Typing tool
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Typing tool
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Complete norovirus genomes
| PQ196549 | GII.4 Sydney | |
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| GII.P16 |
ORF1: 5..5104
ORF2: 5085..6707
ORF3: 6707..7513
LOCUS PQ196549 7528 bp RNA linear VRL 27-MAR-2025
DEFINITION Norovirus GII isolate Hu/GII.4 Sydney[P16]/Pima0192/2023/USA
nonstructural polyprotein (ORF1), VP1 (ORF2), and VP2 (ORF3) genes,
complete cds.
ACCESSION PQ196549
VERSION PQ196549.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norovirus norwalkense.
REFERENCE 1 (bases 1 to 7528)
AUTHORS Barclay,L., Montmayeur,A.M., Cannon,J.L., Mallory,M.L., Reyes,Y.I.,
Wall,H., Baric,R.S., Lindesmith,L.C., Vinje,J. and Chhabra,P.
TITLE Molecular Evolution and Epidemiology of Norovirus GII.4 Viruses in
the United States
JOURNAL J Infect Dis (2025) In press
PUBMED 40036172
REMARK Publication Status: Available-Online prior to print
REFERENCE 2 (bases 1 to 7528)
AUTHORS Pan,C.Y., Barclay,L., Montmayeur,A.M., Vinje,J. and Chhabra,P.
TITLE Direct Submission
JOURNAL Submitted (16-AUG-2024) Viral Gastroenteritis Branch, Centers for
Disease Control and Prevention, 1600 Clifton Road NE, Atlanta, GA
30329, USA
COMMENT ##Assembly-Data-START##
Assembly Method :: Geneious v. v. 11.1.2; SPAdes v. v. 3.6
Sequencing Technology :: Sanger dideoxy sequencing; Illumina
##Assembly-Data-END##
FEATURES Location/Qualifiers
source 1..7528
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="Hu/GII.4 Sydney[P16]/Pima0192/2023/USA"
/isolation_source="stool"
/host="Homo sapiens"
/db_xref="taxon:122929"
/geo_loc_name="USA"
/collection_date="23-Apr-2023"
/note="genotype: GII.4 Sydney[P16]"
gene 5..5104
/gene="ORF1"
CDS 5..5104
/gene="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="XEJ39675.1"
/translation="MKMASNDASAAVACNNNNDKEKSSGEGLFTNMSSTLKKALGARP
KQPAPRGEPQKPPRPPTPELVKRIPPPPPNGEEEDEPVIRYEVKSGISGLPELTTVPQ
PDVANTAFSVPPLSMRENREAKEPLTGAILEMWDGEIYHYGLYVEKGLVLGVHKPPAA
ISMARVELAPLSLYWRVVYTPQYLISPETLRRLNGEAFPYTAFDNNCYAFCCWVLDLN
DSWLSRRMVQRTTGFFRPYQEWNRKPLPTMDDSKIKKVANIFLCSLSTLFTRPIKDLI
GKIKPLNILNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGP
EDLAVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWF
FPKKEEANELAMVRAIEDAVLDLEAIENNHMTTLLKDKDSLATYMKTLDMEEEKARRL
STKSASPDIVGTINALLARIAAARSLVHRAKEELSSRIRPVVVMISGKPGIGKTHLAR
EVARKVASTLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRIQELAD
TCPLTLNCDRIENKGKVFDSEVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEV
EKAKRDFPGQPDMWKDAFKPDFSHIKLQLAPQGGFDKNGNTPHGKGVMKTLTTGSLIA
RASGLLHERMDEFELQGSTITTFNFDRNRITAFRQLAAENKYGLVDTMKVGNQLKGVK
TMEELKQAIRNVTIKRCRIIYGGSTYDLESDGKGKVLVEKVKNTSIQTNNELTGALHH
LKHARIRYYVKCVQEAVYSIIQIAGAAFVTTRIARRMNIQELWSKPQLDQNESETKEE
APKSEDDEFIISSKDIKEEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNG
KYSIEEYLQDRDRYYEELAIAKATEEDFCEEEEIKIRQRIFRPTRKQRKEERATLGLV
TGSEIRRRNPDDFKPKGKLWADDNRSVDYNEKLDFEAPPSIWSRIVSFGSGWGFWVSP
SLFITSTHVIPAGITEAFGVPIKQIQIHKSGEFCRFRFPKPIRPDVTGMILEEGAPEG
TVATVLIKRPTGELMPLAARMGTHATMKIQGRMVGGQMGMLLTGSNAKGMDLGTTPGD
CGCPYIYKRGNDYIVIGVHTAAARGGNTVICATQGSEGEATLEGGDDKGTYCGAPILG
PGGAPKLSTKTKFWRSSNTPLPPGTYEPAYLGGRDPRVKGGPSLQQVMRDQLKPFTEP
RGKPPRPSVLEAAKQTIINVLEQTLDPPQKWTYAQACASLDKTTSSGHPHHVRKNEFW
