Typing tool
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Typing tool
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Complete norovirus genomes
| OQ342793 | GII.3 | |
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| GII.P25 |
ORF1: 5..5140
ORF2: 5121..6767
ORF3: 6767..7531
LOCUS OQ342793 7584 bp RNA linear VRL 31-DEC-2023
DEFINITION Norovirus GII isolate PBH22034, complete genome.
ACCESSION OQ342793
VERSION OQ342793.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7584)
AUTHORS Srimuang,K., Udompat,P., Thippamom,N., Petchrat,S., Doung-Ngern,P.,
Kripattanapong,S., Supataragul,A., Sterling,S.L.,
Wacharapluesadee,S. and Putcharoen,O.
TITLE Genetic characterization of Norovirus strains from an unusual
diarrheal outbreak in the community in Eastern Thailand
JOURNAL Unpublished
REFERENCE 2 (bases 1 to 7584)
AUTHORS Srimuang,K., Udompat,P., Thippamom,N., Petchrat,S., Doung-Ngern,P.,
Kripattanapong,S., Supataragul,A., Sterling,S.L.,
Wacharapluesadee,S. and Putcharoen,O.
TITLE Direct Submission
JOURNAL Submitted (26-JAN-2023) Thai Red Cross Emerging Infectious Diseases
Clinical Center, King Chulalongkorn Memorial Hospital, Rama 4 Road,
Bangkok 10330, Thailand
COMMENT ##Assembly-Data-START##
Assembly Method :: BWA v. 0.7.17-r1188; SPAdes v. 3.12.0
Sequencing Technology :: Illumina
##Assembly-Data-END##
FEATURES Location/Qualifiers
source 1..7584
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="PBH22034"
/isolation_source="Rectal swab"
/host="Homo sapiens"
/db_xref="taxon:122929"
/country="Thailand"
/collection_date="02-Jan-2022"
/note="genotype: GII.3/GII.P25"
gene 5..5140
/gene="ORF1"
CDS 5..5140
/gene="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="WCD55294.1"
/translation="MKMASNDAATATAGKTSTNSEIHNQDVNTTSSLFANMTVGLKRA
LGARPKQSAPRAPSPNREGKSETTTRTPPLNKGGRDNTPQIPPPPPNGEDIIIKYTKQ
DDVIAGVPTVATVDVPPTHNTAYSVPPLDQREKVEAKEPLTGSIIEMWDGEIFHYGLY
VEKGLVLGVHKPPAAISFARIELTPLSLYWRTVYTPPYLVAPETLRRLHGESFPYNAF
DNNCYSFCCWVLDLNDSWLNRKFVSRTTGFYRPYQEWNRKPLPTMDEGKLKKVANVLL
CGLSGLFTRPIKDLIGKLRPLNILNIITNCDWTFPGVVEALILLAELFGVFWTPPDIS
TFIASLLGDYEMQGPEDIAVEVVPVILGGIGMVLGFTKERIGRLLSSAASSLRACREI
GNYGIEVVKLVMKWFFPTKDETNEMDMVRAIEDAVLDFEAIQNNHMTALLKDKNSLAT
FLRELDMEEEKARKLSTKSASPDIIGTINALLARIAAARSLVHKAKEEMSSRMRPVVI
MISGRPGIGKTHLARDLAKKMAATLSGDQRVGLVPRNGVDHWDAYKGERIVLWDDYGM
SNPVTDALRLQELADTCPLTLNCDRIENKGKVFDSDTIIITTNLANPAPLDYVNFEAC
SRRIDFLVYADSPSVDKAKRDFPGQPDMWKDAFKPDFSHIKLQLAPQGGFDKNGNTPH
GKGVMKSLTTHSLIARATGLLHERLDEFDLQGPELPVYNFDQNRVAAFRKLAADNKYG
LVETIKVGNKLKSVRTLEQLKDALKDISIKPCRIIYNSMAYDLDSNGSGRVNVKKVVD
HKVQTNNELNSALNNLRGARVRYYVKCVQEMVYSLLQIAGAAFVTSRMTRRLNVSGIW
ARPEKQVEAIKEPPAPPSEEWTITPSDAIQEGKKGKNKSGRGKKHTAFSSKGLSDEEY
DEFKRIREERQGKYSIEEYLQDRDRYYEELAIAKATEENFCEEEEIKIRQRVFRPTRK
QRREERATLGLVTGSEIRKRNPDDFKPKGKLWADDDRSVNYNEKIDFEAPPSLWSRIV
