Typing tool
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Typing tool
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Complete norovirus genomes
| MN400355 | GII.4 Hong Kong | |
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| GII.P31 |
ORF1: 5..5104
ORF2: 5085..6707
ORF3: 6707..7510
LOCUS MN400355 7556 bp RNA linear VRL 21-JAN-2020
DEFINITION Norovirus GII isolate Hu/HK/2019/GII.4 Hong Kong[P31]/CUHK-NS-2200,
complete genome.
ACCESSION MN400355
VERSION MN400355.2
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7556)
AUTHORS Tse,E.H.Y., Zhang,L.Y., Lau,S.L. and Chan,M.C.
TITLE Genome Sequence of a Human Norovirus GII.4 Hong Kong[P31] Variant
in Hong Kong, China
JOURNAL Microbiol Resour Announc 9 (3), e01391-19 (2020)
PUBMED 31948964
REMARK Publication Status: Online-Only
REFERENCE 2 (bases 1 to 7556)
AUTHORS Zhang,L.-Y., Lau,S.L. and Chan,M.C.-W.
TITLE Direct Submission
JOURNAL Submitted (02-SEP-2019) Department of Microbiology, The Chinese
University of Hong Kong, Room 38022, 1/F, Department of
Microbiology, Hong Kong 852, China
COMMENT On Oct 31, 2019 this sequence version replaced MN400355.1.
##Assembly-Data-START##
Sequencing Technology :: Sanger dideoxy sequencing; Illumina
##Assembly-Data-END##
FEATURES Location/Qualifiers
source 1..7556
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="Hu/HK/2019/GII.4 Hong Kong[P31]/CUHK-NS-2200"
/isolation_source="stool"
/host="Homo sapiens"
/db_xref="taxon:122929"
/country="Hong Kong"
/collection_date="19-Aug-2019"
/note="genotype: GII.4 Hong Kong[P31]"
primer_bind 1..22
gene 5..5104
/gene="ORF1"
CDS 5..5104
/gene="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="QEL43935.2"
/translation="MKMASNDASAAAVAKSNNDIAKSSSDGVLSNMAVTFKRALGARP
KQPPPKEIPPRPPRPPTPELIKKIPPPPPNGEDELVVSYSAKDGVSGLPELTTVGQPD
ETNTAFSVPPLNQRENRDAKEPLTGTIIEMWDGEIYHYGLYVERGLILGVHKPPAAIS
FAKVELAPLSLYWRPVYTPQYLISPDTLRRLHGESFPYTAFDNNCYAFCCWVLDLNDS
WLSRRMINRTTGFFRPYQDWNRKPLPTVDDSKLKKVANIFLCTLSSLFTRPIKDIIGK
LKPLNILNILATCDWTFAGIVESLILMAELFGVFWTPPDVSAMIAPLLGDYELQGPED
LAVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFP
KKEEVSELAMVRSIEDAVLDLEAIENNHMTALLKDKDSLATYMRTLDLEEEKARKLST
KSASPDIVGTINALLARIAAARSLVHRAKEELSSRLRPVVVMISGKPGIGKTHLAREL
AKKIAASLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTC
PLTLNCDRIENKGKVFDSDAIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPDVEK
AKRDFPGQPDMWKNAFSPDFSHLKLSLAPQGGFDKNGNTPHGKGVMKTLTTGSLIARA
SGLLHERLDEYELQGPTLTTFNFDRNKILAFRQLAAENKYGLVDTMRIGKQLKDVKTM
PDLKQALKNVSIKKCQIVYSGGTYTLEADGKGSVKVDKVQSATVQTNNELAGALHHLR
CARIRYYVKCVQEALYSIIQIAGAAFVTTRITKRMNIQNLWSRPQVEDTEETASKDGC
PKPKDDEEFVVASDDVKTEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNG
KYSIEEYLQDRDKYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGLV
