Typing tool
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Typing tool
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Complete norovirus genomes
| MT735394 | GII.4 Hong Kong | |
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| GII.P31 |
ORF1: 1..5100
ORF2: 5081..6703
ORF3: 6703..7506
LOCUS MT735394 7552 bp RNA linear VRL 13-JAN-2021
DEFINITION Norovirus GII isolate Hu/NL/2017/ GII.4 Hong
Kong[P31]/Zandvoort/0471 nonstructural polyprotein (ORF1), VP1
(ORF2), and VP2 (ORF3) genes, complete cds.
ACCESSION MT735394
VERSION MT735394.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7552)
AUTHORS Chan,M.C., Roy,S., Bonifacio,J., Zhang,L.Y., Chhabra,P.,
Chan,J.C.M., Celma,C., Igoy,M.A., Lau,S.L., Mohammad,K.N.,
Vinje,J., Vennema,H., Breuer,J., Koopmans,M. and de Graaf,M.
CONSRTM for NOROPATROL2
TITLE Detection of Norovirus Variant GII.4 Hong Kong in Asia and Europe,
2017-2019
JOURNAL Emerg Infect Dis 27 (1), 289-293 (2021)
PUBMED 33350912
REFERENCE 2 (bases 1 to 7552)
AUTHORS de Graaf,M., Schmitz,D., Koopmans,M.P. and Vennema,H.
TITLE Direct Submission
JOURNAL Submitted (09-JUL-2020) Viroscience, Erasmus MC, Wytemaweg 80,
Rotterdam 3015CN, Netherlands
COMMENT ##Assembly-Data-START##
Assembly Method :: SPAdes v. 3
Sequencing Technology :: Illumina
##Assembly-Data-END##
FEATURES Location/Qualifiers
source 1..7552
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="Hu/NL/2017/ GII.4 Hong Kong[P31]/Zandvoort/0471"
/isolation_source="feces"
/host="Homo sapiens"
/db_xref="taxon:122929"
/country="Netherlands"
/collection_date="17-Nov-2017"
/note="genotype: GII.4 Hong Kong [P31]"
gene 1..5100
/gene="ORF1"
CDS 1..5100
/gene="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="QLF78476.1"
/translation="MKMASNDASAAAVAKSNNDIAKSSSDGVLSNMAVTFKRALGARP
KQPPPKEIPPRPPRPPTPELIKKIPPPPPNGEDELVVSYSAKDGVSGLPELTTVGQPD
ETNTAFSVPPLNQRENRDAKEPLTGTIIEMWDGEIYHYGLYVERGLILGVHKPPAAIS
FAKVELAPLSLYWRPVYTPQYLISPDTLRRLHGESFPYTAFDNNCYAFCCWVLDLNDS
WLSRRMINRTTGFFRPYQDWNRKPLPTVDDSKLKKVANIFLCTLSSLFTRPIKDIIGK
LKPLNILNILATCDWTFAGIVESLILMAELFGVFWTPPDVSAMIAPLLGDYELQGPED
LAVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFP
KKEEVSELAMVRSIEDAVLDLEAIENNHMTALLKDKDSLATYMRTLDLEEEKARKLST
KSASPDIVGTINALLARIAAARSLVHRAKEELSSRLRPVVVMISGKPGIGKTHLAREL
AKKIAASLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTC
PLTLNCDRIENKGKVFDSDAIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPDVEK
AKRDFPGQPDMWKNAFSPDFSHLKLSLAPQGGFDKNGNTPHGKGVMKTLTTGSLIARA
SGLLHERLDEYELQGPTLTTFNFDRNKILAFRQLAAENKCGLVDTMRIGKQLKDVKTM
PDLKQALKNVSIKKCQIVYSGGTYTLEADGKGSVKVDKVQSATVQTNNELAGALHHLR
CARIRYYVKCVQEALYSIIQIAGAAFVTTRITKRMNIQNLWSRPQVEDTEETASKDGC
PKSKDDEEFVVASDDVKTEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNG
KYSIEEYLQDRDKYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGLV
