LOCUS KJ577140 7418 bp RNA linear VRL 17-SEP-2014 DEFINITION Atlantic salmon calicivirus isolate AL V901, complete genome. ACCESSION KJ577140 VERSION KJ577140.1 KEYWORDS . SOURCE Atlantic salmon calicivirus ORGANISM Atlantic salmon calicivirus Viruses; ssRNA viruses; ssRNA positive-strand viruses, no DNA stage; Caliciviridae. REFERENCE 1 (bases 1 to 7418) AUTHORS Mikalsen,A.B., Nilsen,P., Froystad-Saugen,M., Lindmo,K., Eliassen,T.M., Rode,M. and Evensen,O. TITLE Characterization of a Novel Calicivirus Causing Systemic Infection in Atlantic Salmon (Salmo salar L.): Proposal for a New Genus of Caliciviridae JOURNAL PLoS ONE 9 (9), E107132 (2014) PUBMED 25203050 REMARK Publication Status: Online-Only REFERENCE 2 (bases 1 to 7418) AUTHORS Mikalsen,A.B., Nilsen,P., Froystad-Saugen,M., Lindmo,K., Rode,M. and Evensen,O. TITLE Direct Submission JOURNAL Submitted (14-MAR-2014) Basic Science and Aquatic Medicine, Norwegian University of Life Sciences, Ullevalsveien 72, Oslo 0454, Norway FEATURES Location/Qualifiers source 1..7418 /mol_type="genomic RNA" /db_xref="taxon:1489836" /country="Norway" /isolate="AL V901" /organism="Atlantic salmon calicivirus" /host="Salmo salar L. (Atlantic salmon)" CDS 39..7112 /codon_start=1 /protein_id="AHX24377.1" /translation="MSFSKLCNKNNESVIDSELNTSSSTFSDLSKRNPLANIDSLKEG AKEVLTAVNQIFDVVKPVTLAHIICEMLGHTSRWTIVRCVAQLLELYKGPLLSHWKII VDALKSLAALVSRKDGDTVQEQDPEPEPKGATGGDKPKACKTALSDKIAQAETAPPDE EAVTAKAKMEAHVDRAKEEMRGKFARWKADGDALLANMSQIGGKNKKKKKGAIDLTLS GPVRVFIDTKDGDLLRWSSAAFQAAEDLGAKFVYAPSDKAEVFVSPLHFTSREAAEVD VAKESEKKGTRLIFFFGPAHPKLDDVPHEERVSLFGWKVVDCAIGTGKKNEAQSRALT VYLNEGEGKCDCVDNDCVQWHAGDLQDSIFSALKGAYASSVEVMVGWVGALLAGLVAL ASLFPENKFAKKAADRFLALASNAGKLHAAADDSLYAYDAVQGALKVTLAPVASMTLK DAHSFMTDVKSLLQRRPHMLTHPAFPMDSINALYDYAAARTGKGKSIGAKCWADIMSD CSIVQRAHKDRFNTATTRPMPVVLCLAGPPGVGKTTVVRQVATEINEIFGTVGYDAWQ CGLDHQDQNAGRPVVTMEEFGALDLSRDQAALQRLADTNPFVTDNDVIHNKGRHEAPA VVIVTTNCQDIYTGFAYPDALSRRVSHHVLVKNDGLEAWKTRHPNKVPTDQKYTEIFS ACPSVYYKLPAGACDWQGNYLHNGLQGNVPLNTKALDALVRDIKATVRNRWRNVLEDE TEMPGKLVFHAKDVPVMVFRGPPGCGKTTLAGCVAGQFEVINDSWTKKDAFKTVVDHV MHLEEHADPTPVLITTNINPWRDELAKMPKEQRLAFERRVKYYNFSYKKKNFLTHYTH ADMKDCGWSKIVDVVGPDGSHYTYTTLVEELRAAAPVQKAVAEEDAPIQNEAYACAAE TNMSVAQVGAGEDPLKVLLSFERHNVPGLNMLTSFSSVVKQIQIQGKTRTHPKSLVCS INDAKLVLKIPPCSVKFADAVVNFWSYEGKLRCALVKEGVKESAGLGFSTSPSVDPFA FDQVVEDEYELPKSISGALLNVMTTVLGMVAMAMEAKVTFHTPTEEDEKGPARRVTRS YRPVRDSDFQPAGRLWAEDRREMGYTERITFDSNNWIVPCFDAAGCPKGWAISTPKGL LANRHVIAGTTRLGHQKVGESVVLNYGDTDLCLIKNTKNPYQLCKAPFSRPIVGEILY QLKPSGMQRARVHSFVRVANPSGKLVEMCLVEGGVSDPGDCGLPWVRRVGRSVELVGL