Typing tool
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Typing tool
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Complete norovirus genomes
| LC848167 | GII.4 Sydney | |
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| GII.P31 |
ORF1: 1..5080
ORF2: 5061..6683
ORF3: 6683..7489
LOCUS LC848167 7489 bp RNA linear VRL 17-OCT-2024
DEFINITION Norovirus GII.4 2022/TH_HC41_2_38_Nov1 RNA, draft genome.
ACCESSION LC848167
VERSION LC848167.1
KEYWORDS .
SOURCE Norovirus GII.4
ORGANISM Norovirus GII.4
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norovirus norwalkense.
REFERENCE 1
AUTHORS Boonyos,P., Phoonsangwalthong,P., Uppchai,S., Tacharoenmuang,R.,
Towayunanta,W., Chuntrakool,K., Oku,K., Motooka,D., Kotaki,T.,
Mekada,E., Tatsumi,M., Kobayashi,T. and Mizushima,H.
TITLE Characteristics of asymptomatic norovirus infection revealed by
surveys of community residents
JOURNAL Unpublished
REFERENCE 2 (bases 1 to 7489)
AUTHORS Mizushima,H., Boonyos,P., Phoonsangwalthong,P., Motooka,D. and
Oku,K.
TITLE Direct Submission
JOURNAL Submitted (15-OCT-2024) Contact:Hiroto Mizushima Thailand-Japan
Research Collaboration Center on Emerging and Re-emerging
Infections, Section of Viral Infections; Tiwanon Road, Muang,
Nonthaburi 11000, Thailand URL
:http://www.biken.osaka-u.ac.jp/en/laboratories/detail/28
COMMENT ##Assembly-Data-START##
Assembly Method :: MEGAHIT v. 1.2.9
Sequencing Technology :: DNBSEQ-G400RS
##Assembly-Data-END##
FEATURES Location/Qualifiers
source 1..7489
/organism="Norovirus GII.4"
/mol_type="genomic RNA"
/strain="2022/TH_HC41_2_38_Nov1"
/isolation_source="stool"
/host="Homo sapiens"
/db_xref="taxon:489821"
/geo_loc_name="Thailand: Bangkok"
/collection_date="2022-11-04"
/note="genotype: GII.4 Sydney_2012[P31]"
gene <1..5080
/gene="ORF1"
CDS <1..5080
/gene="ORF1"
/codon_start=2
/product="non-structural polyporotein precursor"
/protein_id="BFT93977.1"
/translation="ASAAAVVNSNNDIAKSSSDGVFSNMAVTFKRALGARPKQPPPKE
IPPRPPRPPTPELVKKIPPPPPNGEDELVVSYSAKDGVSGLPELTTVRQPEETNTAFS
VPPLNQRESRDAKEPLTGTIIEMWDGEIYHYGLYVERGLILGVHKPPAAISLAKVELA
PLSLFWRPVYTPQYLISPDTLRRLHGESFPYTAFDNNCYAFCCWVLDLNDSWLSRRMI
QRTTGFFRPYQDWNRKPLPTMDDSKLKKVANIFLCTLSSLFTRPIKDIIGKLRPLNIL
NILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPEDLAVELVP
IVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFPKKEEANE
LAMVRSIEDAVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARKLSTKSASPDI
VGTINSLLARIAAARSLVHRAKEELSSRPRPVVVMISGRPGIGKTHLARELAKKIAAS
LTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTCPLTLNCD
RIENKGKVFDSDAIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEKAKRDFPG
QPDMWKNAFSPDFSHIKLSLAPQGGFDKNGNTPHGKGVMRTLTTGSLIARASGLLHER
LDEYELQGPALTTFNFDRNKILAFRQLAAENKYGLMDTMRVGKQLKDVKTMSDLKQAL
KNIAIKKCQIVYNGGTYTLEADGKGSVKVDKVQSATVQTNNELAGALHHLRCARIRYY