NFGSGWGFWVSSNLLITSTHVIPPNMTEAFGVPISQIQIHRSGEFCKMRFPKAIRPDV
SGMILEEGAPEGTVVTILIKRTTGELMPLAARMGTHATMKIQGKMLGGQMGMLLTGSN
AKNMDLGTIPGDCGCPYVYKRGNDWVVIGVHTAAARGGNTVICATQGPDGEATLEGGD
NHGTYCGAPILGPGNAPKLSTKTKFWRSSNAPLPPGTYEPAYLGGKDPRVKGGPSLQQ
VMRDQLKPFTAPRGKPPRPAILEAAKETICNVLEQVIEPPQKWSYAQACASLDKTTSS
GHPHHMKKNDNWNGESFTGVLADQASKANLMFEQGKHMQPVYTAALKDELVKTSKIYE
NIKKRLLWGSDLGTMIRCARAFGGLMDEMKANCVNLPIRVGMNMNEDGPIIFDKHSKY
KYHYDADYSRWDSTQQRHILGAALEIMVRFSAEPELAQIVSEDLLAPSVVDVGDFKIT
INEGLPSGVPCTSQWNSISHWLITLCAISEVSGLSPDVVQTNSCFSFYGDDEIVSTDI
KLDPMKLTNKLKEYGLIPTRPDKTEGPLIIKESLEGLTFLRRDVCRDPAGWYGKLDQS
SIMRQLYWTKGTNHDDPNETMIPHSQRPIQLMSLLGEAALHGPTFYKKVSKLVITELK
EGGMDFYVPRQEPMFRWMRFSDLSTWEGDRNLAPEGVNEDGVE"
mat_peptide 5..1045
/gene="ORF1"
/product="p48"
mat_peptide 1046..2143
/gene="ORF1"
/product="NTPase"
mat_peptide 2144..2680
/gene="ORF1"
/product="p22"
mat_peptide 2681..3064
/gene="ORF1"
/product="VPg"
mat_peptide 3065..3607
/gene="ORF1"
/product="Pro"
mat_peptide 3608..5137
/gene="ORF1"
/product="RdRp"
gene 5121..6767
/gene="ORF2"
CDS 5121..6767
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="WCD55295.1"
/translation="MKMASNDAAPSSDGAAGLVPEINNEAMALEPVAGAAIAAPLTGQ
QNIIDPWIMNNFVQAPGGEFTVSPRNSPGEVLLNLELGPEINPYLAHLSRMYNGYAGG
FEVQVVLAGNAFTAGKVIFAAIPPNFPIDNLSAAQITMCPHVIVDVRQLEPINLPMPD
VRNNFFHYNQGSDSRLRLIAMLYTPLRANNSGDDVFTVSCRVLTRPSPDFSFNFLVPP
TVESKTKPFTLPILTISEMSNSRFPVPIDSLHTSPTDNVIVQCQNGRVTLDGELMGTT
QLLPSQICAFRGTLTTSTNRDRDQPDAAAPRIFDHRWHIQLDNLNGTPYDPAEDIPAP
LGTPDFQGKVFGVASQRNPDGTTRAHEAKVDTTSGRFTPKLGSLEIITESGDFNPNMP
TKFTPVGVGVDTDEEFQQWILPRYSGQVTHNMNLAPAVAPNFPGEQLLFFRSQLPSSG
GTSSGTLDCLVPQEWVQHFYQESAPAQTQVALVRYVNPDTGRVLFEAKLHKLGFITIA
KNGDSPITVPPNGYFRFESWVNPFYTLAPMGTGNGRRRIQ"
gene 6767..7531
/gene="ORF3"
CDS 6767..7531
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="WCD55296.1"
/translation="MAGAFVAGLAGDILTNTVGSLVNAGANAINQKVDFENNKYLQNA
SFNHDKEMLNAQIEATKRLQADMIAIKQGVLTAGGFSPADAARGAINAPVTKVLDWSG
TRYWAPNATSTTSMSGGFTSQVVHRTTPNFKVNQTPKPAPSSGSSVRSNSTQLTSLSS
HSSGSSRSSGSTVISSLPSSSRTRDWVNQQNFNLEPHMPGSLRTAFVTPPSSTVSSSD
TVSTVPKSVLDSWTSAFNTRRQPLFAHLRRRGESNA"
ORIGIN
1 gtgaatgaag atggcgtcta acgacgctgc cactgcgacc gctggcaaaa ccagcacaaa
61 cagtgaaatt cacaaccaag atgtaaacac tacatcaagc ctcttcgcca acatgaccgt
121 tggcttgaag agggccctgg gggcgaggcc aaaacagtct gcccccaggg ctccctcccc
181 caatagggag gggaagtctg aaaccaccac taggaccccc cccctaaaca agggaggaag
241 ggacaacacc ccccaaatac cccccccgcc acccaatggt gaggacataa tcatcaaata
301 caccaaacag gatgatgtga ttgcaggggt gcccactgtc gctacggtgg acgtcccccc
361 aacacacaac accgcctaca gtgtccctcc cttggatcag agggagaagg ttgaggcaaa
421 ggaacccctg acaggctcaa taattgagat gtgggatggt gaaattttcc attatgggct
481 ctatgttgag aagggcttgg ttcttggagt gcacaaaccc ccggctgcca taagctttgc
541 gcgcatagag ctcacccccc tctctttata ctggagaaca gtctacacac caccttatct
601 agtagcccca gaaacactta ggagactcca cggggagtcg ttcccataca atgcatttga
661 caataattgc tactccttct gctgttgggt cttggacctg aatgattcct ggcttaacag
721 aaagtttgtt tcgagaacta caggtttcta cagaccctac caagagtgga acagaaagcc
781 cctaccgacc atggatgagg gaaaactcaa gaaagtggcc aatgtgctac tgtgtggtct
841 ctccggtctt ttcaccagac caatcaagga cctcataggg aaactaagac cattgaacat
901 tctcaatatc atcaccaatt gtgattggac ttttcccgga gttgtggaag ctctcatatt
961 acttgcagaa ctcttcggag tcttctggac accaccagac atttccactt ttatagcatc
1021 acttctgggt gattatgaaa tgcagggccc cgaggacatt gcagttgaag ttgtgccagt
1081 aattcttggt ggcataggca tggtgcttgg gttcaccaaa gagagaatcg gccggttgct
1141 gagctctgcc gcttcttcgc ttagggcgtg cagagagatc ggcaattacg gaatagaagt
1201 ggtaaagttg gtgatgaaat ggtttttccc caccaaagat gagacaaatg agatggacat
1261 ggtgagggca atagaggatg ccgtgctcga ctttgaggcc atacaaaaca accacatgac
1321 agcattactc aaagacaaaa atagcctagc aaccttcctt agggagttag atatggaaga
1381 ggagaaagcg cggaagttat caacaaagtc cgcgtcccca gacattattg gcaccataaa
1441 cgccctccta gccaggattg ccgccgctag gtccctagtc cacaaggcca aagaagaaat
1501 gtcatctagg atgcgtcctg ttgtcattat gatctctggc cgacctggga taggaaagac
1561 acatctagcc cgcgacctgg ccaaaaagat ggcggcaacc ctctcaggtg accagagggt
1621 agggctcgtg ccaaggaatg gtgtcgatca ttgggacgca tacaaagggg agagaattgt
1681 gctctgggat gattatggaa tgagcaaccc tgtgaccgac gcgctgcggc tccaagaact
1741 tgccgacaca tgccccttga cgctcaattg tgataggata gagaacaagg ggaaggtctt
1801 tgatagtgac actataatta tcaccaccaa tttggccaat cctgcccctc tagattatgt
1861 taattttgaa gcttgctctc gccggattga tttccttgtc tatgcggact ccccctcggt
1921 cgataaggcg aagagagact tccccggtca accagatatg tggaaggacg catttaaacc
1981 agacttttcc cacataaaac tccaactggc accacaaggg ggctttgata aaaacggaaa
2041 caccccccat gggaagggtg tcatgaaatc actgaccaca cattccctta ttgcccgtgc
2101 cacgggtctg ttgcatgaga ggttggatga gttcgaccta caggggcctg aactacctgt
2161 gtacaatttt gaccaaaaca gggtggccgc ttttagaaag cttgcagctg acaacaagta
2221 cgggctcgtg gaaaccataa aagtgggcaa caaactgaag agtgtcagga ctctagaaca
2281 acttaaggat gccttaaaag acataagtat caagccttgc agaataatct acaactccat
2341 ggcttatgac ctcgactcga atgggtcagg aagggttaac gtcaaaaagg ttgtggatca
2401 taaagtccaa actaacaatg aactcaactc cgcgcttaac aacctgcgtg gcgccagggt
2461 aagatactat gtcaagtgtg ttcaagagat ggtgtactct ctcctccaga tcgctggcgc
2521 ggccttcgtc acttcaagaa tgacgcgaag attaaacgtc agtggtatct gggccaggcc
2581 agaaaaacag gtggaggcca ttaaagaacc cccagccccc ccatctgaag aatggactat
2641 aaccccatca gatgcaatcc aagagggcaa gaagggcaag aacaaaagtg gcagaggtaa
2701 gaaacacact gccttctcca gcaaaggtct gagtgacgag gagtatgatg agtttaaaag
2761 aatcagggaa gagaggcagg gaaaatattc catagaagaa tacctccagg acagagaccg
2821 gtactatgag gaattggcca tagccaaagc tacagaagaa aacttctgtg aggaggaaga
2881 aataaagatc agacagaggg tcttccgccc aaccagaaaa caacgtaggg aagaaagggc
