ID GQ475302; SV 1; linear; genomic RNA; STD; VRL; 8468 BP. XX AC GQ475302; XX DT 29-SEP-2009 (Rel. 102, Created) DT 29-SEP-2009 (Rel. 102, Last updated, Version 1) XX DE Calicivirus isolate Allston 2008/US, complete genome. XX KW . XX OS Calicivirus isolate Allston 2008/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Y., Keegan J., Zhou W., Connors T., Yang X., Mattaliano R.; RT "Nucleotide sequences of novel calicivirus isolates"; RL Unpublished.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 2008/US" FT /mol_type="genomic RNA" FT /country="USA" FT /collection_date="2008" FT /db_xref="taxon:673763" FT CDS 20..5815 FT /codon_start=1 FT /product="non-structural polyprotein" FT /note="orf1" FT /db_xref="GOA:C9E9F7" 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:C9E9F7" FT /protein_id="ACV95476.1" FT /translation="MAFAITHSSSTAHKPTLCSVALRLQSTDDTDIALWHQTTGTHIRF FT PNWKCARAFCRFVTDAYDMTPYKESARFVSQQLTRLSNYLSTQTGIWTSVTNSACVPDN FT SVSGTSMEFGSMAELTKALTTGFTFSVADANLGLINGLSTGLNKDDLTSPTLTNASDNN FT DTLTSEALTTEFNAEACPSCALYDKCPNCTAELINDDGTSQAPGDIPHWTHHKIASGIV FT NILSQDMTSMEDDDFANIAAHVKKALGTNSHPANNDMSKDQLNWLLNIAEASLIRKSDR FT TALPMNAARIAARRGWREKLFNEPADKLYSTLRKSKDSFQKSAIWSIIFEKAANAKHYS FT EIVFQEVVKLIKEECNPSNNFYFKVMAQSFLDHFRMLVIDNPDPVANLPKFILKLKPLN FT LKMIIENHENTAEGWIVTLTAVAELYGWLEFAIDLVPKIVSELYDLLTSATQKCYSMVR FT ELLTNLNILKAESLDLTNPFWYALAALLSYFITGFLPNNAKCSAIKQTLNGATTLVAGI FT TAIQKLAAMFSAWSNESVVDDLSTKVIGLTEVDNPTVTQDIDAVTNLQIMAEQVKDQIK FT LKTLDPTFQPYLPVLRNLMSTAESVISHCAKRKALATQRVAPVCIILTGPAGCGKTTLA FT YAIASRLSSQKPSVLNLNIDHHDAYTGNEVCIIDEFDSNPDSNFTEFVVEMVNTNPMLL FT NCDLIENKGKVFSSKYVIMTSNNETPVKPTSTRAPPFYRRVRIIDVTNPGVMNFKYANP FT GEEVPAYLYTYDFAHLQMSMRGFGAFSKTRVIDPEGRKACGLEARPGERVQVDDIVRYM FT QRVHRENQMAFKAEDKKRKTPRFAFVTQREHVDTVYKILAAAKTTYNGYYSLTKDSFDV FT NEGHNIGSSVFVVGDDMAIPPDCKIFRCNHLAMFRHPELAHIEGDNFRAALGVTMSDQD FT VTLMFYHIRGKHIQDEVRLDELPANHHIVTVHSVYDMAWALNRHLSLTGKWQALKAVYD FT LYMTPDILPAALRHWMDQTSFSSEHVVTQFIVPGGTIILETCNGARIWATSKRLIRAGG 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:C9E9F8" FT /protein_id="ACV95477.1" FT /translation="MARSSEYSSQNSLDEVYNYDTYDPFPNFERNLASYYSTDFCPRIN FT LEDFFLDPEDFDFCDHPFECCFPDYLDSLGVEEYIYEGDEPYIVLKHQLESSTFWEDGS FT FTYPILPPFKTSSVSYFMPKAGEVLHRCLMAVAKGMDPSLQVADRTAPTLFRAESGDAS FT SGSPDITGEEQGVVIATGTQPSAPAMATLATAATGTMPEEWKSFFSYYTTVNWSTTDET FT GKVLFVQGLSPRMNPFLDHLAKMYTGWSGSMEIRFTISGSGVFGGKVAAVMVPPGIGTE FT GGTSLLQFPHVLVDARQTEPVIFNIPDIRTVLWHDMHDTATAHLVILVYNDLLNPYQSA FT GTGTSCTITVETRGGADFEFHLLKPPSRKMIFGADPSKLIPKKSLFWEGNRLPGKFITF FT SIKPRIFQANRHFDCKRQTYGWSSPEHRGVQLSVRKETNHSKDGVKDIGIHDVNGLSTI FT KSSIPDGWPDYYNNEIVANNTTETFGNVEMAMLGTVVPFGVRGALTWKHLPECAFAHGT 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:C9E9F9" FT /protein_id="ACV95478.1" FT /translation="MSVAALITAGASATSAGTGLIGSIANAIHEGTRLKLQGTALGAQI FT RFQEAENQFNRDRFEFDKMNSKRWYQLAAEQQALVYKLNTEGPVLRAKAMMEAGFRNNL FT TSNGNQLTFNEVREAQLAAERRFYNPQIYK" XX SQ Sequence 8468 BP; 2334 A; 2147 C; 