LOCUS JF713710 6318 bp RNA linear VRL 02-NOV-2011 DEFINITION Porcine astrovirus 2 strain 43/USA, complete genome. ACCESSION JF713710 VERSION JF713710.1 KEYWORDS . SOURCE Porcine astrovirus 2 (PAstV2) ORGANISM Porcine astrovirus 2 Viruses; Riboviria; Orthornavirae; Pisuviricota; Stelpaviricetes; Stellavirales; Astroviridae; Mamastrovirus. REFERENCE 1 (bases 1 to 6318) AUTHORS Shan,T., Li,L., Simmonds,P., Wang,C., Moeser,A. and Delwart,E. TITLE The fecal virome of pigs on a high-density farm JOURNAL J. Virol. 85 (22), 11697-11708 (2011) PUBMED 21900163 REFERENCE 2 (bases 1 to 6318) AUTHORS Shan,T., Li,L. and Delwart,E. TITLE Direct Submission JOURNAL Submitted (22-MAR-2011) Blood Systems Research Institute, Department of Laboratory Medicine, University of California-San Francisco, San Francisco, CA 94118, USA FEATURES Location/Qualifiers source 1..6318 /organism="Porcine astrovirus 2" /mol_type="genomic RNA" /strain="43/USA" /isolation_source="porcine stool" /host="Sus scrofa" /db_xref="taxon:1105378" /geo_loc_name="USA" /collection_date="2010" /note="acronym: PAstV2" CDS join(40..2467,2467..3977) /ribosomal_slippage /codon_start=1 /product="ORF1ab" /protein_id="AER29999.1" /translation="MSLYLNRADEALATFDGTQLKPRFDARNWFDELRRIGPNLPWYI TYQPRMMFFPTLKPDRVLTASTVCEGEWRTFVLDMCCGVHVATEVNHIPDHQPTILAA ALIADRAEKARMISDLRLDNEILRGQIAVLRQEQVTTPRLALTWPTIFALVFLGFSLF WHSANALTTTSTTQSVNPMKILELNKWLDDFIDKAKNVIHTHHYTVVNTVRQSPSWLL ATTIVPYLWQVVTVVLSVITVYRAEHRILSLLFLAAATISGGDWVFLASASFQTHASA IIQIACVIISHMDPIGAICVSALAMFGTFIASMCASSTTFIQHSRAASLNTAILVLSI VLRTMRLPSMPIAIGLAVIRAYTILTTPSGATVEIRSDDGKVLAKESLKPSLLFRFKQ KLRKFAQLRSSMPPLVRVNPTAVLRIETPDGIGTGFFCANYIVTAGHVVGQHKVVSAC VGNAKYQAPVVRHVENKDIALLKIPQPLQSYPRLKIASKIETEWLCVYSPDGEGAIVS SVTPGHQVDECLDYATPTRDGMSGAPVVNVDGRVMGVHLTNTGFTGGAQILTQADVTD PPKSTPTEDKLRAELEELKKQLATFTQSSTHDDIIGLIREAMAREMKILRAELNKELA IITQDQQDDFSQTKKGKTKRGRGRIKLRLAGAKKRRQKGPVFTEEEYQRLLDEGLTPD EIRNMVDELYEEESAGFPEWEEMSDGYDPDEDWEFESDSDFGQKKIKVPSFNQYLERH YNPKDVRNMLDSLTPADIEAVGPLYPLTIKCSNPGLCSALLCCIDRYAALNGLSPPTQ GLNYTQRRVPKKREAGPEPSGPEIHKLDAWESLRLPPRRRLVPDNYPVVCNLPINRPI FDTKLADDPLLGLLPPCDPDLPFGPAVWGPEAYTKSFEKFYYAEPSKFWELYPEECAF ADKQWRKHYNFLEDSRVIHITSTDKNMDSTPGYPKCEEYESEREYLEENGWGPYIKEF KRIDAGEKPKVLWYCFLKKEQLKKEKIKDGDIRQIVCPDTIYSRIGAALEQHQNNLMK KHTEDSSGQCGWTPFFGGFERRMRGLDHGHIIEFDWTRFDGTIPRALLKHIKDLRWEK MNKTHRERYKHIHNWYVENLLTRYVLMPSGEVTVQRRGNPSGQISTTPDNCMVNYWLQ AFEFAYLNKGKDINELWKDYETIVYGDDRLTSTPCIPDNYVDRVVEMYKTVFGMWVKP EKVKVTNTIKGASFCGFTVGDNYQPIPSNPDKLWSSLVTPCQKLPDELALYGKLLSFK ILMHNSEEHPFKEYVEKCLAALETGRTLPKITDEQLDRLWRGGPKTASNG" CDS 40..2514 /codon_start=1 /product="ORF1a" /protein_id="AER29998.1" /translation="MSLYLNRADEALATFDGTQLKPRFDARNWFDELRRIGPNLPWYI TYQPRMMFFPTLKPDRVLTASTVCEGEWRTFVLDMCCGVHVATEVNHIPDHQPTILAA ALIADRAEKARMISDLRLDNEILRGQIAVLRQEQVTTPRLALTWPTIFALVFLGFSLF WHSANALTTTSTTQSVNPMKILELNKWLDDFIDKAKNVIHTHHYTVVNTVRQSPSWLL ATTIVPYLWQVVTVVLSVITVYRAEHRILSLLFLAAATISGGDWVFLASASFQTHASA IIQIACVIISHMDPIGAICVSALAMFGTFIASMCASSTTFIQHSRAASLNTAILVLSI VLRTMRLPSMPIAIGLAVIRAYTILTTPSGATVEIRSDDGKVLAKESLKPSLLFRFKQ KLRKFAQLRSSMPPLVRVNPTAVLRIETPDGIGTGFFCANYIVTAGHVVGQHKVVSAC VGNAKYQAPVVRHVENKDIALLKIPQPLQSYPRLKIASKIETEWLCVYSPDGEGAIVS SVTPGHQVDECLDYATPTRDGMSGAPVVNVDGRVMGVHLTNTGFTGGAQILTQADVTD PPKSTPTEDKLRAELEELKKQLATFTQSSTHDDIIGLIREAMAREMKILRAELNKELA IITQDQQDDFSQTKKGKTKRGRGRIKLRLAGAKKRRQKGPVFTEEEYQRLLDEGLTPD EIRNMVDELYEEESAGFPEWEEMSDGYDPDEDWEFESDSDFGQKKIKVPSFNQYLERH YNPKDVRNMLDSLTPADIEAVGPLYPLTIKCSNPGLCSALLCCIDRYAALNGLSPPTQ GLNYTQRRVPKNGKRAQNHRAQKSTN" CDS 3970..6219 /codon_start=1 /product="ORF2" /protein_id="AER30000.1" /translation="MANRQQKRGPRTTTNIVVRNGTAAPQARASGSTAGSRRRRNRAR RQPQVNVRVLPPQIKGRRRFPRRPGVGGRVVFQKINTTLGTVGSNGSEQIECELTCLM NPATMKEATGSNSFGPLGIYASTYSLFKMTRCVVTLKPLVGDSAVSGTVCRVSWNPTS SPSQTSWSSLGARKHVDVTPGKVGKFILTTKDLVGPKGGWYKTNTKGDPMMSFAGTLE VHTLGKTMSTYQNNAFTGGLFLAELETEWQFKDYAQQPGMLNLVKGEDTKNARVESNG DGKLQLILPNNSRMARATSNASSEIIWLVTDTVINVGSQFLGPFGWLLRGGWWLVKRA AGAPVRSGETTFDIYASISDARSNTPCLTDQEVNVNVGGLHFQQVTPGNTGIDTGIPA ARYIMEDLPGGPTQVYITRATMLKIGTTTEVPAACLWYNNNGGQNHTKGVGFKVGSTK VGTFNIYKVGVATNAGAIDPSLFTHRVPFYLFSEQDWLLGDAVASSYQHLQDSPNLWV SSVLVHVTNGRDHDFQGNWNTTTVTYPTTSGDAQISTPDAVNSTQIRVRTTQGQWLVA QFVVQGVIDGQYTVGENVVASRGTTVVPKGNRTFTPRLNDATFGLLPVYMSGLHMTPF TSNDIAFSQSRMTLDLNPSFGCDDACEEPYFSQEEEEEDQSDEDEGLELGPDDHYSDP PISRLVVRPEAQLMYEELSARFSEREARLAVNQLYPSDEYTEFTEVYHDALADGLSPR AARAQALGL" BASE COUNT 1711 a 1637 c 1531 g 1439 t ORIGIN 1 gtggtggtgc cgctggccca tacctggctg gagaagaaaa tgtctctata cctaaaccgt 61 gccgatgagg cactggcaac atttgacgga acacagctca aaccccggtt tgatgctcgg 121 aactggtttg acgaactgcg taggattggc ccaaatctac cctggtacat aacctaccaa 181 ccacgcatga tgttctttcc aactctcaaa cctgaccgag ttctgaccgc gagtaccgta 241 tgtgagggtg agtggcgaac ttttgtcctg gatatgtgct gtggcgtcca tgtcgccact 301 gaggtcaacc acataccaga