TGSEIRKRNPEDFKPKGKLWADDDRSVDYNEKLSFEAPPSIWSRIVNFGSGWGFWVSP
SLFITSTHVIPQDAKEFFGVPIKQIQIHKSGEFCRLRFPKPIRTDVTGMILEEGAPEG
TVATLLIKRPTGELMPLAVRMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGD
CGCPYIYKRGNDYVVIGVHTAAARGGNTVICATQGSEGEATLEGGDNKGTYCGAPILG
PGSAPKLSTKTKFWRSSTTPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKPFTEP
RGKPPRPSVLEAAKKTIINVLEQTIDPPQKWSFAQACASLDKTTSSGYPHHVRKNDCW
NGDSFTGKLADQASKANLMFEEGKNMTPVYTGALKDELVKTDKIYGKIKKRLLWGSDL
ATMIRCARAFGGLMDELKAHCVTLPVRVGMNMNEDGPIIFEKHSRYRYHYDADYSRWD
STQQRDVLAAALEIMVKFSPEPHLAQVVAEDLLSPSVMDVGDFQISINEGLPSGVPCT
SQWNSIAHWLLTLCALSEVTDLSPDIIQANSLFSFYGDDEIVSTDIKLDPEKLTAKLK
EYGLRPTRPDKTEGPLVISEDLDGLTFLRRTVTRDIAGWFGKLEQSSILRQMYWTKGP
NHEDPSETMIPHSQRPIQLMSLLGEAALHGPAFYSKISKLVIAELKEGGMDFYVPRQE
PMFRWMRFSDLSTWEGDRNLAPSFVNEDGVE"
gene 5085..6707
/gene="ORF2"
CDS 5085..6707
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="QEL43936.1"
/translation="MKMASNDANPSDGSTANLVPEVNNEVMALEPVVGAAIAAPVAGQ
QNLIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
FEVQVILAGNAFTAGKIIFAAVPPNFPTEGLSPSQVTMFPHVIVDVRQLEPVLIPLPD
VRNNFYHYNQSNDSTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFTVPILTVEEMTNSRFPIPLEKLYTGPSTAFVVQPQNGRCTTDGVLLGTT
QLSAVNICTFRGDLTHIAGTRQFTMHLASPNWNNYDPTEEIPAPLGTPDFVGKIQGML
TQTTKGDGSTRGHKAIVSTGAADFAPKSGNIRFGTDTEDDLQSGTNTKFTPIGVVQDG
ENPHFSEPQQWVLPSYTGRTGHNVHLAPAVAPTYPGEQLLFFRSTMPGCSGYPNLDID
CLLPQEWVQHFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGPHDLA
IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRVL"
gene 6707..7510
/gene="ORF3"
CDS 6707..7510
/gene="ORF3"
/codon_start=1
/product="VP2"
/protein_id="QFX67174.1"
/translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA
AFQFSSNLQQASFQHDKEMLQAQIEATQKLQQGMMKVKQAMLLEGGFSETDAARGAIN
APMTKALDWSGTRYWAPDARVTTYNAGRFSTPQPSGALPGRTNLRATLPTRGSSSVTS
ASSATSVYSNKTVSTRLGSSAGSGTSASSTPLTTRTRSWVEDQNRNLSPFMSGALNTS
FVTPPSSRSSSQGTVSTVPKEILDSWTGAFNTRRQPLFAHVRRRGESRV"
ORIGIN
1 gtgaatgaag atggcgtcta acgacgcttc cgctgccgct gttgccaaaa gcaacaacga
61 catcgcaaaa tcttcaagtg acggtgtgtt atctaacatg gctgtcactt ttaaacgggc
121 cctcggggcg cggcctaaac agccgccccc gaaggaaata ccacccagac ccccacgacc
181 acccacacca gaattgatca aaaagatccc ccccccccca cccaacgggg aggatgaact
241 agtggtttcc tacagtgcca aagatggcgt ttccggcctg cctgagctca ctactgtcgg
301 acaaccggat gagaccaaca cggcgttcag tgttcccccg ctcaaccaga gggagaatag
361 ggacgctaag gaaccactaa ctggaacaat cattgaaatg tgggatggag aaatatacca
421 ttacggcctg tacgtggaac gaggtcttat acttggtgtg cacaagccac cggcagccat
481 tagctttgcc aaggtcgagc tagcaccact ttctttgtac tggagacctg tatacacccc
541 ccagtatctc atctctccag acactctcag gaggctgcat ggagagtcat tcccctacac
601 tgcatttgac aacaattgct acgccttctg ttgttgggtg ttagacctaa acgactcatg
