Typing tool
|
Complete norovirus genomes
MZ272053 | GII.14 | ||
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GII.P7 |
ORF1: 5..5098 ORF2: 5079..6689 ORF3: 6689..7483LOCUS MZ272053 7505 bp RNA linear VRL 29-MAY-2021 DEFINITION Norovirus GII isolate Hu/US/2011/GII.14[P7]/CA-RGDS-1122 nonstructural polyprotein (ORF1), VP1 (ORF2), and VP2 (ORF3) genes, complete cds. ACCESSION MZ272053 VERSION MZ272053.1 KEYWORDS . SOURCE Norovirus GII ORGANISM Norovirus GII Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes; Picornavirales; Caliciviridae; Norovirus; Norwalk virus. REFERENCE 1 (bases 1 to 7505) AUTHORS Pan,C.-Y., Huynh,T., Padilla,T., Montmayeur,A.M., Chhabra,P., Barclay,L., Vinje,J., Wadford,D.A. and Morales,C. TITLE Direct Submission JOURNAL Submitted (24-MAY-2021) Viral and Rickettsial Disease Laboratory, California Department of Public Health, 850 Marina Bay Parkway, Richmond, CA 94804, USA COMMENT ##Assembly-Data-START## Assembly Method :: Geneious v. R10; SPades v. 3.6 Sequencing Technology :: Illumina ##Assembly-Data-END## FEATURES Location/Qualifiers source 1..7505 /organism="Norovirus GII" /mol_type="genomic RNA" /strain="CA-RGDS-1122" /isolate="Hu/US/2011/GII.14[P7]/CA-RGDS-1122" /isolation_source="stool" /host="Homo sapiens" /db_xref="taxon:122929" /country="USA" /collection_date="06-Feb-2011" /note="Amplicon sequencing: first 35 nt does represent primer sequence; genotype: GII.14[P7]" gene 5..5098 /gene="ORF1" CDS 5..5098 /gene="ORF1" /codon_start=1 /product="nonstructural polyprotein" /protein_id="QVU18564.1" /translation="MKMASNDASAAFGSQNSVNDSINATPSNKEEVGAFSNIKVGLKK MLGAVPKSTKAPSSGQHCPTVKIGPKTLTIPPEPPNGEDIVQFDAKSETIIGLPDLTT VQNEHENTPYTVPPLSEREHRSATEPLPGTILEMWDGEFYHYSVYVSDGKALGVHKPP AAISLATIELTPISLYWRPVYTPNYLVSPDTLKGLAGEKFPYTAFSNNCYNFCCWVLE LNDTWLNRRCISRTTGFFKPYQSWNRKPLPTVDDGKIKKVANAILCALGSLFSKPIKD LLGKLKPLNLLHLLASCDWTFAGIVETVILMAELFNVFWTPPDVSNFIASLIGDFELQ GPEDLAVELVPVVMGGIGMVLGFTAEKIGRMLSSAASTLRACKDLGNYALDILKLVMK WFFPKKEEKAEMETLRAIEDAVLDMEAIGNNHLTTLLKDKDSLTAFMKTLDLEEEKAR KLSTKSSSPDIVGTINAILARIAAARSLLHKAKEEMFSRIRPVVVMISGRPGIGKTHM ARHLAKSIANTMSGDQRVGLVPRNGVDHWDAYRGERVVLWDDYGMGSPVKDALTLQEL ADTCPVTLNCDRIENKGKMFDSDVIIITTNLVNPAPLDYVNFEACSRRVDFLVYAESP EIEKVKRDFPGQPDMWKDHFKSDFSHIKLTLAPQGGFDKNGNTPHGKGTMRSLTQGSL TARVAGLVHERRDEFQLQGNDLQTYNFDTNRVSAFRKLAADNKYGIMETMRVGAALKN VKTLEDLKLALRDVKFNECEIIYRNSKYRVSSNGKGSVSVDKIEDNASQTANEVQSAL LRLRQARARYYISCFQDLVYTLIQVAGASFVVNRISKRFCWERWVKPTETQDVNESEK EVAQGRWEIEPKDTEPEGKKGKNKKGRGKKHTAFSSKGLSDEEYDEFKRIREERNGKY SIEEYLQDRDRYYEEVAVARATEEDFCEEEEAKIRQRIFRPTKKQRKEERGVLGLVTG TDIRKRRPDDFQPKGNLWADDTRSVDYNERLDFEAPPSVWSRIVPLGTGWGFWVSSNL LITTTHVLPKGVKELFGVEIKQIQVHKSGEFCRFRFPRPIRPDVTGLVLEEGAPEGTV CSILIKRPTGEMIPLAVRMGTHASMKIQGRTVGGQMGMLLTGANAKNMDLGTGPGDCG