Typing tool
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Typing tool
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Complete norovirus genomes
| MT755733 | GII.3 | |
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| GII.P12 |
ORF1: 5..5104
ORF2: 5085..6731
ORF3: 6731..7495
LOCUS MT755733 7557 bp RNA linear VRL 19-JUL-2020
DEFINITION Norovirus GII isolate Hu/US/2019/GII.3[P12]/CA-RGDS-1098, complete
genome.
ACCESSION MT755733
VERSION MT755733.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7557)
AUTHORS Pan,C.-Y., Huynh,T., Padilla,T., Montmayeur,A.M., Chhabra,P.,
Barclay,L., Vinje,J. and Morales,C.
TITLE Direct Submission
JOURNAL Submitted (08-JUL-2020) Viral and Rickettsial Disease Laboratory,
California Department of Public Health, 850 Marina Bay Parkway,
Richmond, CA 94804, USA
COMMENT ##Assembly-Data-START##
Assembly Method :: SPAdes v. 3.6; Geneious v. R10
Sequencing Technology :: Illumina
##Assembly-Data-END##
FEATURES Location/Qualifiers
source 1..7557
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="Hu/US/2019/GII.3[P12]/CA-RGDS-1098"
/host="Homo sapiens"
/db_xref="taxon:122929"
/country="USA: California"
/collection_date="Nov-2019"
/note="genotype: GII.3[P12]"
gene 5..5104
/gene="ORF1"
CDS 5..5104
/gene="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="QLH55004.1"
/translation="MKMASNDASAAAAANSNNDNAKSSSDGMLSSMAVTFKRALGARQ
KQPPPREIPQRPPRPPTPELVKKIPPPPPNGEDELVVSYSAKDGVSGLPELTTVRQPD
ETNTAFSVPPLNQRENRDAKEPLTGTILEMWDGEIYHYGLYVERGLVLGVHKPPAAIS
LAKVELAPLSLFWRPVYTPQYLISPDTLRRLHGESFPYTAFDNNCYAFCCWVLDLNDS
WLCRRMIQRTTGFFRPYQEWNRKPLPTMDDSKLKKVANIFLCALSSLFTRPIKDIIGK
VRPLNILNILASCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPED
LAVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFP
KKEEANELAMVRSIEDAVLDLEAIENNHMTALLKDKDSLATYMRTLDLEEEKARKLST
KSASPDIVGTINALLARIAAARSLVHRAKEELSSRPRPVVVMISGRPGIGKTHLAREL
ARKIAASLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTC
PLTLNCDRIENKGKVFDSDAIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEK
AKRDFPGQPDMWKNAFSSDFSHIKLALAPQGGFDKNGNTPHGKGVMKTLTTGSLIARA
SGLLHERLDEYELQGPTPTTFNFDRNKVLAFRQLAAENKYGLLDTMRVGKQLKDVKTM
SELKQALKNVAIKSCQIVYGGCTYRLESDGKGDVKVDRVQNATVQTNNELAGALHHLR
CARIRYYVKCVQETLYSIIQIAGAAFVTTRIVKRMNIQDLWSKPQVEDTEETASKDGC
PRPQDDEEFVVSSDDIKTEGKKGKNKSGRGKKHTAFSSKGLSDEEYDEYKRIREERNG
KYSIEEYLQDRDRYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGLV
TGSEIRKRNPDDFKPKGKLWADDDRSVDYNERLNFEAPPSIWSRIVNFGSGWGFWVSP
SLFITSTHVIPQGAQEFFGVPIKQIQIHKSGEFCRLRFPKPIRTDVTGMILEEGAPEG
TVVTLLIKRPTGELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGD
CGCPYIYKRGNDYVVIGVHTAAARGGNTVICATQGSEGEATLEGGDSKGTYCGAPILG
PGSAPKLSTKTKFWRSSTAPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKPFTEP
RGRPPKPSVLEAAKKTIVNVLEQTIDPPQKWSFAQACASLDKTTSSGHPHHMRKNDCW
NGESFTGKLADQASRANLMFEEGKNMTPVYTGALKDELVKTDKIYGRIKKRLLWGSDL
ATMIRCARAFGGLMEELKAHCVTLPVRVGMNMNEDGPIIFERHSRYKYHYDADYSRWD
STQQRAVLAAALEIMVKFSPEPHLAQKVAEDLLSPSVMDVGDFKISINEGLPSGVPCT
SQWNSIAHWLLTLCALSEVTNLSPDIIQANSLFSFYGDDEIVSTDIKLDPEKLTAKLK
EYGLKPTRPDKTEGPLVISEDLNGLTFLRRTVTRDPAGWFGKLEQSSILRQMYWTRGP
NHEDPSETMIPHSQRPIQLMSLLGEAALHGPAFYSKISKLVIAELKEGGMDFYVPRQE
PMFRWMRFSDLSTWEGDRNLAPSFVNEDGVE"
mat_peptide 5..994
/gene="ORF1"
/product="p48"
mat_peptide 995..2092
/gene="ORF1"
/product="NTPase"
mat_peptide 2093..2629
/gene="ORF1"
/product="p22"
mat_peptide 2630..3028
/gene="ORF1"
/product="VPg"
mat_peptide 3029..3571
/gene="ORF1"
/product="Pro"
mat_peptide 3572..5101
/gene="ORF1"
/product="RdRp"
gene 5085..6731
/gene="ORF2"
CDS 5085..6731
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="QLH55005.1"
/translation="MKMASNDATPSNDGAAGLVPEINNEAMALDPVAGAAIAAPLTGQ
QNIIDPWIMNNFVQAPGGEFTVSPRNAPGEVLLNLELGPEINPYLAHLARMYNGYAGG
FEVQVVLAGNAFTAGKIIFAAIPPNFPIDNLSAAQITMCPHVIVDVRQLEPVNLPMPD
VRNNFFHYNQGSDSRLRLVAMLYTPLRANNSGDDVFTVSCRVLTRPSPEFSFNFLVPP
TVESKTKPFTLPILTISEMSNSRFPVPIDSLHTSPTENIVVQCQNGRVTLDGELMGTT
QLLPSQICAFRGVLTRSTSRASDQADTATPRLFNYYWHIQLDNLNGTPYDPAEDIPGP
LGTPDFRGKVFGVASQRNPDSTTRAHEAKVDTTAGRFTPKLGSLEISTESDDFDQNQP
TRFTPVGIGVDREADFQQWSLPDYSGQFTHNMNLAPAVAPNFPGEQLLFFRSQLPSSG
GRSNGILDCLVPQEWVQHFYQESAPAQTQVALVRYVNPDTGRVLFEAKLHKLGFMTIA
KNGDSPITVPPNGYFRFESWVNPFYTLAPMGTGNGRRRVQ"
gene 6731..7495
/gene="ORF3"
CDS 6731..7495
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="QLH55006.1"
/translation="MAGAFIAGLAGDILTNTVGSLVNAGASAINQKVDFENNKYLQNA
SFNHDKEMLNAQIEATKRLQADMIAIKQGVLTAGGFSPTDAARGAINAPMTKVLDWNG
TRYWAPSATSTTSMSGGFTNQAVHRTTPNFKMNQAPRSTPSSGTSVRSLSTQVTSLSS
YSSGSSRSSESTVTSSLPSSNRTRDWVNQQNFNLEPHLPGSLRTAFVTPPSSTASSSG
TVSTVPKNVLDSWTSAFNTRRQPLFAHLRRRGESNV"
ORIGIN
1 gtgaatgaag atggcgtcta acgacgcttc cgctgccgct gctgctaata gcaacaacga
61 caacgcaaaa tcttcaagtg acggaatgct ttctagcatg gctgtcactt ttaaacgagc
121 cctcggggcg cggcaaaaac agcctccccc gagggaaata ccacagaggc ctccacggcc
181 acccacccca gaactggtca aaaagatccc tcctccccca cccaatgggg aggatgagct
241 agtggtctcg tatagcgcca aagatggcgt ctctggtttg cctgaactta ccactgtccg
301 gcaaccggat gagaccaaca cggcgttcag tgttccccct ctcaaccaga gggagaacag
361 ggacgccaag gagccgctga ccggaacaat cctggaaatg tgggacgggg agatctatca
421 ttatggtctg tatgtggagc gaggccttgt acttggtgtg cacaaaccac cagctgccat
481 cagcctcgcc aaggtcgaat tagcaccact ctctctgttt tggaggccag tgtacacacc
541 acagtatctc atctctccag acactcttag gagactgcat ggagagtcgt tcccctacac
601 agcctttgat aacaactgct atgccttctg ttgttgggtt ttggacctaa acgactcgtg
661 gttgtgcagg agaatgatcc agaggacaac tggcttcttc aggccttacc aagaatggaa