661 gctaagcagg agaatgatta acagaacaac aggtttcttc agaccatacc aggattggaa
721 caggaaaccc ctccccactg tggatgattc caaattgaaa aaggtagcca acatattctt
781 gtgcactttg tcttcactat tcaccagacc cattaaggac ataataggga agttgaaacc
841 ccttaacatc ctcaatattc tggccacatg cgactggacc ttcgcaggca tagtggagtc
901 cttaatactc atggcagaac tctttggagt tttctggaca cccccagatg tgtctgcgat
961 gatcgctccc ttactaggtg attatgaact gcaagggcct gaggaccttg cagtagaact
1021 agtcccagtg gtgatggggg ggataggttt ggtgctagga ttcaccaaag agaaaattgg
1081 aaagatgttg tcatccgctg catccacttt gagagcttgc aaagaccttg gtgcatacgg
1141 actggaaatt ttgaaattgg tcatgaaatg gttcttccca aagaaagagg aagtgagtga
1201 attggctatg gtgagatcca tcgaggacgc agtactggac ctcgaggcaa ttgaaaataa
1261 ccacatgacc gcattgctca aggacaaaga cagtctggca acctatatga ggaccctcga
1321 cctcgaggag gagaaagcca gaaaactttc aaccaaatct gcttcacccg acattgtggg
1381 cacaatcaac gctcttctgg caaggatcgc tgctgcacgt tccctagtgc atcgggcgaa
1441 agaagagctc tctagcaggc tgagacccgt tgttgtgatg atatcgggga agccagggat
1501 agggaagact cacctcgcca gagagctggc caagaagatc gcggcctccc tcactgggga
1561 ccagcgtgtg ggtctcatcc cgcgcaatgg tgttgatcac tgggatgcgt acaagggaga
1621 aagagtggtt ctttgggacg actatggaat gagtaacccc atccatgatg ccctcagatt
1681 gcaggaactt gctgacacct gtcccctcac actaaactgt gacaggattg agaataaagg
1741 gaaggtcttt gacagtgatg ctataattat taccaccaac ctggccaacc cagcgccact
1801 ggattatgtc aattttgaag catgctcgag gcgcattgac ttcctcgtgt acgcagaagc
1861 tcctgatgtg gaaaaggcaa agcgcgactt cccaggccaa cctgacatgt ggaagaacgc
1921 gttcagtcct gatttctcac acctgaaact gtcattggct ccacagggtg gttttgacaa
1981 gaacggtaac accccgcatg gaaaaggcgt catgaagact ctcaccactg gctctctcat
2041 cgctcgagct tcaggtttgc tccatgagag gctagacgag tatgaactac aaggcccaac
2101 tctcaccact ttcaactttg accgtaacaa aatccttgct ttcaggcagc ttgccgctga
2161 aaacaaatat gggctggtgg acacaatgag gattggaaaa cagctcaagg atgtcaagac
2221 catgccagac ctcaaacagg cactcaagaa tgtctctatc aagaagtgcc agatagtgta
2281 cagtggtggc acctacacac ttgaggccga tggcaagggc agtgtgaaag ttgacaaagt
2341 gcaaagtgcc actgtgcaaa ccaacaatga actagctggt gccctacacc acctaaggtg
2401 cgccagaatt agatactatg tcaagtgtgt ccaggaggcg ctgtattcca tcatccaaat
2461 tgctggggct gcatttgtca ccacgcgcat cactaagcgc atgaacatac agaatctctg
2521 gtccaggcca caggtggaag acacagaaga gacggctagc aaagatggtt gcccaaaacc
2581 taaagatgat gaagagtttg tcgttgcatc cgacgacgtc aaaactgaag gcaagaaggg
2641 gaaaaacaag actggccgtg gtaagaagca cacagccttc tcaagcaaag ggcttagtga
2701 tgaggagtac gatgagtaca agagaatcag agaagaaagg aatggcaagt attccataga
2761 ggagtacctt caggacaggg acaagtacta tgaggaggtg gccatcgcaa gggcaaccga
2821 agaggacttc tgtgaagaag aagaggccaa aatccggcag agaatcttca gaccaacaag
2881 gaaacaacgc aaagaggaga gggcttctct cggtttggtc acaggctctg aaattaggaa
2941 gagaaaccca gaagacttca aacccaaggg gaaactgtgg gctgacgatg ataggagtgt