2941 gaccctagga ctggtcacgg gtagtgaaat caggaaaagg aacccagatg acttcaaacc
3001 aaaaggaaaa ttgtgggctg atgatgaccg cagtgtaaac tacaatgaga aaatagattt
3061 cgaggcccct cctagccttt ggtcccgaat agtgaatttt ggatcaggat ggggtttctg
3121 ggtgtcttct aacctattga tcacatcaac acatgtcatc cccccgaaca tgactgaggc
3181 ttttggtgta ccaataagcc agatacaaat acacaggagt ggagagttct gcaaaatgag
3241 gttccccaag gctataagac ctgatgtctc gggcatgatc ctagaggaag gagcacctga
3301 aggaacggtg gtgaccatac tgattaagag aaccaccggt gagctcatgc cattggctgc
3361 ccgaatgggc acccacgcca ccatgaagat acaagggaaa atgcttggag gtcaaatggg
3421 aatgctcctc acggggtcca acgccaagaa tatggacctc ggcaccattc ctggagactg
3481 tggttgcccc tatgtgtaca agagaggtaa tgactgggtg gtcataggag tgcacaccgc
3541 agctgccaga ggtggcaaca ctgtgatctg cgccacccag gggccagatg gtgaggccac
3601 actcgaggga ggagacaatc acgggaccta ctgtggtgca ccaatacttg ggccaggaaa
3661 tgcaccaaag ctcagcacca aaaccaagtt ttggaggtca tccaacgccc cactcccgcc
3721 tggcacttat gagcctgctt acctaggagg aaaggatcca agggtcaaag ggggtccgtc
3781 attacaacag gttatgaggg atcaactcaa acccttcacc gccccccgag ggaaaccacc
3841 gcgaccagcg attttagagg cagccaaaga gaccatctgc aatgtgcttg agcaagtcat
3901 tgaaccaccc caaaaatggt cttatgctca ggcctgtgct tcattggata agacaacatc
3961 tagtggtcat ccccaccaca tgaaaaagaa tgacaattgg aacggagagt ctttcactgg
4021 tgtattggcc gatcaggcct ctaaggccaa tctcatgttt gaacagggaa aacacatgca
4081 acccgtgtac actgctgctc tcaaagatga gctcgtcaag actagtaaga tctatgaaaa
4141 cattaagaaa agacttctat ggggatcaga tctgggcaca atgatccgtt gtgctagggc
4201 attcggtggc ctcatggatg agatgaaggc aaattgtgtg aatttaccaa ttagagttgg
4261 catgaacatg aatgaagatg gacccatcat atttgataag cattcaaaat ataaatatca
4321 ttatgatgct gactattcca ggtgggactc aacccaacag aggcacatcc ttggagctgc
4381 ccttgaaata atggttagat tttcagctga acctgaatta gcacaaatag tgtctgaaga
4441 tctcctagcc cccagtgtgg tggacgttgg cgacttcaaa atcaccataa atgaaggatt
4501 gccctctgga gtgccgtgta catcacagtg gaactcaatt tcccactggc tcataacact
4561 gtgtgccata tcagaagtat cagggctgtc gccagacgtg gtacaaacaa actcctgctt
4621 ctccttctac ggggatgatg agatagtcag caccgacatc aagttagatc ccatgaagct
4681 gaccaacaag ttgaaagagt atgggttgat tccaacaagg ccagataaga ccgaggggcc
4741 gctcataatt aaagagagtc ttgagggcct aactttcctg aggagggacg tgtgtcgaga
4801 cccagctggt tggtatggaa aacttgacca atcctcaatc atgagacaac tgtattggac
4861 taagggaacc aaccatgatg atcccaatga gacaatgatt ccacactctc agagacccat
4921 acaattaatg tcactgctag gggaggcagc actgcatggt ccaacttttt acaagaaagt
4981 cagcaagttg gtcatcactg agctcaaaga aggtgggatg gatttctatg tgccaagaca
5041 ggaacctatg ttcagatgga tgagattctc ggatctcagt acttgggagg gcgatcgcaa
5101 tcttgctccc gaaggtgtga atgaagatgg cgtcgaatga cgctgctcca tctagtgatg
5161 gtgccgccgg cctcgtccca gagatcaaca atgaggcaat ggcgctagaa ccagtggcgg
5221 gtgcagcaat agcagcaccc ctcactggtc agcaaaatat aattgatccc tggattatga