CPYIYKRGNDIVVAGVHTAAARGGNTVICATQGQDGEAVLEGNEDLGTYCGAPILGPG KAPKLSTKTKFWRSSPDALPPGTYEPAYLGGKDPRVERGPSLQQVMRDQLRPFTEPRG KPPRPAVLEEAKKTVMNVLEQTIDPAKPWSYSQACASLDKTTSSGSPHHVKKNDHWNG ESFTGPLADQASKANLMYEQAKHVQPVYTAALKDELVKTDKIYKKIKKRLLWGSDLGT MIRCARAFGGLMDSMKASCIALPCRVGMNMNEDGPIIFDKHSKYRYHYDADYSRWDST QQRSILSAAMEVMVRFSAEPELAQVVAEDLLAPSQLDVGDFIISVQEGLPSGVPCTSQ WNSIAHWILTLSAMAEVSGLSPDVVQAHSCFSFYGDDEIVSTDINLDPMKLTQKLREY GLVPTRPDKTEGPLVITEDLTGLTFLRRSIARDPAGWFGKLDQDSILRQLYWTRGPNH ENPYESMVPHSQRATQLMALLGEASLHGPQFYKKVSKMVINEIKSGGLEFYVPRQEAM FRWMRFSDLSTWEGDRNLAPEGVNEDGVE" mat_peptide 5..1006 /gene="ORF1" /product="p48" mat_peptide 1007..2104 /gene="ORF1" /product="NTPase" mat_peptide 2105..2623 /gene="ORF1" /product="p22" mat_peptide 2624..3022 /gene="ORF1" /product="VPg" mat_peptide 3023..3565 /gene="ORF1" /product="Pro" mat_peptide 3566..5095 /gene="ORF1" /product="RdRp" gene 5079..6689 /gene="ORF2" CDS 5079..6689 /gene="ORF2" /note="major capsid protein" /codon_start=1 /product="VP1" /protein_id="QVU18565.1" /translation="MKMASNDATPSDDGAAGLVPEINNEVMALEPVAGASIAAPVVGQ QNIIDPWIRNNFVQAPAGEFTVSPRNSPGELLLDLELGPELNPYLAHLARMYNGHAGG MEVQIVLAGNAFTAGKILFAAIPPSFPYENLSPAQLTMCPHVIVDVRQLEPVLLPMPD IRNVFYHYNQNNSPKLRLVAMLYTPLRANNSGDDVFTVSCRVLTRPSPDFQFTFLVPP TVESKTKNFTLPVLRVSEMTNSRFPVVLDQMYTSRNENIIVQPQNGRCTTDGELLGTT ILQSVSICNFKGTMQAKLNEEPRYQLQLTNLDGSPIDPTDDMPAPLGTPDFQAMLYGV ASQRSSSDNATRAHDAQIDTAGDTFAPKIGQVRFKSSSNDFDLHDPTKFTPIGVNVDD QHPFRQWSLPNYGGHLALNNHLAPAVTPLFPGEQILFFRSYIPSAGGHTDGAMDCLLP QEWVEHFYQEAAPSQSDIALVRFINPDTGRVLFEAKLHKQGFLTIAASGDHPIVMPTN GYFRFEAWVNPFYTLAPVGTGSGRRRIQ" gene 6689..7483 /gene="ORF3" CDS 6689..7483 /gene="ORF3" /note="minor structural protein; small basic protein" /codon_start=1 /product="VP2" /protein_id="QVU18566.1" /translation="MAGAFLAGLAGDVVTSSLGSLVGAGANAINQKVEYDFNRQLQEA SFRHDKDMLKAQVAATAGLQQAMIDIKREALTAGGFSPADAARGAVRAPMTQILDWNG SRYWAPNSMKTTGYSGTFSSQGIKSSPYLSNQIPSVVKSTKPLPSISSSSSVYSSPST APSQSTQSTTLSAGTGSSRSNSVSTKTSTLSRTSDWVRGQNEMLGPFMSGALQTAYVT PPSSRASSQGTVSTVPKAVLDSWTPMFNTHRQPLFAHLRRRGESQI" ORIGIN 1 gtgaatgaag atggcgtcta acgacgcttc cgctgccttt ggcagtcaaa actctgtcaa 61 tgacagtatc aacgccaccc cttccaataa ggaagaggtt ggtgcattct ccaacatcaa 121 agttggactt aagaaaatgc tgggcgctgt acccaagagc actaaagcac ccagcagtgg 181 tcaacattgt cccacagtta agatcgggcc caaaacatta acaattcccc ctgagccccc 241 aaatggtgaa gacattgtgc agtttgatgc aaagtcggaa actataattg ggctaccgga 301 cttgacaacg gtgcaaaacg aacatgaaaa caccccatat accgtccccc cattaagtga 361 gagggagcac agatcggcca ctgaaccact tcctggcaca atattggaga tgtgggatgg 421 tgaattttac cactactccg tgtatgtcag cgatggcaaa gctctggggg tccacaaacc 481 accggctgct ataagcctcg cgacgataga gctcaccccc atatctctct actggagacc 541 cgtttacacc cccaactatt tggtctcccc agacacattg aaaggcctcg