3840 cctgaagacg ggctcctacg tcttcggaca gaaaccgttg aatgttacat ttaacggtga 3900 attggcgtat ttccaaatta acacttaccc aagctcagct gccccagttg ggtatgactc 3960 aaagcccgtt cgcgatccgt ggggacgccc agtttcgact gagtggaaac acgaggtcta 4020 caacacttcc gcagggaaga tgtgtggatc aatcgcttgg actgcgacga aaacccaacc 4080 tggagattgc ggtctgccct acgttgacga tagggggaga atcgttggac tgcatgctgg 4140 gtctggtggt gatgcgtccc caggacgcaa aatcatcatt cccgtcgtga aagtcaaaat 4200 gaactccaac ggggtctttg ccaaagcttt ttggcaagaa gatcgccgaa ccatcaaata 4260 caaagggctt accgttcaag aaacaggtga gatgcgcagc atcgttaaag gaacacgcct 4320 ccatgtgtca ccagcacacg tggatgatta ccatgaatgt tcacatcagc ccgcaaacct 4380 aggagctgaa gatccgcgaa acccaatttc gctcacaaac atcgtggtga acaatctgca 4440 accatacaaa gaaccaacgc ctggccctcc tgagaacatt ctcgtgagag ccaagaaaat 4500 gctcattgct caattggaac cttacatccc aaaatctgaa acacatctat ctatgataga 4560 ggcattcaaa aagttgaaca aagatacatc ttgtggtcct tacattggcg gcagaaagaa 4620 ggatcacatc gatgaggaga caggtttacc tgataagctc ctcatgaacc atttagcaga 4680 cagatggcaa ttggccgaac aaggccttgc aataccacat gagtacgctc tcggactcaa 4740 agacgagctg cgacctgtgg ataagattgc tgttgccaaa aggagactca tttggggttg 4800 tgacgtagcc gtagcaaccg tcgcggccgc agccttcaag gatgtttctg atgccattat 4860 gtccatgcat gaattcggct tcattcaagt cggaatcaac atggacggaa gggcagtgga 4920 gacactctac gatcggctgt accgcaaagg tatgcatcgg tattgcgttg actactccaa 4980 gtgggattca actcaacctc caaatgtaac aacacactct cttgacattc ttcgtcactt 5040 tactgacaaa tcacctattg ttgattctgc tgttgctaca ctttcatctc ctcctattgc 5100 tgtctttggt ggggtatcct ttaaaacctc tggtggcttg ccatccggta tgccgctaac 5160 ctctattctc aattctctca accattgcct cttggttggg tgtgcactca tccaatcaat 5220 tgaggagaag ggtgttgatg tcaattggaa catctacgat tacatggaca tgttcaccta 5280 cggtgatgat ggcgtgtata tcgtgccaaa tttctatgat tctgttatgc ctaatgtctt 5340 taactgtctt tcatcctatg gactgaagcc tacaagaaca gacaaatcct cggcaccaat 5400 aactgaagta ccagaagacg aaaatgtgga atttctgaag agaacgttcg tgaagacccc 5460 aaacggtatt cgcgcacttc tggacagaaa ctcattgctt cgtcaattct actacatcaa 5520 aggcaagaat tcaatgaatt ggactgaacc accaaaagaa attgacacat cttctcgatc 5580 agcacaactc tggaatgtga tgctctacgc atcgcaacac ggagaaatgt tcttcgagaa 5640 atgtcgtcaa atgttaatga gagcaattga ccacgaaggc ctagtcatcg agcccatcac 5700 gtatgacgcg gcgcttcaca aatacaactg ctatttcaat ggtgtgaacg attgcgaggt 5760 tcagatgcta agcagtgacg ctcccaatgc tcacgagata gtgtttgaga actgagcaat 5820 ggctcgctca agcgaataca gttcacaaaa ctctctggac gaggtttaca attacgacac 5880 ctacgatcca tttccaaatt ttgaaagaaa tctggctagt tattactcta cagacttctg 5940 tcctcgaatc aatcttgaag acttctttct tgatcctgaa gactttgatt tctgtgacca 6000 cccatttgag tgttgctttc cggattactt ggattccctc ggggttgaag agtatatcta 6060 tgaaggcgat gaaccctaca tcgttctaaa gcaccaactg gagtcctcaa ccttttggga 6120 agatggttct ttcacctatc ctattcttcc acccttcaaa