Typing tool
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Typing tool
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Complete norovirus genomes
| LC848169 | GII.4 Sydney | |
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| GII.P31 |
ORF1: 1..5099
ORF2: 5080..6702
ORF3: 6702..7508
LOCUS LC848169 7508 bp RNA linear VRL 17-OCT-2024
DEFINITION Norovirus GII.4 2022/TH_HC41_2_51_Nov1 RNA, draft genome.
ACCESSION LC848169
VERSION LC848169.1
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JOURNAL Unpublished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 7508)
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..7508
/organism="Norovirus GII.4"
/mol_type="genomic RNA"
/strain="2022/TH_HC41_2_51_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..5099
/gene="ORF1"
CDS <1..5099
/gene="ORF1"
/codon_start=3
/product="non-structural polyporotein precursor"
/protein_id="BFT93983.1"
/translation="KMASNDASAAAVVNSNNDIAKSSSDGVFSNMAVTFKRALGARPK
QPPPKEIPPRPPRPPTPELVKKIPPPPPNGEDELVVSYSAKDGVSGLPELTTVRQPEE
TNTAFSVPPLNQRESRDAKEPLTGTIIEMWDGEIYHYGLYVERGLILGVHKPPAAISL
AKVELAPLSLFWRPVYTPQYLISPDTLRRLHGESFPYTAFDNNCYAFCCWVLDLNDSW
LSRRMIQRTTGFFRPYQDWNRKPLPTMDDSKLKKVANIFLCTLSSLFTRPIKDIIGKL
RPLNILNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPEDL
AVELVPIVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFPK
KEEANELAMVRSIEDAVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARKLSTK
SASPDIVGTINSLLARIAAARSLVHRAKEELSSRPRPVVVMISGRPGIGKTHLARELA
KKIAASLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTCP
LTLNCDRIENKGKVFDSDAIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEKA
KRDFPGQPDMWKNAFSPDFSHIKLSLAPQGGFDKNGNTPHGKGVMRTLTTGSLIARAS
GLLHERLDEYELQGPALTTFNFDRNKILAFRQLAAENKYGLMDTMRVGKQLKDVKTMS
DLKQALKNIAIKKCQIVYNGGTYTLEADGKGSVKVDKVQSATVQTNNELAGALHHLRC
ARIRYYVKCVQEALYSIIQIAGAAFVTTRIAKRMNIQNLWSKPQVEDTEEMANKDGCL
KPKDDEEFVVSSDDIKTEGKKGKNKSGRGKKHTAFSSKGLSDEEYDEYKRIREERNGK
YSIEEYLQDRDRYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGLVT
GSEIRKRNPEDFKPKGKLWADDDRSVDYNEKLNFEAPPSIWSRIVNFGSGWGFWVSPS
LFITSTHVIPQGAKEFFGVPIKQIQIHKSGEFCRLRFPKPIRTDVTGMILEEGAPEGT
VATLLIKRPTGELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGDC
GCPYIYKRGNDYVVIGVHTAAARGGNTVICATQGSEGEATLEGGDSKGTYCGAPILGP
GSAPKLSTKTKFWRSSTTPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKPFTEPR
GKPPRPNVLEAAKKTIINVLEQTIDPPQKWSFAQACASLDKTTSSGHPHHMRKNDCWN
GESFTGKLADQASKANLMFEEGKNMTPVYTGALKDELVKTDKVYGKVKKRLLWGSDLA
TMIRCARAFGGLMDELKAHCVTLPVRVGMNMNEDGPIIFEKHSRYRYHYDADYSRWDS
TQQRDVLAAALEIMVKFSPEPHLAQIVAEDLLSPSVMDVGDFQISISEGLPSGVPCTS
QWNSIAHWLLTLCALSEVTDLSPDIIQANSLFSFYGDDEIVSTDIKLDPEKLTAKLKE