AAGTRGARLMVVPLGVDPAETQWHARTHNYTFLHQTQYFGIVGDDKSMMPSDKVWEGG DEGVMAKHSSEVFFKPGQDNSVSRAAVDASKEYLEHLVPEEKRERWGVLSTVKSLDMC TAAGPSYGTVKQQVFNPDGAPVKQHAATFWRGVNNPCDGKCRISLKDELRPAKKRELG LTRPIFCFDVHDTVRVKSQIGSGLQALADTCGTHIWSVGISQQNGTWGQVCERLSKWR YAMDADFGRWDSTNSHPLMKQAAEVLASLATRDHREEVEEDLSRMLSAQTQFGPTMTG LPSGLVCTAQMNCTSHLLTINDILLGHGAAPVGSMGCPLDFVSYGDDIVLAMDDPKVA TWLINGWKKRGFQATSAAKTGPPQCGKLQDMTFIKRSFKKVDGEWRAPLEAASIWKGL SWMRGHTSYDHSEGVQNGDLTGTRAVGVFQSVMSEFWQHGKEVFEAAKKLIISYARER KLRLPVIIPPYAQFNPKEVLADYNRLAGESSVSMLSVSWHTGGTGEVQPVSQTEGPGG ENVGEVVGLPALATGLAHQTAGIETALATSGGPTVQLDPANRERFVMVPGGMVSVRTN MTRGSVVWRKKISPGINMWTNLLSSMYNAWCGGFEVMIVVGANNFIGGKFLVAYFPPN VASGSYSVEQVTAFPHAILDIRLMDNVLLACSDIKYVLWHPTNAAPEDPIAVGGEVVV YLLTNIVTAGNSGNVLTLDMSIFSRPMPDFDFNFLMPISLGGSGGPNDLDMQAAGRAL CTPATAGGRGWHVIDVLVATQQSSTVAGDMFASTVRMSGTSPYCIPYPAADGMIVEAI KVSTTDYKLLCYTPDGTPWDVGTDKASKTLPLCWMAYNSASDHTVLTWYKSDGNLEHT NGKITLASVGAQPHYVPYAAAEIPAATRIAVTGSKDGAALTNRESPASPPSFTPNNGE SLILYAGLRKTGQKGLTLSTQEMITVFMESPRVTSMCGLFNVSDATGATTVQAKLYPN GVLTTGTAASAIYYTGPICFTYVGMVPVDYKLNPPAGGTNANVLDLVERLDKWLVLQE RSQVGASASSQASLTQQLLSESLGSIKRRPLKSKLETLDSDEESFETILQA" /product="polyprotein" /note="ORF1; includes helicase, protease, RdRp and capsid" CDS 6938..7312 /codon_start=1 /protein_id="AHX24378.1" /translation="MASAAGAIASGGLSVLTSLIDSATSLGVAGINQTTAFEVQARDF GFRRGIIRDHTASLGQAGLPGFLAYGGSSHGLLDPYRVSLAAGSHVGRASIVNNSFGS VPNQFGNFRKSNMSATPLVKKK" /product="putative minor structural protein" /note="ORF2; putative minor structural protein" ORIGIN 1 cgaattattc gtattacaat tttcaaaaga acattaaaat gtctttttca aaactttgta 61 acaaaaataa cgagtctgtt attgactctg aactcaatac atcgagttca actttttccg 121 atcttagcaa gcggaatccg cttgctaata tcgactcttt gaaggaaggt gccaaggagg 181 tactcacagc agtgaaccaa atatttgacg tggttaaacc agtcactttg gctcacatca 241 tttgtgagat gctcgggcat acttcccgct ggaccattgt gcgctgtgtt gctcaactac 301 ttgagctcta caaaggtccg cttctttccc actggaagat catagtggat gcacttaaga 361 gtcttgctgc gctagttagt cgaaaggacg gtgacaccgt ccaagagcaa gaccccgagc 421 cggagcccaa aggggctacg ggcggtgaca agccgaaagc gtgtaaaacg gctttgtctg 481 ataagattgc acaagctgag acggcccccc cagatgagga ggccgtcaca gcgaaagcaa 541 agatggaggc ccatgttgat cgggccaagg aggagatgcg cggcaagttt gcgcgctgga 601 aggccgacgg cgatgcgctg ttggcaaata tgtcccaaat agggggcaag aacaagaaga 661 agaagaaggg ggcgattgat ctgacgctct ctggcccagt ccgggtgttt attgacacca 721 aagacgggga tctcttgagg tggtcttcag ctgcttttca ggcggctgaa gacttgggcg 781 cgaagtttgt ctacgcgcca tctgacaagg ctgaggtctt cgtcagtccc ctccacttca 841 cgtctcgtga ggcagctgag gttgacgtag ccaaggaaag tgagaagaag ggcacccggt 901 tgatcttttt ctttgggccg