ccaccaaccc accattctcg ccgccgccct tattgcggat 361 agagctgaaa aggcccgcat gatctctgac ctaaggctgg ataatgagat tcttcgagga 421 cagattgccg tgttacgaca ggagcaagtc accactccgc ggttggcttt gacttggcca 481 accatctttg ctcttgtgtt cctggggttt tcactctttt ggcactctgc gaatgctctg 541 acgacgactt cgacaactca gtctgtcaat cccatgaaga tcttagagct taataagtgg 601 ctggacgact tcatcgacaa agctaagaat gtcatccaca cccaccacta cacagttgtc 661 aacaccgtca gacagtcacc atcctggctt cttgccacta cgattgtacc ttacctctgg 721 caagttgtca cagttgtgct aagcgtgatc accgtctaca gggctgaaca caggatcctg 781 tctcttctct ttctagctgc cgcaaccatc agcggtgggg attgggtctt cttggccagt 841 gcctctttcc aaacccacgc cagtgcaatt atccagattg cttgtgtcat aatatcacac 901 atggatccca tcggcgcgat ctgtgtctcc gcattggcga tgtttggcac gttcatagcc 961 agtatgtgtg ctagcagcac tacctttata caacactcaa gggcagcctc tttgaacacc 1021 gccatccttg tcctgtccat tgtccttagg actatgaggc taccgtccat gcctattgcc 1081 ataggcctcg ccgtcatccg agcctacacc atacttacaa ccccatctgg cgctacagtg 1141 gagatacgca gtgatgatgg caaagtcctt gctaaggaga gcctgaaacc aagcttgctc 1201 ttccggttta agcaaaagct ccggaagttc gcccaattac ggtccagcat gccaccattg 1261 gttcgggtca accccactgc agtcctgcgc atagagactc ctgatggtat tgggaccggg 1321 ttcttctgcg ccaattacat cgtgacggca gggcatgtcg ttggacaaca caaggttgtg 1381 tcagcatgtg tgggcaatgc caaatatcaa gctcctgttg tacgtcatgt ggagaataag 1441 gacatagcac tccttaaaat accacagcct ttacaaagtt accctcgtct caagatagcg 1501 agtaaaatcg agactgagtg gttgtgtgtg tactcacctg atggtgaggg tgctatagtg 1561 tcatctgtta ctcctggtca tcaggttgat gaatgtcttg actacgcaac accaacccgt 1621 gacggtatgt cgggagctcc agtagtcaat gtcgacggtc gagtcatggg tgttcactta 1681 accaacactg gcttcaccgg cggagcccaa attctcaccc aagccgacgt cacagatcca 1741 cctaagtcca cacccactga agacaagctc cgtgctgaac ttgaagaact caagaaacaa 1801 ctagctacat ttacccaatc cagtacacat gatgacatca ttggtctcat aagggaagct 1861 atggcacggg agatgaagat tttgcgagct gagctaaata aggagctcgc catcatcacc 1921 caggaccaac aggatgactt ctctcagact aaaaagggca agactaaacg tgggcgcggc 1981 cgcatcaagt tgcggctcgc aggtgcgaag aagcgcaggc agaaaggccc cgtcttcact 2041 gaggaagaat accaacggct cctggatgaa ggcttgaccc ctgatgagat ccgcaacatg 2101 gttgatgagc tctacgagga ggaatctgct ggcttccctg aatgggagga aatgagtgac 2161 ggctacgacc cagatgaaga ttgggagttt gagtctgatt ctgatttcgg acaaaagaaa 2221 ataaaagtgc cttcttttaa ccaatacctt gaaaggcact acaaccccaa agacgtccgg 2281 aatatgttgg actcactgac ccctgctgat atagaggctg ttggaccact