YGLKPTRPDKTEGPLVISEDLDGLTFLRRTVTRDPAGWFGKLEQSSILRQMYWTRGPN
HEDPFETMIPHSQRPIQLMSLLGEAALHGPAFYSKISKLVIAELKEGGMDFYVPRQEP
MFRWMRFSDLSTWEGDRNLAPSFVNEDGVE"
mat_peptide <1..989
/gene="ORF1"
/product="p48"
mat_peptide 990..2087
/gene="ORF1"
/product="NTPase"
mat_peptide 2088..2624
/gene="ORF1"
/product="p22"
mat_peptide 2625..3023
/gene="ORF1"
/product="VPg"
mat_peptide 3024..3566
/gene="ORF1"
/product="Pro"
mat_peptide 3567..5096
/gene="ORF1"
/product="RdRp"
gene 5080..6702
/gene="ORF2"
CDS 5080..6702
/gene="ORF2"
/codon_start=1
/product="VP1"
/protein_id="BFT93984.1"
/translation="MKMASSDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ
QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
FEVQVILAGNAFTAGKVIFAAVPPNFPTEGLSPSQVTMFPHIVVDVRQLEPVLIPLPD
VRNNFYHYNQSNDPTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT
QLSPVNICTFRGDVTHITGSRNYTMNLASQNWSNYDPTEEIPAPLGTPDFVGKIQGVL
TQTTRTDGSTRGHKATVYTGSADFAPKLGRVQFETDTDHDFEANQNTKFTPVGVIQDG
GTTHRNEPQQWVLPSYSGRNTPNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD
CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV
IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRAL"
gene 6702..7508
/gene="ORF3"
CDS 6702..7508
/gene="ORF3"
/codon_start=1
/product="VP2"
/protein_id="BFT93985.1"
/translation="MAGAFFAGLASDVLGSGLGSLINAGAGAISQKVEFENNRKLQQA
SFQFSSNLQQASFQHDKEMLQAQIEATKRLQQEMMKVKQAMLLEGGFSETDAARGAIN
APMTKVLDWNGTRYWAPDARTTTYNAGRFSTPQPSGALPGRANLRDAVPARGSPSKSS
NSSTATSVHSNQTTSTRLGSTAGSGTSVSSFPSTARTRSWVEDQSRNLSPFMRGAHNI
SFVTPPSSRSSSQGTVSTVPKEILDSWTGAFNTRRQPLFAHIRKRGESRV"
ORIGIN
1 tgaagatggc gtctaacgac gcttccgctg ccgctgttgt caacagcaac aacgacatcg
61 caaaatcttc aagtgacggt gtgttttcta acatggctgt cacttttaag cgggccctcg
121 gggcgcggcc taaacagccg cccccgaagg aaataccacc cagacccccg cgaccaccca
181 caccagaatt ggtcaaaaag atccctcctc ccccacccaa cggggaggat gaactagtgg
241 tctcttacag cgccaaagat ggcgtttccg gactgcctga gctcaccact gtcagacaac
301 cggaagaaac caacacggcg ttcagtgtcc ccccactcaa ccaaagggag agcagggacg
361 ccaaggagcc actaactgga acaatcattg aaatgtggga tggagaaatc taccattacg
421 gcctgtacgt ggaacgaggt cttatacttg gtgtgcacaa gccaccggca gccattagcc
481 ttgccaaggt cgagctagca ccgctctcct tgttctggag acctgtatac accccccagt
541 atctcatctc tccagacact cttaggagat tacatggaga gtcattcccc tacactgcat
601 ttgacaacaa ttgctacgcc ttttgttgtt gggtattaga cctaaacgac tcatggctaa
661 gcaggagaat gattcagaga acaacaggct tcttcaggcc gtaccaggat tggaacagga
721 aacccctccc cactatggac gattccaaat taaagaaggt agccaacata ttcttgtgca
781 ctttgtcttc actattcacc agacccatta aggacataat agggaagttg agacctctta
841 acatccttaa cattctggct acatgtgatt ggaccttcgc aggcatagtg gaatccttga