721 caggaaaccc ctccccacca tggacgactc taaattgaag aaggtagcca acatattctt
781 gtgtgcgcta tcttcgctgt tcactaggcc catcaaagac ataataggaa aggtgagacc
841 gctcaacatc cttaacatcc tggcctcatg tgattggact tttgcaggca tagtggaatc
901 tttaatcctc ttggcagagc tctttggagt tttctggaca cccccagatg tgtctgcgat
961 gatcgccccc ttactaggtg actacgaact gcaggggcct gaggaccttg cagtagaact
1021 cgtaccagta gtgatgggag ggattggttt ggtgttagga ttcaccaaag agaagatcgg
1081 aaaaatgttg tcatccgctg cttccacctt aagagcttgt aaagaccttg gtgcatacgg
1141 gctggaaatc ctaaaattgg tcatgaaatg gttcttccca aagaaagagg aagcaaatga
1201 gttagctatg gtgaggtcca tcgaggatgc ggtgctggac ctcgaagcaa ttgagaacaa
1261 ccacatgact gccctcctca aagacaaaga cagcttggca acctacatga gaacccttga
1321 cctcgaggag gagaaagcca ggaagctttc aaccaagtct gcttcacctg acatcgtggg
1381 tacaatcaac gctcttctgg cgagaatcgc cgctgcacgt tccctggtgc atcgggcgaa
1441 agaggaactc tccagcagac caagacctgt tgttgttatg atatcaggta ggccagggat
1501 agggaaaact caccttgcca gggagctagc caggaagatc gcagcttcac tcacagggga
1561 ccagcgcgtg ggtctcatcc ctcgcaatgg cgttgaccac tgggatgcat acaagggaga
1621 aagagtcgtc ctatgggacg attatggaat gagcaatccc attcacgacg ccctcaggtt
1681 acaggaactt gctgacacct gtcccctcac gctaaactgt gacaggattg agaacaaagg
1741 aaaggtcttc gacagtgatg ccataatcat caccaccaat ctagccaacc cagcaccatt
1801 ggactatgtc aactttgaag catgctcgag gcgcattgac ttcctcgtgt acgcagaagc
1861 ccctgaggtc gagaaagcaa agcgtgattt cccaggtcaa cctgacatgt ggaagaacgc
1921 atttagctct gacttctcgc acataaaact ggcgctggct ccccagggtg gtttcgacaa
1981 gaacggaaac accccacacg ggaaaggcgt catgaaaacc ctcaccactg gttccctcat
2041 cgcccgagca tcagggctac tccacgagag gttggatgaa tacgagctgc agggcccaac
2101 tcccaccact tttaactttg accgcaacaa ggtgcttgcg ttcagacaac ttgctgccga
2161 aaacaagtat ggattgttgg acacaatgag agttggaaaa cagctcaaag atgttaagac
2221 catgtcagag ctcaaacagg cactcaagaa tgtcgcaatt aagagttgtc agatagtgta
2281 tggtggctgc acctacaggc ttgagtctga tggcaagggt gatgtaaaag ttgacagagt
2341 tcagaacgcc actgtacaga ccaacaatga gcttgccggc gcactacacc atcttaggtg
2401 cgccagaatc agatattatg tcaagtgtgt tcaggagacc ctgtattcca tcatccaaat
2461 cgctggggct gcatttgtta ccacgcgcat tgtcaagcgc atgaacatac aagatctctg
2521 gtccaagcca caggtggagg acacagagga aaccgctagc aaggatgggt gcccaagacc
2581 ccaggatgat gaagagtttg ttgtctcatc cgatgacatc aaaaccgagg gcaagaaagg
2641 gaagaacaag tctggccgtg gcaagaagca cacagcattt tcaagtaaag gtctcagtga
2701 tgaagagtac gatgagtaca aaagaattag agaagaaaga aatggcaaat actccataga
2761 ggaatacctc caggacagag acaggtatta tgaggaggtg gccatcgcca gggcaaccga
2821 agaggacttc tgtgaagaag aagaggccaa gatccgacag aggatcttca ggccaacaag
2881 gaaacaacgc aaagaggaga gagcctctct tggtttggtc acaggttctg aaatcaggaa
2941 gaggaatcca gacgacttca agcctaaagg aaagctgtgg gctgatgatg acaggagtgt
