Typing tool
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Typing tool
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Complete norovirus genomes
| PP658561 | GII.4 Sydney | |
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| GII.P16 |
ORF1: 4..5103
ORF2: 5084..6706
ORF3: 6706..7512
LOCUS PP658561 7566 bp RNA linear VRL 01-JUN-2024
DEFINITION Norovirus GII isolate PBH23501-STN nonstructural polyprotein
(ORF1), VP1 (ORF2), and VP2 (ORF3) genes, complete cds.
ACCESSION PP658561
VERSION PP658561.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norovirus norwalkense.
REFERENCE 1 (bases 1 to 7566)
AUTHORS Doungngern,P., Pittayawong-anont,C., Kraipatanapong,S.,
Waikhruea,K., Menkoon,K., Rattanatumhi,K., Supataragul,A.,
Thippamom,N., Khunnawutmanotham,W., Hirunpatrawong,P.,
Wacharapluesadee,S., Sereewit,J., Sobolik,E.B., Roychoudhury,P.,
Greninger,A.L. and Putcharoen,O.
TITLE Direct Submission
JOURNAL Submitted (13-APR-2024) Virology, University of Washington, 850
Republican St, Seattle, WA 98109, USA
COMMENT ##Assembly-Data-START##
Assembly Method :: Geneious v. 2023; metaspades v. 2024
Sequencing Technology :: Illumina
##Assembly-Data-END##
FEATURES Location/Qualifiers
source 1..7566
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="PBH23501-STN"
/isolation_source="stool"
/host="Homo sapiens"
/db_xref="taxon:122929"
/geo_loc_name="Thailand"
/collection_date="2023-08-21"
/note="genotype: GII"
gene 4..5103
/gene="ORF1"
CDS 4..5103
/gene="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="WZF77184.1"
/translation="MKMASNDATVAVACNNNNDKEKSSGEGLFTNMSSTLKKALGARP
KQPAPRDVPQKPPRPPTPELVKKIPPPPPNGEEEEEPVIRYEVKSGISGLPELTTVPQ
PDVANTAFSVPPLSLRENREAKEPLTGAILEMWDGEIYHYGLYVEKGLVLGVHKPPAA
ISMARVELTPLSLYWRVVYTPQYLIPPETLRRLNGEAFPYTAFDNNCYAFCCWVLDLN
DSWLSRRMVQRTTGFFRPYQEWNRKPLPTMDDSKIKKVANIFLCSLSTLFTRPIKDLI
GKIKPLNILNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGP
EDLAVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWF
FPKKEEANELAIVRAIEDAVLDLEAIENNHMTTLLKDKDSLATYMKTLDMEEEKARRL
STKSASPDIVGTINALLARIAAARSLVHRAKEELSSRIRPVVVMISGKPGIGKTHLAR
EVARKVASTLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRIQELAD
TCPLTLNCDRIENKGKVFDSEVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEV
EKAKRDFPGQPDMWKDAFKPDFSHIKLQLAPQGGFDKNGNTPHGKGVMKTLTTGSLIA
RASGLLHERMDEFELQGPTITTFNFDRNRITAFRQLAAENKYGLVDTMKVGNQLKGVK
TMEELKQAIRNVTIKRCRIIYGGSTYDLESDGKGKVLVEKVKNTSIQTNNELTGALHH
LKHARIRYYVKCVQETVYSIIQIAGAAFVTTRIARRMNIQELWSKPQLDQNESETKEE
APKSEDDEFVISSKDIKEEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNG
KYSIEEYLQDRDRYYEELAIAKATEEDFCEEEEIKIRQRIFRPTRKQRKEERATLGLV
TGSEIRRRNPDDFKPKGKLWADDNRSVDYNEKLDFEAPPSIWSRIVSFGSGWGFWVSP
SLFITSTHVIPAGMTEAFGVPIKQIQIHKSGEFCRFRFPKPIRPDVTGMILEEGAPEG