VKCVQEALYSIIQIAGAAFVTTRIAKRMNIQNLWSKPQVEDTEEMANKDGCLKPKDDE
EFVVSSDDIKTEGKKGKNKSGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKYSIEEY
LQDRDRYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGLVTGSEIRK
RNPEDFKPKGKLWADDDRSVDYNEKLNFEAPPSIWSRIVNFGSGWGFWVSPSLFITST
HVIPQGAKEFFGVPIKQIQIHKSGEFCRLRFPKPIRTDVTGMILEEGAPEGTVATLLI
KRPTGELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGDCGCPYIY
KRGNDYVVIGVHTAAARGGNTVICATQGSEGEATLEGGDSKGTYCGAPILGPGSAPKL
STKTKFWRSSTTPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKPFTEPRGKPPRP
NVLEAAKKTIINVLEQTIDPPQKWSFAQACASLDKTTSSGHPHHMRKNDCWNGESFTG
KLADQASKANLMFEEGKNMTPVYTGALKDELVKTDKVYGKVKKRLLWGSDLATMIRCA
RAFGGLMDELKAHCVTLPVRVGMNMNEDGPIIFEKHSRYRYHYDADYSRWDSTQQRDV
LAAALEIMVKFSPEPHLAQIVAEDLLSPSVMDVGDFQISISEGLPSGVPCTSQWNSIA
HWLLTLCALSEVTDLSPDIIQANSLFSFYGDDEIVSTDIKLDPEKLTAKLKEYGLKPT
RPDKTEGPLVISEDLDGLTFLRRTVTRDPAGWFGKLEQSSILRQMYWTRGPNHEDPFE
TMIPHSQRPIQLMSLLGEAALHGPAFYSKISKLVIAELKEGGMDFYVPRQEPMFRWMR
FSDLSTWEGDRNLAPSFVNEDGVE"
mat_peptide <1..970
/gene="ORF1"
/product="p48"
mat_peptide 971..2068
/gene="ORF1"
/product="NTPase"
mat_peptide 2069..2605
/gene="ORF1"
/product="p22"
mat_peptide 2606..3004
/gene="ORF1"
/product="VPg"
mat_peptide 3005..3547
/gene="ORF1"
/product="Pro"
mat_peptide 3548..5077
/gene="ORF1"
/product="RdRp"
gene 5061..6683
/gene="ORF2"
CDS 5061..6683
/gene="ORF2"
/codon_start=1
/product="VP1"
/protein_id="BFT93978.1"
/translation="MKMASSDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ
QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
FEVQVILAGNAFTAGKVIFAAVPPNFPTEGLSPSQVTMFPHIVVDVRQLEPVLIPLPD
VRNNFYHYNQSNDPTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT
QLSPVNICTFRGDVTHITGSRNYTMNLASQNWSNYDPTEEIPAPLGTPDFVGKIQGVL
TQTTRTDGSTRGHKATVYTGSADFAPKLGRVQFETDTDHDFEANQNTKFTPVGVIQDG
GTTHRNEPQQWVLPSYSGRNTPNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD
CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV
IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRAL"
gene 6683..7489
/gene="ORF3"
CDS 6683..7489
/gene="ORF3"
/codon_start=1
/product="VP2"
/protein_id="BFT93979.1"
/translation="MAGAFFAGLASDVLGSGLGSLINAGAGAISQKVEFENNRKLQQA
SFQFSSNLQQASFQHDKEMLQAQIEATKRLQQEMMKVKQAMLLEGGFSETDAARGAIN
APMTKVLDWNGTRYWAPDARTTTYNAGRFSTPQPSGALPGRANLRDAVPARGSPSKSS
NSSTATSVHSNQTTSTRLGSTAGSGTSVSSFPSTARTRSWVEDQSRNLSPFMRGAHNI
SFVTPPSSRSSSQGTVSTVPKEILDSWTGAFNTRRQPLFAHIRKRGESRV"
ORIGIN
1 cgcttccgct gccgctgttg tcaacagcaa caacgacatc gcaaaatctt caagtgacgg
61 tgtgttttct aacatggctg tcacttttaa gcgggccctc ggggcgcggc ctaaacagcc
121 gcccccgaag gaaataccac ccagaccccc gcgaccaccc acaccagaat tggtcaaaaa
181 gatccctcct cccccaccca acggggagga tgaactagtg gtctcttaca gcgccaaaga
241 tggcgtttcc ggactgcctg agctcaccac tgtcagacaa ccggaagaaa ccaacacggc
301 gttcagtgtc cccccactca accaaaggga gagcagggac gccaaggagc cactaactgg