3001 tgactacaat gagaaactca gctttgaagc cccaccaagc atctggtcac ggatagtcaa
3061 ctttggttca ggttggggct tttgggtctc ccccagtctg tttataacct caacccatgt
3121 cataccccaa gatgcaaaag agttctttgg agtccccatc aaacaaatcc agatacacaa
3181 atcaggtgaa ttctgtcgat tgaggtttcc aaaaccaatc agaactgatg tgacgggcat
3241 gattctagaa gaaggtgcgc ccgaaggaac cgtggccaca ctactcatca agagaccaac
3301 tggagaactc atgcctttgg cagtaaggat gggaacccat gcaaccatga agattcaagg
3361 gcgtacagtt gggggacaaa tgggcatgct cttgacagga tccaacgcca agagtatgga
3421 cctaggcaca acaccaggtg actgcggctg tccctacatt tacaagagag ggaatgacta
3481 cgtggtcata ggggtccaca cggccgctgc ccgtggagga aacactgtca tatgtgctac
3541 ccaggggagt gaaggagagg ccacactcga aggtggtgac aataaaggaa catactgtgg
3601 tgcaccaatc ttgggcccag ggagtgcccc gaaactcagc accaagacca agttttggag
3661 atcatccacg acaccactcc cacctggcac ctatgaacca gcctacctcg gtggcaagga
3721 ccccagagtc aaaggtggtc cctcgttgca acaagttatg agggaccagc taaagccatt
3781 cacagaaccc agaggtaaac caccaagacc aagtgtgttg gaagctgcca agaaaaccat
3841 tatcaatgtt cttgagcaaa caattgaccc accccaaaaa tggtcattcg cgcaagcttg
3901 cgcgtccctc gacaaaacca cttccagcgg ttatccacac catgtgcgga agaacgactg
3961 ttggaacggg gattccttca caggaaaatt ggcagaccag gcatccaagg ccaatctaat
4021 gtttgaagag gggaagaaca tgactccagt ctacacaggt gcgcttaagg atgaactggt
4081 aaagactgac aaaatttatg gtaagatcaa aaagaggctt ctgtggggct cagacctggc
4141 gaccatgata cggtgcgccc gagcttttgg aggccttatg gatgaactca aggcacactg
4201 tgtcaccctt cctgtcagag ttggcatgaa catgaatgag gatggcccca tcatctttga
4261 gaaacactct agatatagat accactatga cgctgattat tcccggtggg actcaacaca
4321 acaaagggat gtactggcag cagcccttga aatcatggtt aaattttctc cagaaccaca
4381 cctagcccag gtagttgcag aagacctcct ttcccctagt gtaatggatg tgggtgactt
4441 tcaaatatca ataaatgagg gactcccctc cggggtgcct tgcacctccc aatggaattc
4501 cattgcccat tggcttctca ctctttgtgc actctctgaa gtcacggatt tgtcccctga
4561 tattattcag gccaattccc ttttctcctt ctatggtgat gatgagattg tgagcacaga
4621 cataaagttg gacccagaga agctgacggc aaagctcaag gagtacgggc taagaccaac
4681 ccgccccgac aaaactgaag gaccccttgt catctctgaa gatctggatg gcctgacatt
4741 cctgcggagg actgtgaccc gtgacatagc tggctggttt ggcaaattgg aacagagctc
4801 aattctcagg caaatgtact ggaccaaggg tcccaaccat gaagatccat ctgaaacaat
4861 gataccacac tcccaaagac ccatacaatt gatgtctctg ctgggcgagg ctgcactcca
4921 tggcccggca ttctatagca aaattagcaa gttagttatt gcagagttga aggaaggtgg
4981 catggatttt tacgtgccca gacaagagcc aatgttcaga tggatgagat tctcagatct
5041 gagcacgtgg gagggcgatc gcaatctggc tcccagtttt gtgaatgaag atggcgtcga
5101 atgacgccaa cccatctgat gggtccacag ccaacctcgt cccagaggtc aacaatgagg
5161 ttatggcttt ggagcccgtt gtaggcgccg ctattgcggc acctgtggcg ggccaacaaa
5221 atttaattga cccctggatt agaaataatt ttgtacaagc ccctggtgga gagttcacag