5281 acaattttgt gcaagcaccc ggtggtgagt ttacagtgtc ccccagaaat tcccctggtg
5341 aagtgttact taatttggaa ctaggcccag aaataaatcc ttacctggcc cacctttcca
5401 gaatgtataa tggctatgca ggcgggtttg aagtgcaggt ggtcctagct ggaaatgcat
5461 tcacagcagg aaaggtaatc tttgcagcca taccccccaa ttttcctatt gataatctga
5521 gtgcagcaca gatcacaatg tgcccacatg tgattgtgga tgttaggcag ttagaaccaa
5581 tcaacctccc aatgcctgat gttcgcaata atttctttca ttataatcaa gggtctgatt
5641 caagattacg cttgatcgca atgctgtata cacctctcag agcaaataat tctggtgatg
5701 acgttttcac tgtgtcttgt agagttttaa ccaggcctag tcctgatttc tctttcaact
5761 ttcttgtacc acctactgta gaatcaaaga caaaaccttt cacccttcct attctgacca
5821 tctcagagat gtccaattct aggtttccag tgccaattga ttctctacac accagcccaa
5881 ccgacaatgt tattgtccaa tgtcaaaacg ggcgcgtcac tctcgatggc gagctaatgg
5941 gtaccactca actactacca agtcaaatat gtgctttcag gggcacgctc acaacatcaa
6001 caaataggga cagggaccaa cctgatgcag cagcccccag gatattcgac catcgttggc
6061 atattcaatt ggataacctg aatggcaccc cttatgatcc tgcagaggac ataccagctc
6121 ccttgggtac gccagatttt cagggtaagg tctttggtgt ggctagccag aggaaccccg
6181 atggcacaac aagagcacat gaggcaaaag tggacacaac atctggccgc tttactccaa
6241 agttgggttc cctagaaata atcactgaat ctggtgactt taatccaaat atgccaacaa
6301 aattcacccc agttggtgtt ggagttgaca ctgatgaaga attccaacaa tggatattac
6361 ctagatattc tggccaggtt acccacaaca tgaatttggc cccagctgtt gcccccaact
6421 tccctggtga gcagcttctt ttcttccgct cacagctacc atcttctggt gggacgtcca
6481 gcgggacttt ggactgcttg gtcccccagg agtgggttca gcatttctac caggaatcag
6541 cccctgccca gacacaggtg gccctggtta gatatgtcaa ccctgacact ggtagggtgt
6601 tgtttgaggc caaacttcat aaattgggtt ttataaccat agcaaagaat ggtgactctc
6661 caataactgt ccccccaaat gggtatttta gatttgaatc ttgggtgaac cccttttata
6721 cactcgcccc catgggaact ggcaacgggc gcagaaggat tcaataatgg caggagcatt
6781 tgtggcagga ttggctggtg atatactcac aaacactgtg ggatctttgg tgaatgcagg
6841 ggctaatgct attaatcaga aggttgattt tgagaataat aaatatttgc aaaatgcatc
6901 atttaatcat gataaggaga tgttgaatgc acaaattgag gcaacaaaaa ggctgcaggc
6961 tgatatgatt gctatcaaac aaggggtctt gaccgctggc ggcttttccc ctgctgatgc
7021 agcccgtggg gcaatcaatg ctccagtgac aaaagtcctg gactggagtg gaacaaggta
7081 ctgggcacca aacgccacct ccacaacttc aatgtcaggt ggctttacaa gccaagttgt
7141 gcacaggact acaccaaatt tcaaagtgaa ccagactccc aagcccgcac ccagcagcgg
7201 gtcttcagtg aggtcaaact caacacagct cactagtttg agctcacact catctgggtc
7261 atctcgatcc agtgggtcca cggttatcag ctcactacca tcttccagca ggaccagaga
7321 ttgggtcaat caacaaaatt tcaatttgga accacacatg cccgggtctc ttaggacagc
7381 ttttgtcact ccaccatcca gcacagtttc cagttcagac acggtctcaa ccgtgcccaa
7441 aagtgttttg gactcctgga catctgcgtt taacacacgc agacagccgc tgtttgcaca
7501 ccttcgtaga aggggggagt caaatgctta gtgaaaagat tatctttgaa tttaatttag
7561 attagatttg atttggcatc tttt
//