TVATVLIKRPTGELMPLAARMGTHATMKIQGRMVGGQMGMLLTGSNAKGMDLGTTPGD
CGCPYIYKRGNDYIVIGVHTAAARGGNTVICATQGSEGEATLEGGDDKGTYCGAPILG
PGGAPKLSTKTKFWRSSNTPLPPGTYEPAYLGGRDPRVKGGPSLQQVMRDQLKPFTEP
RGKPPRPSVLEAAKQTIINVLEQTLDPPQKWTYAQACASLDKTTSSGHPHHARKNEFW
NGETFTGKLADQASKANLMFEEGKHMTPVYTAALKDELVKTEKIYGKIKKRLLWGSDL
STMIRCARSFGGLMDEMKAHCISLPVRVGMNMNEDGPIIFEKHSRYKYHYDADYSRWD
STQQRAVLAAALEIMVRFSAEPQLAQIVAEDLLAPSVVDVGDFKITINEGLPSGVPCT
SQWNSITHWLLTLCALSEVTKLSPDIIQANSMFSFYGDDEIVSTDIKLDPEQLTAKLK
EYGLKPTRPDKTEGPLIISEDLNGLTFLRRTVTRDPAGWFGKLDQSSILRQMYWTRGP
NHEDPTETMIPHSQRPIQLMALLGEASLHGPSFYSRISKLVITELKEGGMDFYVPRQE
PMFRWMRFSDLSTWEGDRNLAPNFVNEDGVE"
mat_peptide 4..999
/gene="ORF1"
/product="p48"
mat_peptide 1000..2097
/gene="ORF1"
/product="NTPase"
mat_peptide 2098..2628
/gene="ORF1"
/product="p22"
mat_peptide 2629..3027
/gene="ORF1"
/product="VPg"
mat_peptide 3028..3570
/gene="ORF1"
/product="Pro"
mat_peptide 3571..5100
/gene="ORF1"
/product="RdRp"
gene 5084..6706
/gene="ORF2"
CDS 5084..6706
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="WZF77185.1"
/translation="MKMASSDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ
QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
FEVQVILAGNAFTAGKIIFAAVPPNFPTEGLSPSQVTMFPHIIVDVRQLEPVLIPLPD
VRNNFYHYNQSNDSTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFSVPILTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT
QLSPVNICTFRGDVTHITGSHNYTMNLASQNWNNYDPTEEIPAPLGTPDFVGKIQGML
TQTTRTDGSTRGHKATVYTGSADFAPKLGRVQFETDTNHDFEANQNTKFTPVGVIQDG
STTHRNEPQQWVLPSYSGRNTHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD
CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV
IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRAV"
gene 6706..7512
/gene="ORF3"
CDS 6706..7512
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="WZF77186.1"
/translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA
SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQEMMRVKQAMLLEGGFSETDAARGAIN
APMTKALDWSGTRYWAPDARITTYNSGHFSTPQPSGALPGRANLRDAVPARGPSTKSS
NSSAATSVYSNQTTSTRLGSTAGSGTSVSSLPSTARTRSWVEDQNRNLSPFMRGAHNI
SFVTPPSSRSSSQGTVSTVPKEILDSWTGAFNTRRQPLFAHIRKRGESRV"
ORIGIN
1 tgaatgaaga tggcgtctaa cgacgctacc gttgccgttg cttgcaacaa caacaacgac
61 aaggaaaaat cttcaggtga aggcttattc acaaatatgt cttctacctt aaagaaagcc
121 ctcggggcta ggcccaaaca gcctgccccg agagacgtac cacaaaagcc cccaagacca
181 ccaactcccg agttggtcaa gaagataccc cctcctccac ctaatggcga agaagaagaa
241 gaaccagtca ttaggtatga ggttaagagt gggatctctg gcctgcccga gctcacaaca
301 gttccccaac cggacgtggc caacacagca tttagcgttc caccactgag cttgagggaa
361 aacagggagg ccaaggaacc gctaacaggg gcaatactag agatgtggga tggagagata
421 taccattatg gcctgtacgt ggagaaaggc ttagtgttgg gtgtgcacaa accacctgca
481 gccataagca tggcaagagt ggagttgacg ccgctgtcat tgtactggcg tgtggtgtac
541 actccccaat acctcatccc ccctgaaact ctcaggaggc tcaatggaga ggcgtttcct