ctacccacta 2341 accatcaaat gttccaaccc aggtctctgc tcagccctcc tctgctgcat cgaccgttat 2401 gccgcactca acggcttgtc accaccaact caggggctta attataccca gcgtcgtgtt 2461 ccaaaaaacg ggaagcgggc ccagaaccat cgggcccaga aatccacaaa ctagacgcat 2521 gggagtccct gcgcctacca ccgcgcagga ggttagtgcc agacaactat ccagttgtct 2581 gcaatcttcc aataaatagg cccatttttg ataccaagtt agctgatgac cctttgcttg 2641 gcctcttacc accatgtgac ccagaccttc ccttcggacc agccgtgtgg ggacctgagg 2701 cttataccaa atcatttgaa aagttttact acgcagagcc atcaaaattt tgggaactat 2761 accccgagga gtgtgccttc gccgacaagc agtggcgcaa acactacaac ttccttgagg 2821 actctcgtgt catccatatc acctcaacag ataagaatat ggactcaaca ccaggatacc 2881 caaaatgtga ggagtatgag agtgaacggg aatacctcga ggaaaatggt tggggtccct 2941 atatcaagga atttaagcgt atagatgctg gtgaaaagcc caaggtcctc tggtactgct 3001 tcctaaaaaa agagcaactc aagaaagaaa aaatcaaaga cggggacata cgacaaatag 3061 tctgccctga cacaatctat tccaggattg gagctgctct tgaacaacat caaaataatc 3121 ttatgaagaa acatactgag gatagcagtg gccaatgcgg ctggacccca ttctttggag 3181 gattcgagag gaggatgcgt ggactcgacc acggacacat cattgaattc gactggactc 3241 gctttgacgg aaccataccc agagcattgc tcaaacacat caaagatctg cggtgggaga 3301 aaatgaacaa aacacatagg gaaagataca aacatatcca caattggtac gtggagaatc 3361 tcctaacccg ctatgtgctc atgccctctg gggaagtcac cgtccaacgc cgaggcaacc 3421 cgtcagggca aatctcaaca actccagata attgcatggt gaactactgg cttcaagctt 3481 tcgagtttgc ctacctcaac aaaggtaagg acatcaatga actctggaaa gactatgaaa 3541 ccatcgtcta tggtgatgac cgattgacat caaccccctg catccctgac aactacgtcg 3601 atcgcgtggt cgagatgtac aaaacagtct ttggaatgtg ggtcaaacca gagaaggtta 3661 aggtaacaaa cacaatcaaa ggggcatctt tctgtgggtt tacagtcggg gataattatc 3721 aaccaatccc atcaaacccc gataaactct ggtcaagcct tgttacacct tgccaaaaat 3781 tgcctgatga attagccctc tatgggaaac tccttagctt taaaatcctg atgcacaaca 3841 gtgaggaaca ccctttcaaa gaatatgtgg agaagtgcct tgctgccctt gaaaccgggc 3901 gcacattgcc taaaatcact gatgagcagc tggatcgtct ttggagggga ggaccaaaga 3961 cagcatctaa tggctaaccg ccagcagaag cgtggtccac gcactacgac caacatcgtg 4021 gtgcgcaatg gaacagctgc cccccaggcg agggcgtctg gctcgacagc aggcagtagg 4081 aggagaagaa atagagcaag gagacaaccc caggtcaacg tgcgggtgtt accccctcaa 4141 attaagggtc gccgcaggtt tcctcggcgc ccgggtgtcg gtggtcgcgt ggttttccag 4201 aagatcaata caacactcgg cacagttggt tcaaatggaa gtgagcaaat agaatgtgag 4261 ctgacttgcc tgatgaaccc cgcaactatg aaggaggcca ctggaagtaa cagctttggt 4321 