3001 tgactacaat gagagactca attttgaagc cccaccaagc atctggtcga ggatagtcaa
3061 ctttggctca ggttggggct tttgggtttc ccccagcctg ttcataacat caactcatgt
3121 cataccccag ggcgcacagg agttctttgg tgtacccatc aaacaaatcc agatacacaa
3181 atcaggtgaa ttctgccgct tgaggtttcc aaagccgatc agaactgacg tgacaggcat
3241 gatcttagaa gaaggtgcac ccgaagggac cgtggtcaca ttactcatca aaagaccaac
3301 tggagagctc atgcccctgg cagctagaat gggaacccac gcaaccatga agatacaagg
3361 gcgcactgtt ggaggtcaaa tgggcatgct cctaactgga tccaacgcca agagtatgga
3421 cctgggcacc acaccaggtg actgtggctg cccctatatt tacaagaggg ggaatgacta
3481 cgtggtcatt ggggtccata cagctgctgc ccgtggagga aacactgtca tttgtgccac
3541 ccaggggagc gagggagaag ccacacttga aggcggtgat agcaagggga cctactgcgg
3601 tgcaccaatc ttaggtccag gaagtgcccc aaaactcagc accaagacca agttctggag
3661 atcatccacg gcaccactcc cacctggtac ctatgaacca gcttacctcg gtggcaagga
3721 ccccagagtt aagggtggcc cttcactgca acaagttatg agggatcaac tgaaaccatt
3781 cactgagcct aggggtaggc caccaaaacc aagtgtgcta gaagctgcca agaaaaccat
3841 cgtcaatgtc ctagaacaaa caattgaccc accccaaaaa tggtcgtttg cgcaggcatg
3901 cgcatcccta gacaagacca cttctagcgg tcatccgcat catatgcgga agaatgattg
3961 ctggaatggg gagtccttca caggaaaatt ggcagaccag gcttccaggg ccaacctgat
4021 gtttgaggag gggaagaaca tgaccccagt ttacacgggt gcgctcaagg acgagctggt
4081 caagactgac aagatttatg gtaggatcaa aaagaggctt ctctggggtt cggacctggc
4141 gaccatgatt cggtgcgctc gagcattcgg gggtctgatg gaggaactta aagcacattg
4201 tgtcacacta cctgttaggg tgggtatgaa tatgaatgag gatggcccta tcatctttga
4261 gagacactcc agatataaat atcattatga tgctgactat tcccggtggg attcaacaca
4321 acaaagagct gtgttggcag cagccttaga aatcatggtc aagttttccc cagagccaca
4381 cctggcccaa aaggttgcag aagaccttct ttctcccagc gtgatggacg tgggtgattt
4441 caaaatatca atcaatgagg gtctcccctc cggagtgccc tgcacctccc aatggaattc
4501 catcgcccac tggctcctca ctctctgtgc actctccgag gttacaaacc tgtcccctga
4561 cattattcag gctaactctc tcttttcttt ctacggtgat gatgaaattg tgagtacaga
4621 cataaaattg gacccagaaa aactgacagc aaaactcaag gaatacgggt tgaaaccgac
4681 ccgccctgac aaaactgaag ggcctcttgt catttccgaa gacctgaatg gcctaacctt
4741 cctgcggagg accgtgactc gcgacccagc aggctggttt ggaaagttgg aacagagttc
4801 aatactcaga caaatgtact ggactagagg ccccaaccat gaagatccat ctgaaacaat
4861 gataccacac tcccagaggc ccatacaatt gatgtctttg ctgggtgagg cagcactcca
4921 cggcccagca ttctatagca aaatcagcaa actggtcatt gcagaattga aggagggtgg
4981 catggatttt tacgtgccaa gacaagaacc aatgttcaga tggatgagat tctcggatct
5041 gagcacgtgg gagggcgatc gcaatctggc tcccagtttt gtgaatgaag atggcgtcga
5101 atgacgccac cccatctaat gatggtgccg ccggcctcgt cccagagatc aacaatgagg
5161 caatggcgct agatccagtg gcgggtgcag cgatagcagc acccctcact ggccagcaaa
5221 atataattga tccctggatt atgaataatt ttgtgcaagc acctggtggt gagttcacag