ctggtgagaa 601 attcccctac acggccttta gtaacaattg ttataacttt tgttgttggg tgcttgagct 661 caacgacacg tggctcaaca gaagatgcat ttccagaacc accggcttct tcaaacctta 721 tcagtcttgg aacaggaagc ccctcccgac cgttgatgat ggaaagatca aaaaggtggc 781 caacgcgatc ctctgtgcac tcggctcact gttctcaaaa ccaatcaaag atttgttagg 841 caaacttaag ccattgaacc tgctacactt gcttgcgtca tgcgattgga cgtttgcggg 901 tatagtggag acagtcatct taatggcaga acttttcaat gtcttctgga ccccgccaga 961 tgtctctaat tttatagcct ccctgatagg tgattttgaa ttacaagggc ctgaggacct 1021 ggctgtggag cttgttcctg tggttatggg tggcatagga atggtcctcg gtttcaccgc 1081 tgagaagata ggccgtatgc tgtcgtccgc cgcatcaaca ctgcgggcat gcaaagacct 1141 aggaaactat gcccttgaca ttctcaaatt ggtcatgaag tggttcttcc caaagaagga 1201 agagaaagct gagatggaaa ccttgagggc gatcgaggat gccgtactag atatggaagc 1261 tatagggaat aaccacctca cgaccctcct caaggacaaa gacagcctca cggcctttat 1321 gaagaccctg gacctggaag aggaaaaagc aaggaaactg tccacaaagt catcttcacc 1381 ggacatcgtc ggcaccatta atgccatact agctaggatt gctgccgcca gatcccttct 1441 acataaggcc aaagaagaga tgtttagtag gatcagacca gtggtcgtta tgatatcagg 1501 cagacctggc attggcaaaa cccacatggc aagacacttg gctaagagta tcgccaacac 1561 catgagtggc gatcagagag tcggactcgt cccgcgcaac ggtgtcgacc actgggatgc 1621 ctacagaggg gagagggtgg tcttgtggga tgactacggt atggggagcc ctgttaaaga 1681 tgccttaaca ttacaggagt tggccgacac ctgtccagtc actttaaatt gtgataggat 1741 tgagaacaag gggaagatgt tcgacagtga tgtcatcata atcacaacca acctggtcaa 1801 ccccgcgccc ctcgactatg tgaacttcga agcgtgttcc aggagagttg acttcttggt 1861 ctatgcagag tcaccagaga ttgaaaaggt taagagggac ttccctggcc aacctgacat 1921 gtggaaagac catttcaagt cagacttttc tcatatcaag ctaactttag ccccccaggg 1981 tgggtttgat aagaatggta acactccaca cggtaagggc actatgcggt ccctgaccca 2041 gggttccctg actgcaagag ttgcgggcct tgtccatgag aggagagatg agttccaact 2101 ccaaggaaac gacctccaaa catacaattt tgacaccaac agagtctccg catttagaaa 2161 actggctgca gacaacaagt atggtatcat ggaaacgatg agagtgggtg cggcgctcaa 2221 aaatgtaaag accttggaag atctaaaact tgcattaagg gatgtaaaat tcaatgagtg 2281 tgaaataatt tacaggaact ctaagtatcg agtctcttcc aacggtaaag gctcagtttc 2341 tgttgacaaa attgaggaca acgcatccca gaccgcaaac gaggtacaat cagcacttct 2401 caggctcaga caagcgaggg ccagatatta catcagctgc ttccaagacc tcgtttacac 2461 tctcatacag gttgccggag catcattcgt tgtcaacaga atttccaaaa ggttctgctg 2521 ggaaaggtgg gtcaaaccaa ccgagaccca ggatgtgaat gagtccgaga aggaagtggc 2581 tcaaggtaga tgggaaattg agcccaagga cacagaacca gaaggcaaga agggcaagaa 2641 caagaaagga aggggcaaga aacacacagc tttctctagc aaaggcctga gtgatgaaga 2701 gtatgacgag ttcaagagaa tcagggaaga aaggaatgga aagtactcca ttgaggaata 2761 cctgcaagac cgggaccgct attatgaaga agtggcagtt gcccgggcaa cagaggagga 2821 cttctgtgaa gaggaagagg ccaaaataag acaaagaatt ttccgcccga caaagaaaca 2881 aaggaaggag gaaaggggtg