361 aacaatcatt gaaatgtggg atggagaaat ctaccattac ggcctgtacg tggaacgagg
421 tcttatactt ggtgtgcaca agccaccggc agccattagc cttgccaagg tcgagctagc
481 accgctctcc ttgttctgga gacctgtata caccccccag tatctcatct ctccagacac
541 tcttaggaga ttacatggag agtcattccc ctacactgca tttgacaaca attgctacgc
601 cttttgttgt tgggtattag acctaaacga ctcatggcta agcaggagaa tgattcagag
661 aacaacaggc ttcttcaggc cgtaccagga ttggaacagg aaacccctcc ccactatgga
721 cgattccaaa ttaaagaagg tagccaacat attcttgtgc actttgtctt cactattcac
781 cagacccatt aaggacataa tagggaagtt gagacctctt aacatcctta acattctggc
841 tacatgtgat tggaccttcg caggcatagt ggaatccttg atactcttgg cagaactctt
901 tggagttttc tggacacccc cagatgtgtc tgcgatgatc gcccccttgc taggtgatta
961 tgaactgcaa ggacctgagg accttgcagt ggaactggtc ccaatagtga tgggggggat
1021 aggtttggtg ctaggattta ccaaagagaa aatcggaaag atgctatcat ccgctgcatc
1081 cactttaaga gcttgtaaag accttggtgc atacggactg gaaatcttaa aattggtcat
1141 gaagtggttc ttcccaaaga aagaggaagc aaatgaactg gctatggtga gatccatcga
1201 ggatgcagta ctagacctcg aggcgattga aaacaaccac atgaccaccc tactcaaaga
1261 caaagacagc ttggcaacct acatgagaac ccttgacctt gaggaggaga aagccagaaa
1321 actctcaacc aaatctgctt cacccgatat tgtgggcaca atcaactctc tcctggcaag
1381 aatcgctgct gcacgctccc tagtgcatcg tgcgaaagaa gagctctcca gcaggccgag
1441 acctgtcgtt gtgatgatat cgggaagacc agggataggg aaaactcacc ttgccaggga
1501 gctggccaag aagatcgcgg cctccctcac aggggaccag cgtgtgggcc ttatcccacg
1561 caatggtgtc gaccactggg acgcatacaa gggcgaaaga gttgtcctat gggacgacta
1621 tggaatgagc aaccccatcc atgatgccct caggttgcag gagcttgctg acacttgccc
1681 cctcacgcta aattgtgaca gaattgagaa caaagggaaa gtctttgaca gtgatgccat
1741 aattatcacc accaatctgg ccaacccagc accactggat tatgtcaact ttgaagcgtg
1801 ctcgagacgc attgatttcc tcgtgtacgc agaagcccct gaggtggaga aggcaaagcg
1861 cgacttccca ggtcaacctg acatgtggaa gaacgctttc agtcctgact tctcacacat
1921 aaaactgtca ttggccccac agggtggttt tgacaagaac ggcaacaccc cgcatggaaa
1981 aggggtcatg aggaccctca ccactggctc cctcatcgcc cgagcatcag ggttactcca
2041 tgagaggcta gatgagtatg aactgcaagg cccagccctc accactttca actttgaccg
2101 caacaagata cttgccttta gacagcttgc tgctgaaaac aagtatgggc tgatggacac
2161 aatgagagtt ggaaaacagc tcaaggatgt caagaccatg tcagacctca aacaagcact
2221 caagaacatc gcgatcaaga agtgccagat agtgtacaat ggtggcacct acacacttga
2281 ggctgatggc aagggtagtg tgaaagttga caaagtgcaa agtgccactg tgcagaccaa
2341 caatgaacta gccggtgccc tacaccacct aaggtgcgct agaatcagat actatgtcaa
2401 gtgcgtccag gaggcactgt attccatcat ccaaatcgct ggggctgcat tcgtcaccac
2461 gcgcatcgct aagcgcatga atatacagaa tctctggtcc aagccacagg tggaagacac
2521 agaagagatg gccaacaaag atggttgcct aaaacccaaa gatgatgaag agtttgtcgt
2581 ctcatccgac gacatcaaaa ctgagggcaa gaaagggaag aacaaatccg gccgtggcaa
2641 gaagcacaca gccttttcaa gtaaagggct cagtgatgag gagtacgatg agtacaagag
2701 aatcagagaa gaaaggaatg gtaagtactc catagaagag taccttcagg acagagacag