601 tacaccgctt tcgacaacaa ctgctatgcc ttttgctgct gggtgttaga cctcaatgac
661 tcatggctta gcaggaggat ggtgcaaaga actacgggct tcttcaggcc ttaccaagag
721 tggaatagaa aacccttgcc cactatggat gactccaaaa taaagaaggt agcaaatata
781 ttcctatgtt cattgtccac attattcacc agacccataa aagacctcat aggaaaaatt
841 aaaccactaa acatattgaa catcttggca acgtgtgact ggacgtttgc cggaatagtg
901 gagtctctga tattgcttgc cgagctcttc ggagttttct ggacaccccc agatgtgtct
961 gctatgatcg ctcccttact cggggactac gagttacaag ggccagaaga cctcgccgtt
1021 gaactcgtac ctgtggtaat gggagggatt ggtttggtgc tgggattcac caaagagaaa
1081 atcggcaaaa tgttgtcctc agcagcatca acactcaggg cttgtaaaga tcttggtgcc
1141 tatggcttag agatactcaa attggtcatg aaatggttct tcccaaagaa agaggaggcc
1201 aatgagctgg ccatagtgag ggccatagag gatgccgtgc tagatcttga ggcaatagag
1261 aataaccaca tgacaaccct gttgaaagat aaagacagct tagcaacata tatgaaaaca
1321 ctggacatgg aggaggagaa agccagaagg ttatccacaa aatctgcatc ccctgacata
1381 gttgggacaa tcaacgccct gctggctcga atagcagccg ccaggtcatt agtccacagg
1441 gccaaggaag agctgtctag caggataaga ccagtagttg ttatgatatc tggcaaacca
1501 ggaataggca aaactcatct ggccagggag gtggcaagaa aggtggcatc cactctcaca
1561 ggggaccaaa gagtcggact cataccaaga aacggtgtgg accattggga tgcatataaa
1621 ggtgagagag tcgtgctgtg ggacgactat ggcatgagta accccattca tgatgctctc
1681 cgcatacaag aattggctga tacgtgtccc cttaccttaa attgtgacag aattgaaaat
1741 aagggaaaag tttttgacag tgaagtcata ataattacaa caaaccttgc caacccagcc
1801 ccacttgatt atgtcaactt tgaggcctgt tccaggagaa ttgatttcct ggtgtacgct
1861 gaggcaccag aagtagaaaa ggcaaaacgg gattttcctg gtcagccaga tatgtggaag
1921 gacgccttca agccggactt ttcacacatc aagctacagc ttgcacctca gggcggcttt
1981 gacaagaatg gcaatacccc acatgggaaa ggagtgatga agaccctcac taccggttct
2041 ctgattgccc gtgcatcagg cctactgcat gagaggatgg atgaatttga actccaaggt
2101 cccacaatca ccacttttaa tttcgaccgg aatagaatca cagcattcag acaattggct
2161 gcagaaaaca agtatggact ggtggacacc atgaaagttg gcaatcaact aaaaggagtg
2221 aaaaccatgg aagaactcaa acaagcaatc agaaatgtga ccatcaagag gtgccggatc
2281 atctacggtg gttccacgta tgaccttgaa tctgatggca agggcaaagt tttggtggaa
2341 aaggtcaaga acacctctat acaaaccaac aatgagttga ccggggccct gcaccatctt
2401 aaacatgctc gaatcaggta ctatgtcaaa tgtgtgcaag aaacagtcta ttccatcata
2461 caaattgccg gcgctgcgtt tgtcaccacg cgcattgcac gccgcatgaa catacaagaa
2521 ctctggtcga agccacaatt agatcaaaat gaatcagaga ctaaggaaga ggcccccaag
2581 tcagaagatg acgagttcgt catatcttct aaggatatca aggaggaagg gaagaagggc
2641 aaaaacaaaa ctggccgtgg caagaaacac actgcattct ccagcaaggg cttgagcgat
2701 gaggagtatg acgagtacaa gaggataaga gaagagagaa acgggaagta ctccatagag
2761 gaatatcttc aagacagaga caggtactat gaggagctcg ccattgccaa ggccacggaa
2821 gaagacttct gtgaagagga ggaaatcaaa atccgtcaga gaattttccg tcccaccagg
2881 aaacaaagaa aggaagagag ggccacatta gggctggtaa caggttcaga aatcagaaga