gctcacccca agctggatga cgtccctcac gaggagcgcg 961 tctccctgtt tggttggaag gtggtggact gcgccattgg tactggcaag aagaatgagg 1021 cccagagccg cgccttgacg gtctacttga atgagggtga ggggaagtgt gactgtgttg 1081 acaacgactg tgttcagtgg cacgctggtg acctccagga ctccatcttc tctgccctga 1141 aaggagctta cgcgagtagc gtcgaggtca tggttggctg ggttggcgcc ttacttgcgg 1201 gccttgtcgc cttggcgtct ctgttcccgg aaaacaagtt tgccaagaag gcggcagacc 1261 gcttcttggc actggcgagc aatgctggca agctgcatgc agcggccgat gacagtctgt 1321 acgcctacga tgcggtccag ggggccctta aggtcaccct tgccccagtt gcgtcgatga 1381 ctctgaagga tgctcactcc ttcatgaccg atgtgaagag cctactacag cggcgcccgc 1441 acatgctcac tcaccctgcc ttcccgatgg acagcatcaa tgccctgtac gactatgccg 1501 ccgcgcgtac tgggaagggt aaaagcattg gcgccaagtg ctgggcggac atcatgagcg 1561 attgttctat cgtccaacgc gctcacaagg atcgctttaa cacggcgacg acgaggccca 1621 tgccggtggt gttgtgcctg gcgggcccgc caggcgtagg gaagaccact gtcgtccggc 1681 aggttgccac tgagatcaac gagatcttcg ggaccgtcgg ctacgacgct tggcagtgtg 1741 gccttgacca ccaggaccag aacgccggca ggccagttgt gaccatggag gagttcgggg 1801 ctctggacct ctcacgtgac caagcggcgc tccagaggct ggcagacacc aacccttttg 1861 tgactgacaa tgacgtcatc cacaacaaag ggcgccacga agcaccagct gtcgtcatcg 1921 tgactaccaa ctgtcaagac atctacaccg gttttgccta ccccgacgct ctgtcgcgtc 1981 gagtcagcca ccacgttttg gtgaagaatg atggcctaga ggcctggaag acccggcacc 2041 cgaacaaggt gccaactgat cagaagtaca cagagatttt ctctgcgtgc ccgagcgtct 2101 actacaagtt gccggctgga gcttgtgact ggcaggggaa ttacctgcac aatggacttc 2161 aggggaacgt gccgcttaac accaaagcgt tggacgcgct ggttcgggac atcaaggcga 2221 cggtccgaaa ccgctggcgc aacgtgctcg aggatgagac tgagatgcct gggaagctag 2281 tcttccacgc caaggacgtg cccgttatgg ttttccgagg cccacctggc tgcgggaaga 2341 ccaccttggc cgggtgcgtc gctggccagt ttgaggtgat taacgacagc tggaccaaga 2401 aggacgcgtt caagaccgtg gttgaccatg tcatgcatct ggaggagcac gctgacccca 2461 ccccggtgtt gatcaccacc aacatcaacc cctggcggga tgagcttgcc aagatgccca 2521 aggagcaacg ccttgcgttt gagcgtcggg tgaagtatta caacttctcc tacaagaaga 2581 agaactttct gacgcactac acccatgcgg acatgaagga ctgtgggtgg tccaagatcg 2641 ttgacgtggt ggggccggat ggatcccatt atacgtacac caccctggtt gaggaactgc 2701 gcgcggccgc gccagttcag aaggctgtcg ctgaggagga cgccccgatc cagaacgagg 2761 cgtacgcctg cgcggctgag acgaacatga gtgttgccca ggttggcgct ggcgaggacc 2821 cgttgaaggt tttgctgtcg ttcgagagac acaacgttcc ggggctgaac atgctgacct 2881 ccttctctag tgtggtcaag cagattcaga tccagggcaa gactcggacc catcccaaat 2941 ctctggtgtg ctccatcaac gacgctaagt tggtgctcaa gatcccgcca tgcagcgtca 3001 agtttgcgga tgccgtcgtg aacttctgga gctacgaggg caagttgcgg tgtgccctag 3061 tcaaggaggg tgtcaaagag agtgccgggt