TGSEIRKRNPEDFKPKGKLWADDDRSVDYNEKLSFEAPPSIWSRIVNFGSGWGFWVSP
CLFITSTHVIPQDAKEFFGVPIKQIQIHKSGEFCRLRFPKPIRTDVTGMILEEGAPEG
TVATLLIKRPTGELMPLAVRMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGD
CGCPYIYKRGNDYVVIGVHTAAARGGNTVICATQGSEGEATLEGGDNKGTYCGAPILG
PGSAPKLSTKTKFWRSSTTPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKPFTEP
RGKPPRPSVLEAAKKTIINVLEQTIDPPQKWSFAQACASLDKTTSSGYPHHVRKNDCW
NGDSFTGKLADQASKANLMFEEGKNMTPVYTGALKDELVKTDKIYGKIKKRLLWGSDL
ATMIRCARAFGGLMDELKAHCVTLPVRVGMNMNEDGPIIFEKHSRYRYHYDADYSRWD
STQQRDVLAAALEIMVKFSPEPHLAQVVAEDLLSPSVMDVGDFQISINEGLPSGVPCT
SQWNSIAHWLLTLCALSEVTDLSPDIIQANSLFSFYGDDEIVSTDIKLDPEKLTAKLK
EYGLRPTRPDKTEGPLVISEDLDGLTFLRRTVTRDIAGWFGKLEQSSILRQMYWTKGP
NHEDPSETMIPHSQRPIQLMSLLGEAALHGPAFYSKISKLVIAELKEGGMDFYVPRQE
PMFRWMRFSDLSTWEGDRNLAPSFVNEDGVE"
mat_peptide 1..990
/gene="ORF1"
/product="p48"
mat_peptide 991..2088
/gene="ORF1"
/product="NTPase"
mat_peptide 2089..2625
/gene="ORF1"
/product="p22"
mat_peptide 2626..3024
/gene="ORF1"
/product="VPg"
mat_peptide 3025..3567
/gene="ORF1"
/product="Pro"
mat_peptide 3568..5097
/gene="ORF1"
/product="RdRp"
gene 5081..6703
/gene="ORF2"
CDS 5081..6703
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="QLF78477.1"
/translation="MKMASNDANPSDGSTANLVPEVNNEVMALEPVVGAAIAAPVAGQ
QNLIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
FEVQVILAGNAFTAGKIIFAAVPPNFPTEGLSPSQVTMFPHVIVDVRQLEPVLIPLPD
VRNNFYHYNQSNDSTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFTVPILTVEEMTNSRFPIPLEKLYTGPSTAFVVQPQNGRCTTDGVLLGTT
QLSAVNICTFRGDLTHIAGTRQFTMRLASPNWNNYDPTEEIPAPLGTPDFVGKIQGML
TQTTKGDGSTRGHKAIVSTGAADFAPKSGNIRFGTDTEDDLQSGTNTKFTPIGVVQDG
ENPHFSEPQQWVLPSYTGRTGHNMHLAPAVAPTYPGEQLLFFRSTMPGCSGYPNLDID
CLLPQEWVQHFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGPHDLV
IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRVL"
gene 6703..7506
/gene="ORF3"
CDS 6703..7506
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="QLF78478.1"
/translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA
AFQFSSNLQQASFQHDKEMLQAQIEATQKLQQGMMKVKQAMLLEGGFSETDAARGAIN
APMTKALDWSGTRYWAPDARVTTYNAGRFSTPQPSGALPGRTNLRATLPTRGSSSVTS
ASSATSVYSNKTVSTRLGSSAGSGTSASSTPLTTRTRSWVEDQNRNLSPFMSGALNTS
FVTPPSSRSSSQSTVSTVPKEILDSWTGAFNTRRQPLFAHVRRRGESRV"
ORIGIN
1 atgaagatgg cgtctaacga cgcttccgct gccgctgttg ccaaaagcaa caacgacatc
61 gcaaaatctt caagtgacgg tgtgttatct aacatggctg tcacttttaa acgggccctc
121 ggggcgcggc ctaaacagcc gcccccgaag gaaataccac ccagaccccc acgaccaccc
181 acaccagaat tgatcaaaaa gatccccccc cccccaccca acggggagga tgaactagtg
241 gtttcctaca gtgccaaaga tggcgtttcc ggcctgcctg agctcactac tgtcggacaa
301 ccggatgaga ccaacacggc gttcagtgtt cccccgctca accagaggga gaatagggac
361 gctaaggaac cactaactgg aacaatcatt gaaatgtggg atggagaaat ataccattac
421 ggcctgtacg tggaacgagg tcttatactt ggtgtgcaca agccaccggc agccattagc