2941 agaaaccctg atgatttcaa acccaaaggg aagctgtggg ccgatgacaa cagaagtgtt
3001 gactacaatg agaaactgga ctttgaggcc cccccaagca tatggtctag aattgtgagc
3061 tttggttctg gctggggctt ctgggtatca ccaagcctgt tcataacatc aacccatgtt
3121 atccctgcag gcatgacaga agcatttgga gtccccatca aacaaattca gattcacaaa
3181 tcaggtgaat tttgccgatt cagattccca aaaccaatta gaccagatgt gacaggaatg
3241 atcttggaag aaggtgcgcc tgagggcacc gtggcaactg tgctcatcaa acgccccacc
3301 ggagagctca tgcctcttgc agccagaatg ggaacacacg caaccatgaa gatccaaggc
3361 cgcatggttg gcggacagat gggtatgttg ctcactggat caaatgctaa aggaatggac
3421 ttgggaacaa ctcctggcga ctgtggctgc ccttacatct ataaaagggg taatgactat
3481 atagtcattg gggtacacac tgcagcagcc cgtggtggaa acaccgtcat ctgtgccaca
3541 cagggaagtg agggtgaggc aactcttgag ggtggagatg acaaaggaac atactgtggg
3601 gcacctatcc tgggccctgg gggtgcacca aagttgagca ccaaaaccaa attttggagg
3661 tcatcgaata cgccccttcc accagggaca tatgagcctg cctacctcgg tggccgtgac
3721 ccgcgtgtta agggtgggcc ctccttgcag caggtaatga gagaccaatt gaagccattc
3781 actgaaccca ggggcaaacc tccaagacca agtgttttgg aagcagccaa acaaaccatt
3841 atcaatgtcc tcgaacaaac cctggatcct ccacaaaaat ggacatacgc gcaggcgtgt
3901 gcctcacttg acaaaaccac ctccagcggg catccacacc acgcccgaaa gaatgagttc
3961 tggaatggtg agaccttcac tggtaaattg gcagaccaag catcaaaagc aaacctaatg
4021 tttgaggaag ggaaacacat gacaccagtg tatacagcag cactcaagga cgagctagtc
4081 aagactgaga aaatctatgg aaagatcaag aagagactgc tctggggctc tgacttgtcc
4141 accatgatcc ggtgcgctag gtcatttggt gggctcatgg acgagatgaa ggcacactgc
4201 atatcactcc cagtacgagt tggcatgaat atgaatgaag atggcccgat aatatttgag
4261 aaacactcca gatataaata tcactatgat gcagattact ctcgctggga ttcaacacaa
4321 cagagggcag tattagcagc agccttggaa atcatggtta gattctctgc agaaccacaa
4381 ttggcacaaa tagtcgctga ggacctactg gcccctagtg tagtagacgt aggagacttt
4441 aaaatcacaa taaatgaagg gctcccatct ggtgtgccat gcacttctca atggaattcc
4501 ataacacact ggctgctaac tctctgtgcc ttgtctgaag taaccaaact gtcccctgat
4561 attatacaag caaattccat gttctcattt tacggtgatg acgagattgt cagcaccgac
4621 ataaaattgg accctgaaca gttgaccgcc aagttgaagg agtatggcct gaaaccaact
4681 cgtccagaca agaccgaggg acccctgatc atcagtgaag atttgaacgg gctcactttc
4741 ctccgaagga cggtgactcg tgacccagct ggctggtttg gaaaactgga ccaaagttca
4801 attttgaggc agatgtactg gactagagga ccaaatcatg aagaccccac tgagacaatg
4861 ataccccatt ctcagagacc catacagctc atggcactgc ttggtgaagc ctctcttcac
4921 ggaccctctt tctacagtag aatcagtaaa ttggtcataa ctgaactcaa agagggtggg
4981 atggactttt acgtgccaag gcaggaaccc atgttcaggt ggatgaggtt ttctgacttg
5041 agcacgtggg agggcgatcg caatctggct cccaattttg tgaatgaaga tggcgtcgag
5101 tgacgccaac ccatctgatg ggtccgcagc caacctcgta ccagaggtca acaatgaggt
5161 tatggctctg gagcccgttg ttggtgccgc tattgcggca cctgtggcgg gccaacaaaa