actagctccg tttcctattt 6180 catgcccaaa gcaggcgaag tccttcaccg ctgccttatg gctgtggcca aggggatgga 6240 tccgtcactt caggtcgcag accgaacagc accaacactg ttcagagctg aatctggcga 6300 tgcatcttcc ggaagccccg acataacggg agaggagcag ggcgtagtta ttgctacagg 6360 cactcaacca tccgctccag caatggcaac tcttgccaca gctgcaacag gtactatgcc 6420 tgaagagtgg aaatcattct tttcctacta caccaccgtc aactggtcta caacggatga 6480 gactggcaaa gtcttgttcg tacagggatt gtcccctcgg atgaaccctt ttctagatca 6540 cttggccaag atgtacacag ggtggtcagg atccatggaa atccgcttta caatcagtgg 6600 atccggggtc tttggtggca aggttgctgc tgtcatggtc ccgcctgaaa ttggaactga 6660 aggaggcacc agccttctac agtttccaca tgtcctggtg gatgcacggc agacagagcc 6720 tgtcatcttc agcattcctg acatcaggac tgtgttgtgg catgacatgc acgacacagc 6780 gaccgcccat ttggttatct tagtgtacaa tgatcttctg aacccttacc aatcagctgg 6840 aacagggaca tcctgcacca tcacagtgga aacacgtggt ggaacggatt ttgaatttca 6900 cttgctgaaa cccccttcac gcaagatgat tttcggagct gacccatcaa agctcattcc 6960 caaaaagtcc ctgttctggg aaggaaacag acttcctggc aaattcataa ccttctccat 7020 caaaccaaga atctttcagg caaatcgtca ctttgattgc aagcgccaga cgtacgggtg 7080 gtcatcacct gagcatcgtg gtgtgcaact ctctgtgaga aaggagacca accatagtaa 7140 agatggagct aaggacattg gcatacatga tgtgaatgga ctctcaacta taaagtccaa 7200 catcccagac ggttggccgg actattacaa caacgaaata gttgccaaca acacgacaga 7260 atcgtttggg aatgtggaaa tggcaatgct aggcactgtg gttccgtttg gtgttagagg 7320 agccttgaca tggaggcatt tgccagagtg tgcctttgca catggaaccg cgaacaattc 7380 gagggttgtg tgtgggaagg tgctctcggg caacttctat gtcgtaggaa actttacgca 7440 agatggaaac ataattgtct accctgcatt ttacacatct aaaaataatg aaaacaaaat 7500 gattggtgaa gatgaagaca tggtcaaaag aattgaggtt ttacctcaag cccaaacaac 7560 tggtggtaac tttcctcttt cttatgtgac ggaatttccc atggcacaca ccaatccgcc 7620 gcgggttatg aactcacagc tgctctggac atctaggatg ctcgctcagg acgtttacga 7680 cattgggcct gaagccttgg cagtcttcaa aatcaaagac tccgctggca actggttcga 7740 catcggaatt tcctgtgagg gattctcatt tgttggagct ccttcacttc ctttcccttc 7800 tcttcaattt cctcttgaag ccagctacgt gggaatggca tcagcttaca acaagctgca 7860 gcataacatt gctggtacat cggtaacgtt atgaatgtag ccgcattgat caccgcagga 7920 gctagcgcca caagcgccgg cacaggtttg attggatcaa tcgcaaatgc catccacgaa 7980 gggacccgcc tgaaactcca gggaacagcc cttggtgcgc agattcgttt tcaagaagct 8040 gaaaatcaat tcaaccgaga tcggtttgaa tttgataaga tgaacagtaa gcgctggtac 8100 caactagcag ctgaacaaca agctcttgtt tacaaactga acactgaagg cccagtactc 8160 agagctaagg caatgatgga agctggtttc cgtaacaatc ttacatctaa tggaaatcaa 8220 ttaaccttca atgaggttcg tgaagcccag ctcgctgccg agcgaaggtt ttacaaccca 8280 caaatttata aatagagaga ccctgtggta cgtcacagcg ccgtatcagc aggattgcac 8340 gtctcttggc ctcattaaag ccactggatt caattgattt tacctcattt gtcctcaatt 8400 agtgaagttt ttggattctt tttcttgatt aatttgaact atttggcaaa acaattggaa 8460 aaggaaaa 8468 //