481 tttgccaagg tcgagctagc accactttct ttgtactgga gacctgtata caccccccag
541 tatctcatct ctccagacac tctcaggagg ctgcatggag agtcattccc ctacactgca
601 tttgacaaca actgctacgc cttctgttgt tgggtgttag acctaaacga ctcatggcta
661 agcaggagaa tgattaacag aacaacaggt ttcttcagac cataccagga ttggaacagg
721 aaacccctcc ccactgtgga tgattccaaa ttgaaaaagg tagccaacat attcttgtgc
781 actttgtctt cactattcac cagacccatt aaggacataa tagggaagtt gaaacccctt
841 aacatcctca atattctggc cacatgcgac tggaccttcg caggcatagt ggagtcctta
901 atactcatgg cagaactctt tggagttttc tggacacccc cagatgtgtc tgcgatgatc
961 gctcccttac taggcgatta tgaactgcaa gggcctgagg accttgcagt agaactagtc
1021 ccagtggtga tgggggggat aggtttggtg ctaggattca ccaaagagaa aattggaaag
1081 atgttgtcat ccgctgcatc cactttgaga gcttgcaaag accttggtgc atacggactg
1141 gaaattttga aattggtcat gaaatggttc ttcccaaaga aagaggaagt aagtgaattg
1201 gctatggtga gatccatcga ggacgcagta ctggacctcg aggcaattga aaataaccac
1261 atgaccgcat tgctcaagga caaagacagt ctggcaacct atatgaggac ccttgacctc
1321 gaggaggaga aagccagaaa actttcaacc aaatctgctt cacccgacat cgtgggcaca
1381 atcaacgctc ttctggcaag gatcgctgct gcacgttccc tagtgcatcg ggcgaaagaa
1441 gagctctcta gcaggctgag acccgttgtt gtgatgatat cggggaagcc agggataggg
1501 aagactcacc tcgccagaga gctggccaag aagatcgcgg cctccctcac tggggaccag
1561 cgtgtgggtc tcatcccgcg caatggtgtc gatcactggg atgcgtacaa gggagaaaga
1621 gtggttcttt gggacgacta tggaatgagt aaccccatcc atgatgccct cagattgcag
1681 gaactcgctg acacctgtcc cctcacacta aactgtgaca ggattgagaa taaagggaag
1741 gtctttgaca gtgatgctat aattattacc accaacctgg ccaacccagc gccactggat
1801 tatgtcaatt ttgaagcatg ctcgaggcgc attgacttcc tcgtgtacgc agaagctcct
1861 gatgtggaaa aggcaaagcg cgacttccca ggccaacctg acatgtggaa gaacgcgttc
1921 agtcctgatt tctcacacct gaaactgtca ttggctccac agggtggttt tgacaagaac
1981 ggtaacaccc cgcatggaaa aggcgtcatg aagaccctca ccactggctc tctcatcgct
2041 cgagcttcag gtttgctcca tgagaggcta gacgagtatg aactacaagg cccaactctc
2101 accacattca actttgaccg taacaaaatc cttgctttca ggcagcttgc cgctgaaaac
2161 aaatgtgggc tggtggacac aatgaggatt ggaaaacagc tcaaggatgt caagaccatg
2221 ccagacctca aacaggcact caagaatgtc tctatcaaga agtgccagat agtgtacagt
2281 ggtggcacct acacacttga ggccgatggc aagggcagtg tgaaagttga caaagtgcaa
2341 agtgccactg tgcaaaccaa caatgaacta gctggtgccc tacaccacct aaggtgcgcc
2401 agaattagat actatgtcaa gtgtgtccag gaggctctgt attccatcat ccaaattgct
2461 ggggctgcat ttgtcaccac gcgcatcact aagcgcatga acatacagaa tctctggtcc
2521 aggccacagg tggaagacac agaagagacg gctagcaaag atggttgccc aaaatctaaa
2581 gatgatgaag agtttgtcgt tgcatccgac gacgtcaaaa ctgaaggcaa gaaggggaaa
2641 aataagactg gccgtggtaa gaagcacaca gccttctcaa gcaaagggct tagtgatgag
2701 gagtacgatg agtacaagag aatcagagaa gaaaggaatg gcaagtattc catagaggag
2761 taccttcagg acagggacaa gtactatgag gaggtggcca tcgcaagggc aaccgaagag
2821 gacttctgtg aagaagaaga ggccaaaatc cggcagagaa tcttcagacc aacaaggaaa