901 tactcttggc agaactcttt ggagttttct ggacaccccc agatgtgtct gcgatgatcg
961 cccccttgct aggtgattat gaactgcaag gacctgagga ccttgcagtg gaactggtcc
1021 caatagtgat gggggggata ggtttggtgc taggatttac caaagagaaa atcggaaaga
1081 tgctatcatc cgctgcatcc actttaagag cttgtaaaga ccttggtgca tacggactgg
1141 aaatcttaaa attggtcatg aagtggttct tcccaaagaa agaggaagca aatgaactgg
1201 ctatggtgag atccatcgag gatgcagtac tagacctcga ggcgattgaa aacaaccaca
1261 tgaccaccct actcaaagac aaagacagct tggcaaccta catgagaacc cttgaccttg
1321 aggaggagaa agccagaaaa ctctcaacca aatctgcttc acccgatatt gtgggcacaa
1381 tcaactctct cctggcaaga atcgctgctg cacgctccct agtgcatcgt gcgaaagaag
1441 agctctccag caggccgaga cctgtcgttg tgatgatatc gggaagacca gggataggga
1501 aaactcacct tgccagggag ctggccaaga agatcgcggc ctccctcaca ggggaccagc
1561 gtgtgggcct tatcccacgc aatggtgtcg accactggga cgcatacaag ggcgaaagag
1621 ttgtcctatg ggacgactat ggaatgagca accccatcca tgatgccctc aggttgcagg
1681 agcttgctga cacttgcccc ctcacgctaa attgtgacag aattgagaac aaagggaaag
1741 tctttgacag tgatgccata attatcacca ccaatctggc caacccagca ccactggatt
1801 atgtcaactt tgaagcgtgc tcgagacgca ttgatttcct cgtgtacgca gaagcccctg
1861 aggtggagaa ggcaaagcgc gacttcccag gtcaacctga catgtggaag aacgctttca
1921 gtcctgactt ctcacacata aaactgtcat tggccccaca gggtggtttt gacaagaacg
1981 gcaacacccc gcatggaaaa ggggtcatga ggaccctcac cactggctcc ctcatcgccc
2041 gagcatcagg gttactccat gagaggctag atgagtatga actgcaaggc ccagccctca
2101 ccactttcaa ctttgaccgc aacaagatac ttgcctttag acagcttgct gctgaaaaca
2161 agtatgggct gatggacaca atgagagttg gaaaacagct caaggatgtc aagaccatgt
2221 cagacctcaa acaagcactc aagaacatcg cgatcaagaa gtgccagata gtgtacaatg
2281 gtggcaccta cacacttgag gctgatggca agggtagtgt gaaagttgac aaagtgcaaa
2341 gtgccactgt gcagaccaac aatgaactag ccggtgccct acaccaccta aggtgcgcta
2401 gaatcagata ctatgtcaag tgcgtccagg aggcactgta ttccatcatc caaatcgctg
2461 gggctgcatt cgtcaccacg cgcatcgcta agcgcatgaa tatacagaat ctctggtcca
2521 agccacaggt ggaagacaca gaagagatgg ccaacaaaga tggttgccta aaacccaaag
2581 atgatgaaga gtttgtcgtc tcatccgacg acatcaaaac tgagggcaag aaagggaaga
2641 acaaatccgg ccgtggcaag aagcacacag ccttttcaag taaagggctc agtgatgagg
2701 agtacgatga gtacaagaga atcagagaag aaaggaatgg taagtactcc atagaagagt
2761 accttcagga cagagacagg tactacgagg aggtggccat tgccagggca accgaagagg
2821 acttctgtga agaagaagag gccaaaatcc ggcagagaat tttcagacca acaaggaagc
2881 aacgcaaaga agagagggcc tctctcggct tggtcacagg ctctgaaatc aggaagagaa
2941 acccagaaga cttcaaaccc aaggggaagc tgtgggctga tgatgacaga agtgttgact
3001 acaatgagaa actcaacttt gaggccccac caagcatctg gtcgcggata gtcaactttg
3061 gttcaggctg gggcttctgg gtctccccca gtctgtttat aacatcaacc catgtcatac