1863 G; 2124 T; 0 other; gccagttggt taatgagaaa tggcttttgc catcactcac tcgagctcaa ccgctcacaa 60 acctactctt tgctctgtag ccttacggct gcaaagcacc gatgacacag acattgctct 120 gtggcatcaa acaactggca cccacatccg gtttccaaac tggaagtgtg ctcgtgcctt 180 ctgccggttt gttactgacg cttacgacat gaccccctac aaggaatctg ctcgtttcgt 240 ctcccaacaa ctgacccggc tttcaaacta cctgtccacc cagacaggta tctggacctc 300 tgttaccaac tctgcttgtg tacccgacaa ctccgtctct ggcacctcaa tggaattcgg 360 ctcaatggct gaactgacta aggctttgac tactggattc accttctctg ttgctgacgc 420 taacctcgga ctgattaacg gactttcaac tggactgaac aaggatgacc tgacttctcc 480 aaccctgacc aacgcttctg acaacaacga cactctgacc tctgaagccc tgaccacgga 540 atttaacgct gaagcctgcc cgtcttgtgc cctgtacgac aaatgcccca actgcactgc 600 tgaactgatt aacgacgacg gaacatccca agcccctgga gacattccac actggactca 660 ccacaagatt gcctctggaa ttgtgaacat cctctcccaa gacatgacct caatggaaga 720 cgatgatttt gcaaacattg ctgcccacgt gaagaaagcc ctcggaacaa attcgcaccc 780 agcaaacaac gacatgtcca aagatcaact caactggctg ctgaacattg ctgaagcttc 840 cctgattcga aagtctgacc gcactgctct cccaatgaac gctgcccgta tagctgcccg 900 ccgtggatgg agagagaaac ttttcaacga acccgctgat aagttatact cgaccctccg 960 caaatccaaa gattcattcc aaaaatctgc aatttggtct ataatctttg aaaaggctgc 1020 caatgcaaaa cactactccg aaattgtttt ccaagaagtt gttaaactca tcaaagaaga 1080 atgcaacccc tctaacaatt tctactttaa ggttatggcc caaagcttcc tggaccactt 1140 caggatgctt gttattgaca accccgaccc tgtggccaac ctccccaaat tcattctcaa 1200 actcaaaccc ctgaacctga aaatgattat tgaaaaccat gaaaacaccg ccgaaggttg 1260 gattgtaact cttaccgccg tagccgaact ttacggttgg ttagagtttg ctatcgacct 1320 cgtgcccaaa 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 ttcgcaatct 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 aattttacag aatttgttgt agagatggtg aataccaacc ccatgctcct 2100 aaattgtgat ttgattgaaa acaaaggaaa ggtgttttct 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 tcacaatatc 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 aacttcctgc 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 aaggatatgg gcaacatcaa aacgattgat tcgtgctggc ggcatttccc acaacaatgg 3180 gccggaaggt ggattcagat ttggatccat tgcaccacgc gacatcccat ggagtgaaat 3240 actccgtgag ttccttaatc tcgtttcatt gatttggagc cggattaagg gagcaaccat 3300 tgtgctaaca 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 tgcacattgg ccatggtgtg tgcatttcac tgaaacatgt 3840 cctgaagacg ggctcctacg tcttcggaca gaaaccgttg aatgttacat ttaacggtga 3900 attggcgtat ttccaaatta acacttaccc aagctcagct gccccagttg ggtatgactc 3960 aaagcccgtt cgcgatccgt ggggacgccc agtgtcgact gagtggaaac acgaggtcta 4020 caacacttcc gcagggaaga tgtgtggatc aatcgcttgg actgcgacga aaacccaacc 4080 tggagattgc ggtctgccct acgttgacga tagggggaga attgttggac 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 aagacacatc ttgtggtcct tacattggcg gcagaaagaa 4620 ggatcacatc gatgaggaga caggtttacc tgacaagctc ctcatgaacc atttagcaga 4680 cagatggcaa ttggccgaac aaggccttgc aataccacat gagtacgcgc tcggactcaa 4740 agacgagctg