5281 tgtctcctag gaatgcccct ggtgaagtgc tcctcaattt ggaattgggc ccagagataa
5341 acccctatct ggcccatctt gctagaatgt ataatggtta tgcaggtggg tttgaagtgc
5401 aggtagtcct ggctggaaat gcgtttacag caggaaagat aatctttgca gctatacccc
5461 ctaacttccc aattgacaat ctaagtgcag cacagatcac aatgtgccca catgtgattg
5521 tggatgtcag gcagctggaa ccggtcaacc tcccgatgcc tgacgttcgc aacaacttct
5581 tccactacaa ccaagggtct gattcgagat tgcgcttggt tgcaatgctg tacacacctc
5641 ttagggcaaa taactctggg gatgatgttt tcactgtgtc ttgtagagtg ctgactagac
5701 ctagtcctga attttcattt aacttccttg tgccacccac tgtggagtca aagacaaaac
5761 cttttaccct cccaattctg actatctctg aaatgtctaa ttctaggttt ccagtgccga
5821 ttgattctct gcacaccagc ccaactgaga atattgttgt ccagtgtcaa aatggacgcg
5881 tcactcttga tggcgagttg atgggcacca ctcagctctt acctagtcaa atctgtgctt
5941 tcaggggcgt gctcactaga tcaacaagca gggctagtga ccaggctgac acagcaaccc
6001 ctagattgtt taattattat tggcacatac aattagataa tctaaatggg actccttatg
6061 atcctgcaga agacatacca ggccccctag ggacaccaga tttccggggc aaagtctttg
6121 gcgtggccag ccaaagaaac cccgatagta caactagagc acatgaagca aaggtggaca
6181 caacagctgg tcgcttcacc ccaaaactag gctcattaga gatatccact gaatctgatg
6241 actttgacca aaaccaacca acaagattca ccccagttgg cattggggtt gaccgcgagg
6301 cagacttcca acaatggtcc ttacccgatt attctggcca gttcactcac aacatgaact
6361 tagccccagc tgttgctccc aacttccctg gtgagcagct ccttttcttc cgctcacagt
6421 taccatcttc tggtgggcga tccaatggga ttctagattg cctggtcccc caagaatggg
6481 tccagcactt ctaccaagaa tcagcccccg cccaaaccca ggtggctctg gttagatatg
6541 tcaaccctga cactggtaga gtgttgtttg aggccaagct gcacaaatta ggtttcatga
6601 ctatagctaa gaatggtgac tctccaataa ctgtcccccc aaatggatac tttaggtttg
6661 aatcttgggt gaacccattt tatacacttg cccccatggg aactgggaat gggcgtagaa
6721 gagttcaata atggctggtg cttttatagc aggattagct ggtgatatac tcacaaatac
6781 tgtagggtct ctagttaatg caggggctag tgctattaat caaaaagttg attttgaaaa
6841 taataaatac ttgcaaaatg cttccttcaa tcatgataag gaaatgttaa atgcacagat
6901 tgaggcaaca aagagattac aggctgacat gattgctatc aaacaggggg ttttgaccgc
6961 tggcggcttt tcccccactg atgcagctcg cggggcaatt aacgccccca tgacaaaagt
7021 cctagattgg aatggaacaa ggtactgggc accaagtgcc acctccacaa cctcgatgtc
7081 gggtggcttc acaaaccagg ctgtgcacag aaccacgcca aattttaaaa tgaaccaggc
7141 ccctagatcc acacccagca gtgggacttc agtgaggtca ctctcaaccc aagtcactag
7201 tctgagctca tactcgtccg ggtcgtctcg atccagcgag tctacagtta ctagctcatt
7261 accatcctct aacaggacta gggactgggt caatcagcaa aatttcaatt tggaaccaca
7321 cttgcctggg tcacttagga cggcttttgt cactccacca tctagtacag cctctagttc
7381 aggcactgtc tcaaccgtgc ccaaaaatgt tttggactcc tggacatctg cgtttaacac
7441 gcgcagacag ccgctattcg cacaccttcg tagaaggggg gagtcaaatg tttagtgaaa
7501 aggttatctt aaatttgatt taaattgaat ttaattttgg aatcttttaa aaaaaaa
//