tgggtttctc cacctcaccc agcgtggacc 3121 cgtttgcctt cgaccaagtg gtcgaagatg agtacgagct gcccaagtct atcagtgggg 3181 cgctgctgaa tgtgatgacc accgtgctcg ggatggtggc gatggcgatg gaagccaaag 3241 tcactttcca cacaccgacc gaagaggatg agaaaggacc agctcgacgg gtgactcgat 3301 cttaccgacc cgtacgggac agtgacttcc agccagctgg tcgcctgtgg gcggaagatc 3361 ggcgcgaaat gggctacacc gaacggatta cgttcgattc caataactgg atcgtcccct 3421 gcttcgacgc ggctgggtgc ccaaaaggtt gggcgatctc tacgcccaag ggcctgctgg 3481 cgaaccggca tgtgatcgct gggacgacta ggcttggcca ccaaaaagtt ggcgagtccg 3541 tggtcctcaa ctacggcgac actgaccttt gcctgatcaa gaacaccaag aacccatacc 3601 agctgtgtaa ggcgcctttc tcccgaccca ttgttggtga gatcctttac cagctgaagc 3661 catctgggat gcagcgggct cgtgtccaca gtttcgtccg ggtggccaac ccaagtggca 3721 agctcgttga gatgtgcctg gtcgaagggg gcgtcagtga ccctggtgat tgtggcctgc 3781 catgggtccg ccgcgtgggc cgaagtgtgg agttggtcgg cctggcagcc ggcactcgag 3841 gggcgaggct gatggtcgtt ccactggggg ttgacccagc tgagacccag tggcatgcca 3901 gaacccacaa ctacaccttt ctgcaccaga cccagtactt tgggatcgtg ggtgatgaca 3961 agagcatgat gccgtcggat aaggtgtggg aaggcggtga tgaaggcgtc atggccaagc 4021 acagcagtga ggtgtttttc aaaccgggcc aagacaacag cgtcagccgg gccgcggtcg 4081 acgcctccaa ggaatacttg gagcacctgg tccctgagga gaagcgagag cgctggggtg 4141 tcctttcgac cgtgaagtcg ctggacatgt gcacagctgc tgggccaagc tacgggacag 4201 tgaagcagca ggtcttcaac cccgatgggg ccccagtcaa gcaacatgcg gccacctttt 4261 ggcgtggggt gaacaacccg tgcgacggca agtgtcggat ctctctgaag gatgagcttc 4321 ggccagcgaa gaagcgtgag ctgggtctga cccggcccat cttctgtttt gacgtgcatg 4381 acacggtcag agtgaagagc cagattgggt cgggcttgca agccttggcc gatacttgtg 4441 ggacccacat ctggagtgtt gggatctccc aacagaatgg aacttggggt caggtgtgtg 4501 agcgcctttc caagtggcgc tacgccatgg atgctgactt cggtcgttgg gattccacca 4561 actcacaccc attgatgaag caggcagctg aggtccttgc cagtttggcg acccgggacc 4621 accgtgagga agtggaagag gacttgtccc ggatgttgtc agcccaaacc cagtttggac 4681 caacgatgac cggccttcca tccgggttgg tgtgcacggc acagatgaat tgcacctcgc 4741 atctgttaac catcaatgac atcctgcttg gccacggtgc ggcgcccgta ggctccatgg 4801 gctgccctct ggactttgtg tcgtatggtg acgacatcgt gttggccatg gacgacccca 4861 aagtcgcgac ttggttgatc aatggttgga aaaagagggg attccaggcg accagtgcgg 4921 ccaagactgg cccgccgcaa tgcggcaagc tccaggacat gactttcatc aagcgctcct 4981 tcaagaaggt tgatggtgag tggcgagccc cgctggaggc ggcgtcgatt tggaaggggt 5041 tgagctggat gcgtggccat acctcctatg accactcaga gggcgtccag aatggagacc 5101 tcaccggcac tcgtgccgtt ggagtctttc agtctgtgat gagcgagttc tggcaacatg 5161 gcaaggaggt gttcgaggcc gccaagaagc taatcatcag ctacgccaga gagaggaaat 5221 tgcggctccc ggtgatcatc ccgccatatg