2881 caacgcaaag aggagagggc ttctctcggt ttggtcacag gctctgaaat taggaagaga
2941 aacccagaag acttcaaacc caaggggaaa ctgtgggctg acgatgacag aagtgttgac
3001 tacaatgaga aactcagctt tgaagcccca ccaagcatct ggtcacggat agtcaacttt
3061 ggttcaggtt ggggcttctg ggtctccccc tgtctgttta taacctcaac ccatgtcata
3121 ccccaagatg caaaagagtt ctttggagtc cccatcaaac aaatccagat acacaaatca
3181 ggtgaattct gtcgattgag gtttccaaaa ccaatcagaa ctgatgtgac gggcatgatt
3241 ctagaagaag gtgcacccga aggaaccgtg gccacactac tcatcaagag accaactgga
3301 gaactcatgc ctttggcagt aaggatggga acccatgcaa ccatgaagat tcaagggcgt
3361 acagttgggg gacaaatggg catgctcttg acaggatcca acgccaagag tatggaccta
3421 ggcacaacac caggtgactg cggctgtccc tacatttaca agagagggaa tgactacgtg
3481 gtcatagggg tccacacggc cgctgctcgt ggaggaaaca ctgtcatatg tgctacccag
3541 gggagtgaag gagaggccac actcgaaggt ggtgacaata agggaacata ctgtggtgcg
3601 ccaatcttgg gcccagggag tgccccgaaa ctcagcacca agaccaagtt ttggagatca
3661 tccacgacac cactcccacc tggcacctat gaaccagcct acctcggtgg caaggacccc
3721 agagtcaaag gtggtccctc gttgcaacaa gttatgaggg accagctaaa gccattcaca
3781 gaacccagag gtaaaccacc aagaccaagt gtgttggaag ctgccaagaa aaccattatc
3841 aatgttcttg agcaaacaat tgacccaccc caaaaatggt cattcgcgca agcttgcgcg
3901 tccctcgaca aaaccacttc cagcggttat ccacaccatg tgcggaagaa cgactgttgg
3961 aacggggatt ccttcacagg aaagttggca gaccaggcat ccaaggccaa tctaatgttt
4021 gaagagggga agaacatgac tccagtctac acaggtgcgc ttaaggatga actggtaaag
4081 actgacaaaa tttatggtaa gatcaaaaag aggcttctgt ggggctcaga cctggcgacc
4141 atgatacggt gcgcccgagc ttttggaggc cttatggatg aactcaaggc acactgtgtc
4201 acccttcctg tcagagttgg catgaacatg aatgaggatg gccccatcat ctttgagaaa
4261 cactctagat atagatacca ctatgacgct gattattccc ggtgggactc aacacaacaa
4321 agggatgtac tggcagcagc ccttgaaatc atggttaaat tttctccaga accacaccta
4381 gcccaggtag ttgcagaaga cctcctttcc cctagtgtaa tggatgtggg tgactttcag
4441 atatcaataa atgagggact cccctccggg gtgccttgca cctcccaatg gaattccatt
4501 gcccattggc ttctcactct ttgtgcactc tctgaagtca cggatttgtc ccctgatatt
4561 attcaggcca attccctttt ctccttctat ggtgatgatg agattgtgag cacagacata
4621 aagttggacc cagagaagct gacggcaaag ctcaaggagt acgggttaag accaacccgc
4681 cccgacaaaa ctgaaggacc ccttgtcatc tctgaagatc tggatggcct gacattcctg
4741 cggaggactg tgacccgtga catagctggc tggtttggca aattggaaca gagctcaatt
4801 ctcaggcaaa tgtactggac caagggtccc aaccatgagg atccatctga aacaatgata
4861 ccacactccc aaagacccat acaattgatg tcactgctgg gcgaggctgc actccatggc
4921 ccggcattct atagcaaaat tagcaagtta gttattgcag agttgaagga aggtggcatg
4981 gatttttacg tgcccagaca agagccaatg ttcagatgga tgagattctc agatctgagc
5041 acgtgggagg gcgatcgcaa tctggctccc agttttgtga atgaagatgg cgtcgaatga
5101 cgccaaccca tctgatgggt ccacagccaa cctcgtccca gaggtcaaca atgaggttat
5161 ggctttggag cccgttgtag gcgccgctat tgcggcacct gtggcgggcc aacaaaattt