cgacctgtgg ataagattgc tgttgccaaa aggagactca tttggggttg 4800 tgacgtagcc gtagcaaccg tcgcggccgc agccttcaag gatgtttctg atgccattat 4860 gtccatgcat gaattcggct tcattcaagt cggaatcaac atggacggaa gggcagtgga 4920 gacactttac gaccggctgt 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 tcatcctacg gactgaagcc tacaagaaca gacaaatctt cggcaccaat 5400 aactgaagta ccagaagacg aaaatgtgga atttctgaag agaacgttcg tgaaaacccc 5460 aaacggtatt cgcgcacttc tggacagaaa ctcattgctt cgtcaattct actacattaa 5520 aggcaagaat tcaatgaatt ggactgaacc accaaaagaa attgacacat cttctcgatc 5580 agcacaactc tggaatgtga tgctctacgc atcgcaacac ggagaaatgt tcttcgagaa 5640 atgtcgtcaa atgttaatga gagcaattga ccacgaaggc ctagtcatcg agcccattac 5700 gtatgacgcg gcgcttcaca aatacaactg ctatttcaat ggtgtgaacg attgcgaggt 5760 tcagatgcta agcagtgacg ctcccaatgc tcacgagata gtgtttgaga actgagcaat 5820 ggctcgctca agcgaataca gttcacaaaa ctctctggac gaggtgtaca actacgacac 5880 ctacgatcca tttccaaatt ttgaaagaaa tctggctagt tattactcta cagacttctg 5940 tcctcgaatc aatcttgaag acttctttct tgatcctgaa gactttgatt tctgtgacca 6000 cccatttgag tgttgctttc cggattactt ggattccctc ggggttgaag agtatatcta 6060 cgaaggcgat gaaccctaca tcgttctaaa gcaccaactg gagtcctcaa ccttttggga 6120 agatggttct ttcacctatc ctatccttcc 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 ccgcctggaa ttggaactga 6660 aggaggtacc agccttctgc agtttccaca tgtcctggtg gatgcacggc agacagagcc 6720 tgtcatcttc aacattcctg acatcaggac tgtgttgtgg catgacatgc acgacacagc 6780 gaccgcccat ttggttatct tagtgtacaa tgatcttctg aacccttacc aatcagctgg 6840 aacagggaca tcctgcacca tcacagtgga aacacgtggt ggagcggatt ttgaatttca 6900 cttgctgaaa cccccttcac gcaagatgat tttcggagct gacccatcaa agctcattcc 6960 caaaaagtcc ctgttctggg aaggaaatag acttcctggc aaattcataa ccttctccat 7020 caaaccaaga atctttcagg caaatcgtca ctttgattgc aagcgccaga cgtacgggtg 7080 gtcatcacct gagcatcgtg gtgtgcaact ctctgtgaga aaggagacca accatagtaa 7140 agacggagtt aaggacattg gcatacatga tgtgaatgga ctctcaacta taaagtccag 7200 catcccagac ggttggccgg actattacaa caacgaaata gttgccaaca acacgacaga 7260 aacgtttggg aatgtggaaa tggcaatgct aggcactgtg gttccgtttg gtgttagagg 7320 agccttgaca tggaagcatt tgccagagtg tgcctttgca catggaaccg cgaacaattc 7380 gagggttgtg tgtgggaagg tgctctcggg caacttctat gtcgtaggaa actttacgca 7440 agatggaaac ataattgtct accctgcatt ttacacatct aaaaataatg aaaacaaaat 7500 gattggtgaa gatgaagaca tggtcaaaag aatcgaggtt ttacctcaag cccaaacaac 7560 tggtggtaac tttcctcttt cttatgtgac ggaatttccc atggcacaca ccaatccgcc 7620 gcgggttatg aactcacagc tgctctggac atctaggatg ctcgctcagg acgtttacga 7680 cattgggcct gaagccttgg cagtcttcaa aatcaaagac tccgctggca actggtttga 7740 catcggaatt tcctgtgagg gattctcatt tgttggagct ccttcacttc ctttcccttc 7800 tcttcaattt cctcttgaag ccagctacgt gggaatggca tcagcttaca acaagctgca 7860 gcataacatt gctggtacat cagtaacgtt atgagtgtag 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 cgcaataatc 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 aaaaaaac 8468 //