3121 cccaaggtgc aaaagagttc ttcggagtcc ctatcaagca aatccagata cacaagtcag
3181 gtgaattctg ccggttgagg ttcccaaagc caatcagaac tgatgtgacg ggcatgattc
3241 tagaagaagg tgcgcccgag ggaaccgtgg ccacactgct catcaagaga ccaactggag
3301 agctcatgcc tctggcagcc agaatgggga cccatgcaac catgaaaatt caggggcgca
3361 cagttggagg gcaaatgggt atgctcctga caggatccaa cgccaagagc atggacctag
3421 gcacaacacc aggcgactgc ggctgcccct acatctacaa gagggggaat gactacgtgg
3481 tcataggagt ccatacggcc gctgcccgtg gaggaaacac tgtcatatgt gccacccagg
3541 ggagtgaggg agaagccaca cttgaaggag gtgacagtaa agggacatac tgtggcgcac
3601 caatcttggg cccagggagc gctccgaagc tcagtaccaa gactaagttt tggagatcat
3661 ccacaacacc actcccacct ggcacctacg aaccagccta cctcggtggc aaagacccta
3721 gagtcaaagg tggcccttca ttgcaacaag ttatgaggga tcagctgaag ccattcacag
3781 aacccagagg caaaccacca agaccaaatg tgttggaagc tgccaagaaa accatcatca
3841 atgtccttga acaaacaatt gatccacccc aaaaatggtc atttgcgcaa gcttgcgcat
3901 cccttgacaa aaccacctcc agcggccacc cgcaccacat gcggaaaaac gactgttgga
3961 atggggagtc cttcacagga aaattggctg atcaagcctc caaggccaac ctaatgtttg
4021 aagagggaaa gaacatgact ccagtctaca caggtgcact taaagatgag ttggtaaaga
4081 ccgataaagt ttatggtaag gttaagaaga ggcttctgtg gggttcagac ctggcgacca
4141 tgatacggtg cgcccgagct tttggaggcc ttatggatga actcaaggca cactgtgtca
4201 cactccctgt cagagttggt atgaacatga atgaggatgg ccccatcatc tttgagaagc
4261 actccagata cagatatcac tatgatgctg attattcccg gtgggactca acacaacaaa
4321 gggatgtgct agcagcagca ctagaaatca tggttaagtt ctctccagaa ccacacctgg
4381 cccagatagt tgcagaagat ctcctttccc ctagcgtgat ggatgtaggt gactttcaaa
4441 tatcaataag tgagggtctc ccatctgggg taccttgtac ctcccagtgg aattccatcg
4501 cccactggct cctcactctg tgtgcactct ctgaagtcac ggacctgtcc cctgatatca
4561 ttcaggccaa ctcccttttc tccttctatg gtgatgatga gattgtaagc acagacataa
4621 agttggaccc agagaagctg acagcaaagc tcaaggagta cgggctaaaa ccaacccgcc
4681 ccgacaaaac tgaaggaccc cttgttatct ctgaagacct ggatggcctg acattcctcc
4741 ggagaactgt gacccgtgat ccagctggct ggtttggaaa attggaacaa agttcaattc
4801 tcaggcaaat gtactggacc aggggtccca accatgaaga tccatttgaa acaatgatac
4861 cacactccca aagacccata caattgatgt ccttgctggg cgaggctgca ctccacggcc
4921 cggcattcta tagcaaaatt agcaagctag tcattgcaga gttgaaggaa ggtggcatgg
4981 atttttacgt acccagacaa gagccaatgt tcagatggat gagattctca gacctgagta
5041 cgtgggaggg cgatcgcaat ctggctccca gttttgtgaa tgaagatggc gtcgagtgac
5101 gccaacccat ctgatgggtc cgcagccaac ctcgtcccag aggtcaacaa tgaggttatg
5161 gctctggagc ccgttgttgg tgccgccatt gcggcacctg tagcgggcca acaaaatgta
5221 attgacccct ggattaggaa taattttgta caagcccctg gtggagagtt tacagtatcc
5281 cctagaaacg ctccaggtga aatactgtgg agcgcgcccc tgggccctga tctaaatccc
