Typing tool
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Typing tool
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Complete norovirus genomes
| PP658557 | GII.4 Sydney | |
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| GII.P16 |
ORF1: 4..5103
ORF2: 5084..6706
ORF3: 6706..7512
LOCUS PP658557 7514 bp RNA linear VRL 01-JUN-2024
DEFINITION Norovirus GII isolate PBH23329-STN nonstructural polyprotein
(ORF1), VP1 (ORF2), and VP2 (ORF3) genes, complete cds.
ACCESSION PP658557
VERSION PP658557.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norovirus norwalkense.
REFERENCE 1 (bases 1 to 7514)
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..7514
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="PBH23329-STN"
/isolation_source="stool"
/host="Homo sapiens"
/db_xref="taxon:122929"
/geo_loc_name="Thailand"
/collection_date="2023-05-09"
/note="genotype: GII"
gene 4..5103
/gene="ORF1"
CDS 4..5103
/gene="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="WZF77172.1"
/translation="MKMASNDATVAVACNNNNDKEKSSSEGLFTNMSSTLKKALGARP
KQPAPRDKPQKHPRPPTPELVKRIPPPPPNGEEEEEPVIRYEVKSGISGLPELTTVPQ
PDVANTAFSVPPLSLRENREAKEPLTGAILEMWDGEIYHYGLYVEKGLVLGVHKPPAA
ISMARVELAPLSLYWRVVYTPQYLISPETLRRLNGEAFPYTAFDNNCYAFCCWVLDLN
DSWLSRRMVQRTTGFFRPYQEWNRKPLPTMDDSKIKKVANIFLCSLSTLFTRPIKDLI
GKIKPLNILNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGP
EDLAVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWF
FPKKEEANELAMVRAIEDAVLDLEAIENNHMTTLLKDKDSLATYMKTLDMEEEKARRL
STKSASPDIVGTINALLARIAAARSLVHRAKEELSSRIRPVVVMISGKPGIGKTHLAR
EVARKVASTLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRIQELAD
TCPLTLNCDRIENKGKVFDSEVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEV
EKAKRDFPGQPDMWKDAFKPDFSHIKLQLAPQGGFDKNGNTPHGKGVMKTLTTGSLIA
RASGLLHERMDEFELQGPTITTFNFDRNRIAAFRQLAAENKYGLMDTMKVGNQLKGVK
TMEELKQAIRNVTIKRCRIIYGGSTYDLESDGKGKVLVEKVKNTSVQTNNELAGALHH
LKHARIRYYVKCVQEAVYSIIQIAGAAFVTTRIARRMNIQELWSKPQLGQSETETKEE
ALKSEDDEFVISSKDIKEEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNG
KYSIEEYLQDRDRYYEELAIAKATEEDFCEEEEIKIRQRIFRPTRKQRKEERATLGLV
TGSEIRKRNPDDFKPKGKLWADDNRSVDYNEKLDFEAPPSIWSRIVSFGSGWGFWVSP
SLFITSTHVIPAGITEAFGVSIKQIQIHKSGEFCRFRFPKPIRPDVTGMILEEGAPEG
TVATVLIKRPTGELMPLAARMGTHATMKIQGRMVGGQMGMLLTGSNAKGMDLGTTPGD
CGCPYIYKRGNDYIVIGVHTAAARGGNTVICATQGSEGEATLEGGDDKGTYCGAPILG
PGGAPKLSTKTKFWRSSNTPLPPGTYEPAYLGGRDPRVKGGPSLQQVMRDQLKPFTEP
RGKPPRPSVLEAAKQTIINVLEQTLDPPQKWSYAQACASLDKTTSSGNPHHVRKNEFW
NGETFTGKLADQASKANLMFEEGKHMTPVYTAALKDELVKTEKIYGKIKKRLLWGSDL