5221 aattgacccc tggattagaa ataattttgt acaagcccct ggtggagagt tcacagtgtc
5281 ccccagaaac gctccaggtg aaatactatg gagcgcgcct ttgggccccg atttgaaccc
5341 ttatctttct catttggcca gaatgtacaa tggttatgca ggtggctttg aggtgcaggt
5401 aatccttgcg gggaacgcgt tcaccgccgg gaaaatcata tttgcagcag tcccaccaaa
5461 tttcccaact gaaggcttga gccccagcca ggttaccatg tttccccatg taatagtaga
5521 tgttaggcaa ttagaacctg tgttgatccc tttacctgat gttaggaata atttctatca
5581 ttataatcaa tcaaatgatt ctaccattaa attgatagca atgctgtata caccacttag
5641 ggcaaataat gctggggatg atgtcttcac ggtctcttgt cgggtcctta cgaggccatc
5701 ccctgatttt gatttcatat ttctggtacc accaacagtt gagtcaagaa ctaaaccttt
5761 tactgtccca atcctaaccg ttgaggaaat gaccaattca agattcccca ttcccttgga
5821 gaagctgtat acgggtccca gcactgcttt tgttgttcag ccacaaaatg gtagatgcac
5881 gactgatggc gtgctcttgg gcactaccca gctgtctgct gtcaacatct gtacctttag
5941 aggagatctc acccacattg caggcactcg ccaattcaca atgcgtctgg cctctccgaa
6001 ctggaacaac tatgatccaa cagaagaaat cccagccccc ctgggtaccc cagatttcgt
6061 ggggaagatt caaggcatgc tcacccaaac cacaaaagga gatggctcga cccgcggcca
6121 caaagccata gtgtccactg gggctgccga ctttgcccca aaatcaggca acattcgatt
6181 cggcactgac acagaagatg atctccaatc tggcacaaac acgaaattca ccccaattgg
6241 cgtcgtccaa gatggtgaaa acccccactt tagtgaaccc caacaatggg tgctcccaag
6301 ttacacaggt agaactggac ataatatgca tttggccccc gctgttgccc ccacttaccc
6361 gggtgagcaa ctccttttct tcaggtccac catgcccgga tgcagcgggt accccaactt
6421 ggatatagac tgcttgctcc cccaggaatg ggtgcagcac ttctaccaag aagcagctcc
6481 agcacaatct gatgtggctt tgctaagatt tgtgaatcca gacacaggta gggttttgtt
6541 tgagtgcaag cttcataagt caggatatgt tacagtagct catactggtc ctcatgatct
6601 agttatcccc cccaatggtt attttagatt tgattcctgg gtcaaccagt tttacacact
6661 tgcccccatg ggaaatggaa cggggcgcag acgtgtatta taatggctgg agctttcttt
6721 gctggattag catctgatgt ccttggttct ggacttggtt ccttaattaa tgctggggct
6781 ggagctatca atcaaaaagt tgaatttgaa aacaatagaa aattgcaaca agctgctttc
6841 caatttagta gtaatctgca acaagcttcc tttcaacatg acaaggagat gctccaagca
6901 caaattgagg ccactcaaaa attgcaacaa ggtatgatga aggttaagca ggcgatgctt
6961 ctagaaggtg gattctctga aacagatgca gctcgtgggg caattaacgc ccctatgaca
7021 aaggccttgg attggagtgg aacaagatac tgggcacctg atgctagggt tacaacatac
7081 aatgcaggcc gcttttccac ccctcaacct tcgggggcat tgccaggaag gactaatctt
7141 agggctactc tccccactcg gggttcttct agtgtaactt ctgcttcttc tgctacttct
7201 gtgtattcaa ataaaactgt ctcaacgagg cttggttctt cagcaggttc tggcaccagc
7261 gcctcaagca ccccgttaac tacaaggacc aggagctggg ttgaggatca aaacagaaac
7321 ttgtcaccct tcatgagtgg ggctcttaac acatcattcg tcaccccacc atctagcaga
7381 tcctccagtc aaagcacagt ctcaaccgtg cctaaagaaa ttttggactc ctggactggc
7441 gctttcaaca cgcgcaggca gcctctcttc gctcatgtcc gtaggcgagg ggagtcacgg
7501 gtgtaatgtg aaaagacaaa attgattatc tatcctttct ttagtgtctt tt
//