5281 tgtcccccag aaacgctcca ggtgaaatac tatggagcgc gcctttgggc cccgatttga
5341 acccttatct ttctcatttg gccagaatgt acaatggtta tgcaggtggc tttgaggtgc
5401 aggtaatcct tgcggggaac gcgttcaccg ccgggaaaat catatttgca gcagtcccac
5461 caaatttccc aactgaaggc ttgagcccca gccaggttac catgtttccc catgtaatag
5521 tagatgttag gcaactagaa cctgtgttga tccctttacc tgatgtcagg aataatttct
5581 atcattataa tcaatcaaat gattctacca ttaaattgat agcaatgctg tatacaccac
5641 ttagggcaaa taatgctggg gatgatgtct tcacggtctc ttgtcgggtc cttacgaggc
5701 catcccctga ttttgatttt atatttctgg taccaccaac agttgagtca agaactaaac
5761 cttttactgt cccaatctta accgttgagg aaatgaccaa ttcaagattc cccattccct
5821 tggagaagct gtatacgggt cccagcactg cttttgttgt tcagccacaa aatggtagat
5881 gcacgactga tggcgtgctc ttgggcacta cccagctgtc tgctgtcaac atctgtacct
5941 ttagaggaga tctcacccac attgcaggca ctcgccaatt cacaatgcat ttggcctctc
6001 cgaactggaa caactatgat ccaacagaag aaatcccagc ccccctggga accccagatt
6061 tcgtggggaa gattcaaggc atgctcaccc aaaccacaaa aggagatggc tcgacccgcg
6121 gccacaaagc catagtgtcc actggggctg ccgactttgc cccaaaatca ggcaacattc
6181 gattcggcac tgacacagaa gatgatctcc aatctggcac aaacacgaaa ttcaccccaa
6241 ttggcgtcgt ccaagatggt gaaaaccccc actttagtga accccaacaa tgggtgctcc
6301 caagttacac aggtagaact ggacataatg tgcatttggc ccctgctgtt gcccccactt
6361 acccgggtga gcaactcctt ttcttcaggt ccaccatgcc cggatgcagc gggtacccca
6421 acttggacat agactgcttg ctcccccagg aatgggtgca gcacttctac caagaagcag
6481 ctccagcaca atctgatgtg gctttgctaa gatttgtgaa tccagacaca ggtagggttt
6541 tgtttgagtg caagcttcat aaatcaggat atgttacagt agctcatact ggtcctcatg
6601 atctagctat cccccccaat ggttatttta gatttgattc ctgggtcaac cagttttaca
6661 cacttgcccc catgggaaat ggaacggggc gcagacgtgt attataatgg ctggagcttt
6721 ctttgctgga ttggcatctg atgtccttgg ttctggactt ggttccttga ttaatgctgg
6781 ggctggagct atcaatcaaa aagttgaatt tgaaaataat agaaaattgc aacaagctgc
6841 tttccaattt agtagtaatc tgcaacaagc ttcctttcaa catgacaagg agatgctcca
6901 agcacaaatt gaggccactc aaaaattgca acaaggtatg atgaaggtta agcaggcgat
6961 gcttctagaa ggtggattct ctgaaacaga tgcagctcgt ggggcaatta acgcccccat
7021 gacaaaggcc ttggattgga gtggaacaag atactgggca cctgatgcta gggttacaac
7081 atataatgca ggccgctttt ccacccctca accttcgggg gcattgccag gaaggactaa
7141 tctcagggct actctcccca ctcggggttc ttctagtgtt acttctgctt cttctgctac
7201 ttctgtgtat tcaaataaaa ctgtctcaac gaggcttggt tcttcagcag gttctggcac
7261 cagcgcctca agcaccccgt taactacaag gaccaggagc tgggttgagg atcaaaacag
7321 aaacttgtca cccttcatga gtggggctct caacacatca ttcgtcaccc caccatctag
7381 cagatcctcc agtcaaggca cagtctcaac cgtgcctaaa gaaattttgg actcctggac
7441 tggcgctttc aacacgcgca ggcagcctct cttcgctcat gtccgtaggc gaggggagtc
7501 acgggtgtaa tgtgaaaaga caaaattgat tatctatcct ttctttattg tctttt
//