tacttggctt agtcaccggc acagacatca gaaagaggag 2941 accagacgat tttcaaccaa aaggcaatct gtgggcagat gacaccagga gtgtggacta 3001 caatgagaga cttgattttg aagcaccccc aagtgtctgg tcgagaatag tcccattagg 3061 cactggttgg ggtttctggg tttcatccaa ccttctaatc acaacaacac acgtcctgcc 3121 taaaggggtt aaggaactct ttggagttga aatcaaacag atccaagttc acaagtctgg 3181 agagttttgc aggtttagat tcccaagacc aatcaggcca gatgtcacag gcctcgtgtt 3241 ggaggaaggc gccccagagg gcactgtctg ttctatactc ataaaaagac ctacaggtga 3301 gatgattccc ttggcagtga ggatgggcac acacgcatcc atgaaaatac aaggcaggac 3361 cgttggtggc cagatgggaa tgcttctaac aggagcaaat gcgaagaaca tggatctcgg 3421 caccggccct ggtgactgcg gttgtcccta catctacaaa cgcggcaacg acatagttgt 3481 tgcgggtgtc cataccgcag cagcccgggg aggtaacact gtcatatgtg ccactcaagg 3541 gcaagatggg gaagcagtcc ttgagggaaa tgaggacctc ggtacctact gtggcgcccc 3601 aattctgggc cctggtaagg cgcctaaact cagcacgaag accaagtttt ggcgctcatc 3661 accagacgcc ttgccacctg gcacgtatga acctgcttac ctgggaggca aagaccccag 3721 agtggaaaga ggaccttccc tgcagcaagt catgagagac cagttgagac ccttcacaga 3781 acccagggga aaaccgccta gacctgcagt cttagaagaa gccaagaaga cagtgatgaa 3841 tgttttagaa caaaccattg accctgcaaa accgtggtcc tactcgcaag catgtgcctc 3901 actggacaaa actacttcta gtggtagccc ccatcatgta aagaaaaatg accactggaa 3961 tggggagtcc ttcactggtc cccttgcaga tcaggcatct aaagccaacc tcatgtatga 4021 acaggctaaa catgtgcagc ccgtgtacac ggccgcgctt aaagatgagc ttgttaagac 4081 tgacaagatc tacaaaaaga taaagaagag gctcctatgg gggtcggacc ttggcacaat 4141 gatcaggtgc gccagggctt ttggtggtct catggacagc atgaaggcaa gctgtatagc 4201 ccttccatgc agagtaggaa tgaacatgaa tgaagatggc cctatcatat ttgataaaca 4261 ttctaagtac aggtaccact atgatgctga ctattctagg tgggactcaa cccagcaaag 4321 gagcattctt tctgccgcta tggaagtgat ggtgcggttt tctgctgaac cagaattggc 4381 acaagtggtt gcagaggacc ttttggcgcc tagccagctt gatgttggtg attttatcat 4441 ctcagtccag gagggcctgc catcaggagt cccatgtaca tcacaatgga attcaatagc 4501 acactggatc ctaactttga gtgcaatggc agaagtgtca ggtctctcac cagatgttgt 4561 ccaagctcac tcctgttttt cattttatgg ggacgatgag atcgtcagca ctgacatcaa 4621 ccttgacccc atgaagttga cacagaaact cagggagtac ggcctggtcc ccacccgacc 4681 tgataaaact gaaggtcccc tcgtcataac tgaagacctc accggcctga cgttccttcg 4741 taggtcgatt gcgcgggacc cagctggatg gtttggaaaa ttggaccaag attcaatcct 4801 caggcaacta tactggacaa ggggacctaa ccatgagaac ccgtacgaga gcatggtccc 4861 tcactcccag cgggccacac agcttatggc ccttcttggt gaggcttcac tgcatggtcc 4921 ccagttttac aagaaagtta gcaagatggt tattaatgag attaagagtg gtggtctgga 4981 attttatgtg cccagacagg aggccatgtt caggtggatg agattttctg acctcagcac 5041 atgggagggc gatcgcaatc ttgctcccga aggtgtgaat gaagatggcg tcgaatgacg 5101 ctactccatc tgatgatggt gcagccggcc tcgtaccaga gatcaacaat gaggttatgg 5161 ctcttgaacc cgtcgctggg gcctccattg cagcccccgt agtcggccaa