STMVRCARSFGGLMDEMKAHCISLPVRVGMNMNEDGPIIFEKHSRYKYHYDADYSRWD
STQQRAVLAAALEIMVRFSAEPQLAQIVAEDLLAPSVVDVGDFKITINEGLPSGVPCT
SQWNSIAHWLLTLCALSEVTKLSPDIIQANSMFSFYGDDEIVSTDIKLDPEQLTAKLK
EYGLKPTRPDKTEGPLIISEDLDGLTFLRRTVTRDPAGWFGKLDQSSILRQMYWTRGP
NHEDPNETIIPHSQRPIQLMALLGEASLHGPSFYSKISKLVITELKEGGMDFYVPRQE
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="WZF77173.1"
/translation="MKMASSDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ
QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
FEVQVILAGNAFTAGKIIFAAVPPNFPTEGLSPSQVTMFPHIIVDVRQLEPVLIPLPD
VRNNFYHYNQSNDSTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT
QLSPVNICTFRGDVTHITGSHNFTMNLASQNWNNYDPTEEIPAPLGTPDFVGKIQGML
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="WZF77174.1"
/translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA
SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQEMMRVKQAMLLEGGFSETDAARGAIN
APMTKALDWSGTRYWAPDARITTYNAGHFSTPQPSGALPGRANFRDAVPARGPSTRPS
NSSTATSVYSNQTISTRLGSTAGSGTSVSSLPSTARTRSWVEDQNRNLSPFMRGAHNI
SFVTPPSSRSSSQGTVSTVPKEILDSWTGAFNTRRQPLFAHIRKRGESRV"
ORIGIN
1 tgaatgaaga tggcgtctaa cgacgctacc gttgccgttg cttgcaacaa caacaacgac
61 aaggaaaaat cttcaagtga aggcttattc acaaatatgt cttccacctt aaagaaagcc
121 ctcggggcta ggcccaaaca gcctgccccg agagacaaac cacaaaagca cccaagacca
181 ccaactcctg agttggtcaa gaggataccc cctcctccac ctaatggcga agaagaagaa
241 gaaccagtca ttaggtatga ggttaagagt ggaatctctg gcctgcccga gctcacaaca
301 gtcccccaac cggacgtggc caacacagca ttcagtgttc caccactgag cttgagagaa
361 aacagggagg ccaaggaacc gctaacaggg gcaatattag agatgtggga tggagagata
421 tatcactatg gcctatacgt ggagaaaggc ctagtgttgg gtgtgcacaa accacctgca
481 gccataagca tggcaagagt ggaactggcg ccgctgtcat tatactggcg tgtagtgtac
541 actccccaat acctcatctc ccctgaaact cttaggaggc tcaacggaga ggctttccct
601 tacaccgctt ttgacaacaa ctgctatgcc ttttgttgct gggtgctaga cctcaacgac
661 tcatggctta gcaggagaat ggtgcagaga acaacgggct tcttcagacc ttaccaagag
721 tggaacagaa aacccctacc taccatggat gactccaaaa ttaagaaggt ggcaaatata
781 ttcctatgtt cattgtccac attattcacc agacccataa aagatctcat aggaaaaatt
841 aaaccattaa acatattgaa cattctggca acgtgtgact ggacgtttgc cgggatagtg
901 gagtctctaa tattacttgc tgaactcttc ggagttttct ggacaccccc agatgtgtct
961 gctatgatcg ctcccttgct cggggactac gagttgcagg ggccagagga cctcgccgtt
1021 gagctcgtgc ctgtggtaat gggagggatt ggtttggtgt tgggattcac caaagagaaa
1081 attggcaaaa tgttgtcttc agcagcatca acactcaggg cttgcaaaga tcttggtgcc
1141 tatggcttag agatactaaa attggtcatg aagtggttct tcccaaagaa agaggaggcc