2761 gtactacgag gaggtggcca ttgccagggc aaccgaagag gacttctgtg aagaagaaga
2821 ggccaaaatc cggcagagaa ttttcagacc aacaaggaag caacgcaaag aagagagggc
2881 ctctctcggc ttggtcacag gctctgaaat caggaagaga aacccagaag acttcaaacc
2941 caaggggaag ctgtgggctg atgatgacag aagtgttgac tacaatgaga aactcaactt
3001 tgaggcccca ccaagcatct ggtcgcggat agtcaacttt ggttcaggct ggggcttctg
3061 ggtctccccc agtctgttta taacatcaac ccatgtcata ccccaaggtg caaaagagtt
3121 cttcggagtc cctatcaagc aaatccagat acacaagtca ggtgaattct gccggttgag
3181 gttcccaaag ccaatcagaa ctgatgtgac gggcatgatt ctagaagaag gtgcgcccga
3241 gggaaccgtg gccacactgc tcatcaagag accaactgga gagctcatgc ctctggcagc
3301 cagaatgggg acccatgcaa ccatgaaaat tcaggggcgc acagttggag ggcaaatggg
3361 tatgctcctg acaggatcca acgccaagag catggaccta ggcacaacac caggcgactg
3421 cggctgcccc tacatctaca agagggggaa tgactacgtg gtcataggag tccatacggc
3481 cgctgcccgt ggaggaaaca ctgtcatatg tgccacccag gggagtgagg gagaagccac
3541 acttgaagga ggtgacagta aagggacata ctgtggcgca ccaatcttgg gcccagggag
3601 cgctccgaag ctcagtacca agactaagtt ttggagatca tccacaacac cactcccacc
3661 tggcacctac gaaccagcct acctcggtgg caaagaccct agagtcaaag gtggcccttc
3721 attgcaacaa gttatgaggg atcagctgaa gccattcaca gaacccagag gcaaaccacc
3781 aagaccaaat gtgttggaag ctgccaagaa aaccatcatc aatgtccttg aacaaacaat
3841 tgatccaccc caaaaatggt catttgcgca agcttgcgca tcccttgaca aaaccacctc
3901 cagcggccac ccgcaccaca tgcggaaaaa cgactgttgg aatggggagt ccttcacagg
3961 aaaattggct gatcaagcct ccaaggccaa cctaatgttt gaagagggaa agaacatgac
4021 tccagtctac acaggtgcac ttaaagatga gttggtaaag accgataaag tttatggtaa
4081 ggttaagaag aggcttctgt ggggttcaga cctggcgacc atgatacggt gcgcccgagc
4141 ttttggaggc cttatggatg aactcaaggc acactgtgtc acactccctg tcagagttgg
4201 tatgaacatg aatgaggatg gccccatcat ctttgagaag cactccagat acagatatca
4261 ctatgatgct gattattccc ggtgggactc aacacaacaa agggatgtgc tagcagcagc
4321 actagaaatc atggttaagt tctctccaga accacacctg gcccagatag ttgcagaaga
4381 tctcctttcc cctagcgtga tggatgtagg tgactttcaa atatcaataa gtgagggtct
4441 cccatctggg gtaccttgta cctcccagtg gaattccatc gcccactggc tcctcactct
4501 gtgtgcactc tctgaagtca cggacctgtc ccctgatatc attcaggcca actccctttt
4561 ctccttctat ggtgatgatg agattgtaag cacagacata aagttggacc cagagaagct
4621 gacagcaaag ctcaaggagt acgggctaaa accaacccgc cccgacaaaa ctgaaggacc
4681 ccttgttatc tctgaagacc tggatggcct gacattcctc cggagaactg tgacccgtga
4741 tccagctggc tggtttggaa aattggaaca aagttcaatt ctcaggcaaa tgtactggac
4801 caggggtccc aaccatgaag atccatttga aacaatgata ccacactccc aaagacccat
4861 acaattgatg tccttgctgg gcgaggctgc actccacggc ccggcattct atagcaaaat
4921 tagcaagcta gtcattgcag agttgaagga aggtggcatg gatttttacg tacccagaca
4981 agagccaatg ttcagatgga tgagattctc agacctgagt acgtgggagg gcgatcgcaa
5041 tctggctccc agttttgtga atgaagatgg cgtcgagtga cgccaaccca tctgatgggt