cagaatataa 5221 ttgatccctg gattagaaat aattttgtac aagcccctgc tggtgaattc acagtttccc 5281 ctagaaactc tcctggagaa cttctacttg atttggaatt gggtcccgaa ctcaatccct 5341 atcttgcaca tttggccagg atgtacaatg ggcatgcagg aggaatggaa gtgcagatag 5401 tactggctgg gaatgcgttc acagctggta agattctatt tgctgccatc ccgcctagct 5461 tcccctatga aaatttgtca cccgctcaat tgactatgtg ccctcatgtg atagtggatg 5521 tgaggcaatt agaaccagtg cttctgccaa tgccagatat aagaaatgtt ttctaccact 5581 ataaccagaa caatagtccc aaacttaggc ttgtagctat gctttatact cctctgaggg 5641 ctaacaactc aggtgatgac gtgttcacgg tgtcttgccg cgttttaaca cgtccttctc 5701 cagatttcca gttcaccttt ctggtcccac ccacagttga gtctaaaact aagaatttca 5761 cccttcccgt tcttagagtc tcagagatga caaactcaag gttccccgtt gttttagacc 5821 aaatgtatac aagcaggaat gaaaacatca ttgtccaacc ccaaaacggc aggtgcacga 5881 ctgacggtga gctgcttggc actaccatct tgcagtctgt gtctatttgc aactttaaag 5941 gaacaatgca ggcaaagctg aatgaagagc cacgatacca actacaactc accaacttgg 6001 atgggtcacc catagatcca acagatgata tgcctgcccc tcttggcaca ccagacttcc 6061 aggccatgtt atatggtgtt gcaagccaac gctcttccag tgacaatgcc actagggcac 6121 atgatgcaca gattgacact gcgggcgaca cattcgcccc gaaaattggc caggttcgtt 6181 ttaaatcaag ctctaatgat tttgacctac atgaccctac aaaattcaca cctattggtg 6241 tcaatgtgga tgaccagcac cctttcagac agtggtccct gccaaactat ggtggtcacc 6301 ttgccctgaa caatcattta gcccccgctg tgacaccact ctttcctggc gagcagattt 6361 tgttcttcag gtcatacatt ccaagcgccg gaggccacac agacggtgct atggactgct 6421 tgctgcccca agagtgggta gagcacttct accaggaagc ggctccttcc caatctgaca 6481 ttgcactggt aaggttcatc aaccctgata caggaagagt gctctttgaa gctaaattgc 6541 ataaacaagg tttcctcaca attgcagcat ctggagatca ccctattgtg atgcccacta 6601 atggttactt taggtttgaa gcttgggtca accctttcta cactctcgcc cccgtgggaa 6661 ctgggtctgg gcgcaggagg attcaataat ggctggagct ttccttgcag gcttggcagg 6721 tgacgttgtg acttccagct tgggctcact tgtgggcgct ggagccaacg ccatcaacca 6781 gaaagtggag tatgacttca acagacagct ccaggaggca tcttttagac atgataagga 6841 tatgctcaaa gcccaggttg cagcaacagc aggccttcaa caggccatga tagacatcaa 6901 gcgggaggca ttgaccgcag gcggcttttc ccccgctgat gctgcaagag gtgcagttag 6961 ggcgcctatg acacagattc ttgattggaa tggttctagg tattgggccc ctaactccat 7021 gaagacaact ggctattcag gtacattttc ttcccaaggc attaaaagtt ccccctacct 7081 gtctaatcaa attccaagtg ttgttaaatc taccaaacct ttaccatcta tatctagttc 7141 ctctagtgta tatagttctc cttctactgc cccctcacaa tcaacacaat caacaacgct 7201 gtctgcagga acagggtcct caagatctaa ctccgtgtcc acaaagacct ccacattgtc 7261 gaggacaagt gactgggtta gaggtcaaaa tgagatgctt ggcccgttca tgagtggtgc 7321 actccaaact gcttatgtca caccaccatc gagcagggcc tcatcacaag ggacggtctc 7381 gaccgtaccc aaggctgttt tggactcctg gactcccatg ttcaacaccc acaggcagcc 7441 tctcttcgcc cacttgcgta ggcgagggga gtcacagatt tagtgaaaag gatgattagg 7501 gtttc //