1201 aatgagctag ccatggtgag ggccatagag gatgctgtac tagatcttga ggcaatagaa
1261 aataaccaca tgacaaccct gttgaaagac aaagacagct tagcaacata catgaagaca
1321 ctagacatgg aggaggagaa agccagaagg ttgtccacaa aatctgcatc ccctgacata
1381 gttgggacaa tcaacgccct actggctcga atagcagcgg ccaggtcatt agtccacagg
1441 gccaaggaag agctatctag caggataaga ccagtagttg ttatgatatc tggcaaacca
1501 ggaataggaa aaactcatct ggccagggag gtggcaagaa aggtggcttc cactctcaca
1561 ggggaccaga gagtcggact cataccaaga aacggtgtgg accattggga tgcatacaaa
1621 ggcgagagag tcgtgctgtg ggacgactat ggcatgagta accccatcca tgatgctctt
1681 cgcatacaag aattggctga tacgtgtccc ctcaccttga attgtgacag aattgaaaac
1741 aaaggaaaag tttttgacag tgaagtcata ataattacaa caaaccttgc caacccagcc
1801 ccacttgatt atgtcaactt tgaggcttgt tccaggagaa ttgacttcct ggtgtacgct
1861 gaggcaccag aagtagagaa ggcaaagcgg gacttccccg gtcagccaga tatgtggaag
1921 gacgccttca agccggactt ttcacacatc aagctgcaac ttgcacctca gggcggcttt
1981 gacaagaatg gcaacacccc acatgggaaa ggagtgatga agaccctcac taccggctct
2041 ctgatcgctc gtgcatcagg cctactgcat gagaggatgg atgaatttga actccaaggc
2101 cccacaatca ccaccttcaa tttcgaccgg aacagaatcg cagcattcag acaactggct
2161 gcagaaaaca agtatggatt aatggacacc atgaaagttg gcaatcaatt aaaaggagtg
2221 aaaaccatgg aagaactcaa acaagcaatt aggaatgtga ccatcaagag gtgccggatc
2281 atttacggtg gctctacata tgaccttgaa tctgacggca agggcaaagt tttggtggaa
2341 aaggtcaaga acacctctgt acagaccaac aacgagttgg ccggggcctt gcaccatctc
2401 aaacacgccc gaatcagata ctatgtcaaa tgcgtgcaag aagcagtcta ttccatcata
2461 caaattgccg gcgctgcgtt tgtcaccacg cgtattgcac gccgcatgaa catacaagaa
2521 ctctggtcga agccacaatt aggtcaaagt gaaacagaga ctaaggaaga ggccctcaag
2581 tcagaagacg acgagttcgt catatcttct aaggacatca aggaggaagg aaagaagggc
2641 aaaaataaaa ctggccgtgg caagaaacac actgcattct ccagtaaggg cttgagtgat
2701 gaggagtatg acgagtataa gaggataaga gaagagagaa atgggaagta ctctatagag
2761 gagtatcttc aagacagaga caggtactat gaggagctcg ccatcgccaa ggccacggaa
2821 gaagacttct gtgaagagga ggagatcaaa atccgtcaga gaattttccg tcccaccagg
2881 aaacaaagaa aggaagagag ggccacatta gggctagtaa cgggttcaga aatcagaaag
2941 agaaaccctg atgacttcaa acccaaaggg aagctgtggg ccgatgacaa cagaagtgtt
3001 gactacaatg aaaaactgga ctttgaggcc cccccaagca tatggtctag gatcgtgagc
3061 tttggttctg gctggggctt ctgggtgtca ccaagcctgt ttataacatc aactcatgtg
3121 atccccgcag gcataacaga agcatttgga gtctccatca aacaaattca gatccacaaa
3181 tcaggtgaat tttgccggtt tagattccca aaaccaatta gaccagatgt tacaggaatg
3241 atcttggaag aaggtgcgcc tgagggtacc gtggcaactg tgctcatcaa acgccccacc