5101 ccgcagccaa cctcgtccca gaggtcaaca atgaggttat ggctctggag cccgttgttg
5161 gtgccgccat tgcggcacct gtagcgggcc aacaaaatgt aattgacccc tggattagga
5221 ataattttgt acaagcccct ggtggagagt ttacagtatc ccctagaaac gctccaggtg
5281 aaatactgtg gagcgcgccc ctgggccctg atctaaatcc ctacctatcc catttggcca
5341 ggatgtacaa tggttatgca ggtggttttg aagtgcaggt aattctcgcg gggaacgcgt
5401 tcaccgccgg gaaggtcata tttgcagcag tcccaccaaa tttcccaact gaaggcttga
5461 gccccagcca ggtcactatg ttcccccata tagtagtaga tgttaggcaa ctagaacctg
5521 tgttgattcc cttacccgat gttaggaata atttttatca ttataatcaa tcaaatgacc
5581 ccaccattaa gttgatagca atgttgtata caccacttag ggctaataat gctggggatg
5641 atgtcttcac agtttcttgc cgagttctca cgagaccatc ccccgatttt gatttcatat
5701 ttctagtgcc acccacagtt gagtcaagaa ctaaaccatt ctctgtccca gttttaactg
5761 ttgaggagat gaccaattca agattcccca ttcctttgga aaagttgttc acgggtccca
5821 gcagtgcctt tgttgtccaa ccacaaaacg gtaggtgcac gactgatggc gtgctcctag
5881 gcaccaccca actgtctcct gtcaatatct gcaccttcag aggagatgtc acccacatca
5941 caggtagtcg taactacaca atgaatttgg cttcccaaaa ttggagcaat tatgacccaa
6001 cagaagaaat cccagcccct ctaggaactc cagattttgt ggggaagatt caaggcgtgc
6061 tcacccaaac cacaaggaca gatggctcaa cacgcggcca caaagccaca gtgtacactg
6121 ggagcgccga ctttgctcca aaactgggta gagttcaatt tgaaactgac acagaccatg
6181 attttgaagc taaccaaaac acaaagttca ccccagttgg tgtcatccaa gatggtggta
6241 ccacccaccg aaatgaaccc caacagtggg tgctcccaag ttactcaggc agaaatactc
6301 ctaatgtgca tctagccccc gctgtagccc ccacttttcc gggtgagcaa cttctcttct
6361 tcagatccac catgcccggt tgcagcgggt atcccaacat ggatttggac tgtctgctcc
6421 cccaggaatg ggtgcagtac ttctaccaag aggcagcccc agcacaatct gatgtggctc
6481 tgctaagatt tgtgaatcca gacacaggta gggttttgtt tgagtgtaag cttcataaat
6541 caggctatgt tacagtggct cacactggcc aacatgattt ggttatcccc cccaatggtt
6601 attttaggtt tgattcctgg gtcaaccagt tttacacgct tgcccccatg ggaaatggaa
6661 cggggcgtag acgtgcacta taatggctgg agctttcttt gctggattgg catctgatgt
6721 ccttggctct ggacttggtt cccttatcaa tgctggggct ggggctatca gccaaaaagt
6781 tgagtttgaa aataacagaa aattgcaaca agcatccttc caatttagca gcaatctaca
6841 acaggcttcc tttcaacatg acaaagagat gctccaagca caaattgagg ccaccaagag
6901 gctacaacag gaaatgatga aagttaagca ggcaatgctc ctagagggtg ggttctctga
6961 gacagatgca gcccgcgggg caatcaacgc ccccatgaca aaagttttgg actggaacgg
7021 gacaaggtac tgggctcccg atgctaggac tacaacatac aatgcgggcc gcttttccac
7081 ccctcaacca tcgggggcac tgccaggaag agctaatctt agggatgctg tccctgctcg
7141 gggttcccct agtaagtctt ctaattcttc tactgctact tctgtgcact caaatcaaac
7201 cacttcaacg agacttggtt ctacagctgg ttctggtacc agtgtctcga gcttcccgtc
7261 aactgcaagg actaggagct gggttgagga tcaaagtagg aatttgtcac ctttcatgag
7321 gggggcccac aacatatcgt ttgtcacccc accatctagc agatcctcta gccaaggcac
7381 agtctcaacc gtgcctaaag agattttgga ctcctggact ggcgctttca acacgcgcag
7441 gcagccactc ttcgctcaca ttcgtaagcg aggggagtca cgggtgtaa
//