ccgcttggga tctacgcatc aacatattcc ttatttaaga tgacaagatg cgttgtgacc 4381 ttaaaaccac tggttgggga tagtgccgtc tctggcactg tgtgccgggt ttcttggaat 4441 ccaacgtcat ccccatccca aacatcgtgg agctcacttg gcgctcggaa gcatgttgat 4501 gtgacacctg gaaaagttgg aaagttcatt cttacaacca aggatcttgt aggccccaag 4561 ggaggctggt ataaaaccaa cacaaaagga gaccctatga tgtcgtttgc aggcacactt 4621 gaagtacaca cccttggcaa gaccatgtcc acataccaga ataatgcatt tacaggtggg 4681 ctcttcctcg cggagcttga gaccgaatgg cagtttaagg actatgcaca acaacctggg 4741 atgctgaatc tagttaaggg tgaagacaca aagaatgccc gagtagagtc aaatggtgat 4801 gggaagttac agttgatcct accgaacaac tcgcgcatgg caagagcaac aagcaacgcg 4861 tcgagtgaga taatttggct agtgactgat accgtcatca atgttggctc ccagtttctt 4921 ggccctttcg gctggctact ccgcggcggg tggtggctcg tcaaacgtgc agctggagca 4981 ccagtgcgca gtggtgagac aacatttgac atctacgcct caatttccga cgctagatcg 5041 aacaccccat gcctcacaga ccaagaggtc aacgtcaacg taggcgggct tcacttccag 5101 caggtgacac caggcaacac aggaattgac actggcattc cagcagcacg ctacatcatg 5161 gaggacctac caggcggtcc gactcaggtc tatatcacta gagccaccat gttaaagatt 5221 ggaacaacga cagaggtgcc tgctgcatgc ctgtggtata acaacaatgg tggacagaac 5281 cacaccaaag gggttggttt taaagtaggc tcaacaaaag ttggtacatt taacatctac 5341 aaggttggcg tggcaaccaa tgccggcgcg attgatccaa gcttgttcac acaccgtgtt 5401 ccattctatt tgttctcaga acaagattgg ttactcgggg acgctgtagc gtcgtcgtac 5461 caacatcttc aggactcccc taacttgtgg gtgtccagtg tcttggttca tgtcaccaat 5521 ggacgtgacc atgacttcca agggaattgg aacacaacca ctgtgacata cccaaccacc 5581 tccggtgatg cccagatctc cacacctgat gccgtcaata gcacgcagat ccgcgttcgc 5641 accacccagg gccaatggct cgtcgcgcag ttcgtcgtgc aaggtgtcat agatggtcaa 5701 tacaccgttg gagaaaatgt tgtggcgtct cgaggcacca cggtggtccc aaagggcaat 5761 cgcacattta cacccaggct caatgatgcc acctttggtc tcctaccagt gtacatgtca 5821 ggtcttcaca tgaccccctt tacatccaat gacattgctt tctcacagag taggatgacg 5881 ttagacctta accccagctt cggttgtgat gatgcctgtg aggagcctta tttcagtcag 5941 gaagaggaag aagaagacca gagtgatgag gatgaaggac ttgagcttgg cccagatgac 6001 cattattcgg acccaccaat ttcccggttg gtggtgcgtc ctgaagcgca gctcatgtac 6061 gaagaacttt ctgcgcgttt ttcagaacgg gaagcccgct tggcagtaaa tcagctgtat 6121 ccaagcgatg agtacaccga attcaccgag gtgtaccacg acgcgttagc tgatggccta 6181 tcgcctaggg cagctagggc gcaagccctg gggctctagg acggcactcg cgtcgtgtta 6241 attttaatca tttttcagtt tcatttgtga tttgattagc ataggtgaag gggaaaaaaa 6301 aaaaaaaaaa aaaaaaaa //