3301 ggagagctca tgcctcttgc agccagaatg ggaacacacg caaccatgaa aattcaaggc
3361 cgcatggttg gcgggcagat gggtatgttg ctcactggat caaatgctaa aggaatggat
3421 ttggggacaa cccctggtga ctgtggctgc ccctacatct acaaaagagg caacgactat
3481 atagtcattg gggtgcacac tgcagcagcc cgtggtggaa acaccgtcat ctgtgccaca
3541 cagggaagtg agggtgaggc aactcttgag ggtggagatg acaaaggaac atactgtggg
3601 gcacccattc tgggccctgg gggcgcacca aaattgagca ccaaaaccaa attttggagg
3661 tcatcgaaca cgccccttcc accagggacg tatgagcctg cctacctcgg cggccgtgat
3721 ccacgtgtca agggcgggcc ctccttgcag caggtaatga gagatcagtt gaagccattc
3781 actgaaccca ggggcaaacc tccaagacca agtgtgttag aagcagccaa acaaaccatc
3841 atcaatgtcc tcgaacaaac cctggatcct ccacaaaaat ggtcatacgc acaggcgtgt
3901 gcctcacttg acaaaaccac ctccagcggg aacccccatc acgtccgaaa gaatgaattc
3961 tggaatggtg agacctttac tggaaaattg gcagaccaag catcaaaagc aaatctaatg
4021 tttgaggaag ggaaacatat gacaccagta tacacagcag cactcaagga tgagctagtt
4081 aagactgaga aaatctatgg aaagatcaag aagaggctgc tctggggctc tgacttgtcc
4141 accatggtcc ggtgtgctag gtcatttggt ggactcatgg acgagatgaa ggcacactgc
4201 atatcactcc cagtccgagt tggcatgaat atgaatgaag atggcccaat aatatttgag
4261 aaacattcca gatataagta ccactatgat gcagactact ctcgttggga ttcaacacaa
4321 cagagggcag tactggcagc agccttggaa atcatggtca gattctctgc agaaccacaa
4381 ctggcacaaa tagtcgctga ggacctgctg gcccctagtg tagtagatgt aggagacttc
4441 aaaattacaa taaatgaagg gctcccctct ggtgttccat gcacttctca atggaactcc
4501 attgcacact ggctactaac tctctgtgcc ttgtctgaag tcaccaaact gtcccctgac
4561 attatacagg caaattccat gttctcattt tacggtgatg acgagattgt cagcaccgac
4621 ataaaattag accctgaaca gttaaccgcc aaattgaagg agtacggcct gaaaccgacc
4681 cgcccagaca aaaccgaggg acccctgatc atcagtgaag atttggacgg actcactttc
4741 ctccgaagga cggtgactcg tgacccagct ggctggtttg gtaaactgga ccagagctcc
4801 attttgaggc agatgtactg gactagaggg ccaaatcatg aagaccccaa tgagacaata
4861 ataccccatt ctcagagacc catacagctc atggcactgc ttggtgaagc ctctcttcac
4921 ggaccctctt tctatagtaa aatcagcaaa ctggtcataa ctgaactcaa ggaaggtggg
4981 atggactttt acgtgccaag acaggaaccc atgttcaggt ggatgaggtt ttctgacttg
5041 agcacgtggg agggcgatcg caatctggct cccaattttg tgaatgaaga tggcgtcgag
5101 tgacgccaac ccatctgatg ggtccgcagc caacctcgta ccagaggtca acaatgaggt
5161 tatggctttg gagcccgttg ttggtgccgc tattgcggca cctgtagcgg gccaacaaaa
5221 tgtaattgac ccctggatta gaaataattt tgtacaagcc cctggtgggg agtttacagt
5281 atcccctaga aatgctccag gtgaaatact atggagcgcg cccctaggcc ctgacctaaa
5341 tccctaccta tcccatttgg ccaggatgta caatggttat gcaggtggct ttgaagtgca