cccagttcaa cccgaaggag gttttggcag 5281 actacaatcg cctggctggt gagtccagcg tgtccatgct ctccgtttcc tggcacacag 5341 gtggcactgg ggaagttcaa ccagtcagcc agacggaagg tccaggtggt gagaacgtcg 5401 gagaagtcgt tggcctacca gcgttggcga caggcttggc acaccagacc gcggggattg 5461 agaccgccct ggccacctct ggaggaccaa ctgtccagct ggatccggcg aaccgtgagc 5521 ggtttgtgat ggtgcctggt ggcatggtgt ctgtgcggac gaacatgacg cgcggatccg 5581 ttgtgtggcg gaagaagatc tcacctggga tcaacatgtg gaccaatctg ctcagctcca 5641 tgtacaacgc ctggtgtggc ggcttcgagg tcatgattgt ggttggggcc aataacttta 5701 tcggtgggaa gttcctggtg gcctacttcc caccgaatgt ggcgtctgga agctattcgg 5761 tggagcaggt gacggctttc cctcatgcca ttctggacat ccgtctgatg gacaacgtgc 5821 ttctggcctg ctcggacatc aagtacgtcc tgtggcaccc gactaatgcg gcgcctgagg 5881 atccgatcgc agtcgggggc gaagtggttg tctacctgct gacgaacatc gtcacggctg 5941 gcaacagtgg caatgtgctg acgctggaca tgtcgatctt ctcacgccca atgccggact 6001 ttgacttcaa ctttctgatg ccgatcagcc ttggcggatc tggtgggcca aacgacctgg 6061 acatgcaggc ggcaggtcgg gccttgtgca caccagcaac ggccggcggc cgtggatggc 6121 acgtgattga tgttctggtg gcaacccagc agtcgagcac tgtggctggg gacatgttcg 6181 cctccacggt gaggatgagt ggaacatcgc cttactgcat tccgtatccg gctgcggatg 6241 ggatgattgt ggaggcaatt aaggtgagca caacggatta caagctcctg tgctacaccc 6301 ctgatgggac accatgggat gttgggaccg acaaggcctc aaagactctt ccactctgct 6361 ggatggccta caactcagcg agcgaccaca cagtgctgac gtggtacaag tctgatggca 6421 acttggagca caccaatggc aagatcaccc tcgcctccgt gggtgcgcag ccgcattacg 6481 tcccatatgc ggctgctgag attcccgctg cgactcggat cgcggtgacc ggcagcaagg 6541 atggagctgc cctgaccaat cgtgagagcc cggcgtcccc gccgagcttc acccctaaca 6601 atggggaatc cctgatcctg tacgctggtc tgcgcaagac gggtcagaag gggctgaccc 6661 tctccactca ggagatgatc acagtgttca tggagtcacc gagggtcacc tcgatgtgtg 6721 gacttttcaa tgtgtccgat gccactgggg cgacgactgt ccaggccaaa ctctacccta 6781 acggggtgct gacaacaggg acggcggcga gcgccatcta ctacactggc ccaatttgct 6841 tcacctacgt tgggatggtc ccagtggatt acaaactgaa tcctccggct ggaggaacga 6901 atgcgaatgt cctggatctt gttgaacggc tggacaaatg gctagtgctg caggagcgat 6961 cgcaagtggg ggcctcagcg tcctcacaag cctcattgac tcagcaactt ctctcggagt 7021 cgctgggatc aatcaaacga cggcctttga agtccaagct cgagactttg gattccgacg 7081 aggaatcatt cgagaccata ctgcaagctt aggtcaagct ggcctgcctg gtttcttggc 7141 ctatgggggt tcatcccatg gactactcga tccgtatcga gtgtctcttg cggctggctc 7201 gcacgtaggt cgggcgtcca ttgttaacaa ctcttttgga agcgtcccaa accagttcgg 7261 caatttccgc aaatctaaca tgtctgctac cccgcttgtt aagaagaagt agtcacgacc 7321 tataatcttg ttaaactcac atatactcag taagttttaa atgtagttgt ataaacattt 7381 tatagttata gtgttataat catagattaa tgcatgcc //