5221 tgtaattgac ccctggatta gaaacaattt tgtacaagcc cctggtgggg agttcacagt
5281 atcccctaga aatgctccag gtgaaatact atggagcgcg cccctaggcc ctgacctaaa
5341 tccctaccta tcccatttag ccagaatgta caatggttat gcaggtggtt ttgaagtgca
5401 ggtaattctc gcggggaacg cgttcaccgc cgggaagatt atatttgcag cagtcccacc
5461 aaattttcca actgaaggtt taagccctag ccaggtcact atgttccccc acataatagt
5521 agatgttaga caattggaac ctgtgctgat ccccttaccc gatgttagga ataatttcta
5581 ccactacaat cagtcaaatg attccactat taagttgata gcaatgttgt acacaccact
5641 tagggctaat aatgctgggg atgatgtttt cacagtttcg tgccgagttc tcacgagacc
5701 atcccccgat tttgatttca tatttttagt accacccaca gttgagtcaa gaaccaaacc
5761 attctctgtc ccaattttaa ctgttgagga gatgaccaat tcaagattcc ccatcccttt
5821 ggaaaagtta tttacaggcc ccagcagtgc attcgtcgtt caaccacaaa acggcagatg
5881 cacaactgat ggcgtgcttc taggcaccac ccaactttct cctgtcaaca tctgcacctt
5941 cagaggggat gtcactcaca tcacaggtag tcacaactac actatgaatt tggcttctca
6001 aaattggaac aactatgatc caacagaaga aatcccagcc cctctaggga ctccagattt
6061 tgtggggaag attcaaggca tgctcaccca gaccacaagg acagatggtt caacacgcgg
6121 tcacaaagct acagtgtaca ctgggagtgc cgactttgct ccaaaactgg gtagagttca
6181 atttgaaact gacacaaacc atgactttga agccaatcaa aatacaaagt tcaccccagt
6241 cggtgtcatc caagatggta gcaccaccca tcgaaacgaa ccccagcagt gggtgctccc
6301 aagttactca ggcagaaata ctcacaatgt gcatttggcc cccgctgtag cccccacctt
6361 tccgggtgag caacttctct tcttcagatc caccatgccc ggatgcagcg ggtaccccaa
6421 catggatttg gactgtctgc tcccccagga atgggtgcag tacttctacc aagaggcagc
6481 cccagcacaa tctgatgtgg ctctgctgag atttgtgaat ccagacacag gtagggtttt
6541 gtttgagtgc aagcttcaca agtcaggcta tgtcacagtg gctcacactg gccaacatga
6601 tttagttatt ccccccaatg gttactttag gtttgattct tgggtcaacc agttctacac
6661 gcttgccccc atgggaaatg gaacggggcg tagacgtgca gtataatggc tggagctttc
6721 tttgctggat tggcatctga tgtccttggc tctggacttg gttcccttat caatgctggg
6781 gctggggcca tcaaccaaaa ggttgagttt gaaaataaca gaaaattgca acaagcatcc
6841 tttcaattta gcagcaattt gcaacaggct tcctttcaac atgataaaga gatgctccaa
6901 gcacaaattg aggccaccaa aaagctacaa caggaaatga tgagagttaa gcaggcaatg
6961 ctcctagagg gtgggttctc tgagacagat gcagcccgcg gggcaattaa cgcccccatg
7021 acaaaggctt tggactggag cgggacaagg tactgggccc cagatgctag gattacaaca
7081 tacaattcag gccacttttc cacccctcaa ccatcggggg cactgccagg aagagccaat
7141 cttagggatg ctgtccctgc tcggggaccc tccaccaaat cttctaactc ttctgctgct
7201 acttctgtgt actcaaatca aactacttca acgagacttg gttctacagc tggttctgga
7261 accagtgtct caagcctccc gtcgactgca aggactagga gctgggttga ggatcaaaat
7321 aggaatttgt cacctttcat gaggggggcc cacaacatat catttgtcac cccaccatct
7381 agcagatcct ctagccaagg cacagtctca accgtgccta aagaaatttt ggactcctgg
7441 actggcgctt tcaacacgcg caggcagcct ctcttcgctc acattcgtaa gcgaggggag
7501 tcacgggtgt aatgtgaaaa gacaaaatag attatctttc ttcttctttt ctttagtgtc
7561 ttttaa
//