5341 tacctatccc atttggccag gatgtacaat ggttatgcag gtggttttga agtgcaggta
5401 attctcgcgg ggaacgcgtt caccgccggg aaggtcatat ttgcagcagt cccaccaaat
5461 ttcccaactg aaggcttgag ccccagccag gtcactatgt tcccccatat agtagtagat
5521 gttaggcaac tagaacctgt gttgattccc ttacccgatg ttaggaataa tttttatcat
5581 tataatcaat caaatgaccc caccattaag ttgatagcaa tgttgtatac accacttagg
5641 gctaataatg ctggggatga tgtcttcaca gtttcttgcc gagttctcac gagaccatcc
5701 cccgattttg atttcatatt tctagtgcca cccacagttg agtcaagaac taaaccattc
5761 tctgtcccag ttttaactgt tgaggagatg accaattcaa gattccccat tcctttggaa
5821 aagttgttca cgggtcccag cagtgccttt gttgtccaac cacaaaacgg taggtgcacg
5881 actgatggcg tgctcctagg caccacccaa ctgtctcctg tcaatatctg caccttcaga
5941 ggagatgtca cccacatcac aggtagtcgt aactacacaa tgaatttggc ttcccaaaat
6001 tggagcaatt atgacccaac agaagaaatc ccagcccctc taggaactcc agattttgtg
6061 gggaagattc aaggcgtgct cacccaaacc acaaggacag atggctcaac acgcggccac
6121 aaagccacag tgtacactgg gagcgccgac tttgctccaa aactgggtag agttcaattt
6181 gaaactgaca cagaccatga ttttgaagct aaccaaaaca caaagttcac cccagttggt
6241 gtcatccaag atggtggtac cacccaccga aatgaacccc aacagtgggt gctcccaagt
6301 tactcaggca gaaatactcc taatgtgcat ctagcccccg ctgtagcccc cacttttccg
6361 ggtgagcaac ttctcttctt cagatccacc atgcccggtt gcagcgggta tcccaacatg
6421 gatttggact gtctgctccc ccaggaatgg gtgcagtact tctaccaaga ggcagcccca
6481 gcacaatctg atgtggctct gctaagattt gtgaatccag acacaggtag ggttttgttt
6541 gagtgtaagc ttcataaatc aggctatgtt acagtggctc acactggcca acatgatttg
6601 gttatccccc ccaatggtta ttttaggttt gattcctggg tcaaccagtt ttacacgctt
6661 gcccccatgg gaaatggaac ggggcgtaga cgtgcactat aatggctgga gctttctttg
6721 ctggattggc atctgatgtc cttggctctg gacttggttc ccttatcaat gctggggctg
6781 gggctatcag ccaaaaagtt gagtttgaaa ataacagaaa attgcaacaa gcatccttcc
6841 aatttagcag caatctacaa caggcttcct ttcaacatga caaagagatg ctccaagcac
6901 aaattgaggc caccaagagg ctacaacagg aaatgatgaa agttaagcag gcaatgctcc
6961 tagagggtgg gttctctgag acagatgcag cccgcggggc aatcaacgcc cccatgacaa
7021 aagttttgga ctggaacggg acaaggtact gggctcccga tgctaggact acaacataca
7081 atgcgggccg cttttccacc cctcaaccat cgggggcact gccaggaaga gctaatctta
7141 gggatgctgt ccctgctcgg ggttccccta gtaagtcttc taattcttct actgctactt
7201 ctgtgcactc aaatcaaacc acttcaacga gacttggttc tacagctggt tctggtacca
7261 gtgtctcgag cttcccgtca actgcaagga ctaggagctg ggttgaggat caaagtagga
7321 atttgtcacc tttcatgagg ggggcccaca acatatcgtt tgtcacccca ccatctagca
7381 gatcctctag ccaaggcaca gtctcaaccg tgcctaaaga gattttggac tcctggactg
7441 gcgctttcaa cacgcgcagg cagccactct tcgctcacat tcgtaagcga ggggagtcac
7501 gggtgtaa
//