5401 ggtaattctc gcggggaacg cgtttaccgc tgggaagatt atatttgcag cagtcccacc
5461 aaattttcca actgaaggct taagccctag ccaggtcact atgttccccc atataatagt
5521 agatgttaga caattggaac ctgtgctgat ccccttaccc gatgttagga ataacttcta
5581 tcattacaat cagtcaaatg actccactat taagttgata gcaatgttgt acacaccact
5641 tagggctaat aatgctggag atgatgtttt cacagtctcg tgccgagttc tcacgagacc
5701 atcccccgat tttgatttca tattcttagt accacccaca gttgagtcaa gaactaaacc
5761 attctccgtc ccagttttaa ctgttgagga gatgaccaat tcaagattcc ccatcccttt
5821 ggaaaagttg ttcacaggcc ccagcagtgc atttgttgtt caaccacaaa acggcagatg
5881 cacaactgat ggcgtgctcc tgggcaccac ccaactctct cctgtcaaca tctgcacctt
5941 cagaggggat gtcacccaca tcacaggtag tcacaacttc actatgaatt tggcttctca
6001 aaattggaac aactacgacc caacagaaga aatcccagct cccctaggaa ctccagattt
6061 cgtggggaag attcaaggca tgctcaccca aaccacaagg acagatggtt caacacgcgg
6121 ccacaaagct acagtgtaca ctgggagcgc cgactttgct ccaaaactgg gtagggttca
6181 atttgaaact gacacaaacc atgattttga agccaatcaa aacacaaagt tcaccccagt
6241 cggtgttatc caagatggta gcaccaccca ccgaaacgaa ccccaacagt gggtgcttcc
6301 aagttactca ggcagaaaca ctcacaatgt acatttggcc cccgctgtgg cccccacctt
6361 tccgggtgag caacttctct tctttagatc taccatgccc ggatgtagcg ggtaccccaa
6421 catggatttg gactgtctgc tcccccagga atgggtgcag tatttctacc aagaggcagc
6481 cccagcacaa tctgatgtgg ctctgctaag atttgtgaac ccagacacag gtagggtttt
6541 gtttgagtgc aagcttcaca aatcaggcta tgttacagtg gctcacactg gccaacatga
6601 tctggttatc ccccccaatg gttactttag gtttgattcc tgggtcaacc agttctacac
6661 gcttgccccc atgggaaatg gaacggggcg tagacgtgca gtataatggc tggagctttc
6721 tttgctggat tggcgtctga tgtccttggc tctggacttg gttcccttat caatgctggg
6781 gctggggcca tcaaccaaaa agttgagttt gaaaataaca gaaaattgca acaagcatcc
6841 ttccaattta gcagcaattt gcaacaggct tcctttcaac atgataaaga gatgctccaa
6901 gcacaaattg aggccaccaa aaagctacaa caggaaatga tgagagttaa gcaggcaatg
6961 ctcctagagg gtgggttctc tgagacagat gcggcccgcg gggcaattaa cgcccccatg
7021 acaaaggctt tggactggag cgggacaagg tactgggctc cagatgctag aattacaaca
7081 tacaatgcag gccacttttc cacccctcaa ccatcggggg cactgccagg aagagctaat
7141 tttagggatg ctgtccctgc tcggggaccc tccaccagac cttctaactc ttctactgcc
7201 acctctgtgt attcaaatca aactatttca acgagacttg gttctacagc tggttctgga
7261 accagtgtct cgagcctccc gtcaactgca aggactagga gctgggttga ggatcaaaat
7321 aggaatttgt ctcctttcat gaggggggcc cacaacatat catttgtcac cccaccatct
7381 agcagatcct ctagccaagg cacagtctca accgtgccta aagaaatttt ggactcctgg
7441 actggcgctt tcaacacgcg caggcagcct ctcttcgctc acattcgtaa gcgaggggag
7501 tcacgggtgt aatg
//