NGETFTGKLADQASKANLMFEEGKHMTPVYTAALKDELVKTEKIYGKIKKRLLWGSDL
STMIRCARSFGGLMDEMKAHCISLPVRVGMNMNEDGPIIFEKHSRYKYHYDADYSRWD
STQQRAVLAAALEIMVRFSAEPQLAQIVAEDLLAPSVVDVGDFKIAINEGLPSGVPCT
SQWNSIAHWLLTLCALSEVTKLSPDIIQANSMFSFYGDDEIVSTDIKLDPEQLTAKLK
EYGLKPTRPDKTEGPLIISEDLDGLTFLRRTVTRDPAGWFGKLDQSSILRQMYWTRGP
NHEDPNETMIPHSQRPIQLMALLGEASLHGPSFYSRISKLVITELKEGGMDFYVPRQE
PMFRWMRFSDLSTWEGDRNLAPNFVNEDGVE"
mat_peptide 5..1000
/gene="ORF1"
/product="p48"
mat_peptide 1001..2098
/gene="ORF1"
/product="NTPase"
mat_peptide 2099..2629
/gene="ORF1"
/product="p22"
mat_peptide 2630..3028
/gene="ORF1"
/product="VPg"
mat_peptide 3029..3571
/gene="ORF1"
/product="Pro"
mat_peptide 3572..5101
/gene="ORF1"
/product="RdRp"
gene 5085..6707
/gene="ORF2"
CDS 5085..6707
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="XEJ39676.1"
/translation="MKMASNDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ
QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
FEVQVILAGNAFTAGKIIFAAVPPNFPTEGLSPSQVTMFPHIIVDVRQLEPVLIPLPD
VRNNFYHYNQSNDSTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFSVPILTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT
QLSPVNICTFRGDVTHITGSHNFTMNLASQNWNNYDPTEEIPAPLGTPDFVGKIQGML
TQTTRTDGSTRGHKATVYTGSADFAPKLGRVQFETDTNHDFEANQNTKFTPVGVIQDG
STTHRNEPQQWVLPSYSGRNTHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD
CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV
IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRAV"
gene 6707..7513
/gene="ORF3"
CDS 6707..7513
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="XEJ39677.1"
/translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA
SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQEMMRVKQAMLLEGGFSETDAARGAIN
APMTKALDWSGTRYWAPDARVTTYNAGHFSTPQPSGALPGRASLRDAVPARGPSTKPS
NSPTATSVHSNHTDSTRLGSTAGSGTSVSSLPSTARTRSWVEDQNRNLSPFMKGAYNI
SFVTPPSSRSSSQGTVSTVPKEILDSWTGAFNTRRQPLFAHIRKRGESRV"
ORIGIN
1 gtgaatgaag atggcgtcta acgacgcttc cgctgccgtt gcttgcaaca acaacaacga
61 caaggaaaaa tcttcaggtg aaggcttatt cacaaatatg tcttccacct taaagaaagc
121 cctcggggct aggcccaaac agcctgcccc gagaggtgaa ccacaaaagc ccccaagacc
181 accaactccc gagttggtca agaggatacc ccctcctcca cctaatggcg aagaagaaga
241 cgaaccagtc attaggtatg aggttaagag tgggatctct ggcctgcccg agctcacaac
301 agtcccccaa ccggacgtgg ccaacacagc atttagtgtt ccaccactga gcatgagaga
361 aaacagggag gccaaagaac cgctgacagg ggcaatacta gagatgtggg atggagagat
421 ataccactat ggcctgtacg tggagaaagg cttagtgttg ggtgtgcaca aaccacctgc
481 agccataagc atggcaagag tggagctggc gccgctgtca ttgtactggc gtgtggtgta
541 cactccccaa tacctcatct cccctgagac tctcaggagg ctcaacggtg aggcgtttcc
601 ttacaccgct tttgacaaca actgctacgc tttttgctgc tgggtgttag acctcaatga
661 ctcatggctt agcaggagga tggtgcaacg aaccacgggc ttcttcaggc cttaccaaga
721 gtggaacaga aaacccttac ccaccatgga tgactccaaa ataaagaagg tagcaaatat
781 attcctgtgc tcattgtcca cattattcac caggcccata aaagacctca taggaaaaat
841 taaaccatta aacatattga acatcctggc aacgtgtgac tggacgtttg ccggaatagt
901 ggagtctctg atattgcttg ccgaactctt cggagttttc tggacacccc cagatgtgtc
961 tgctatgatt gctcccttac ttggggacta cgagttgcag gggccagaag acctcgccgt
1021 tgaactcgta cctgtggtaa tgggagggat tggtttggtg ttgggattca ccaaagagaa
1081 aattggcaaa atgttgtcct cagcagcatc aacactcaga gcttgtaaag atcttggtgc
1141 ctatggctta gagatactca aattggtcat gaagtggttt ttcccaaaga aagaagaggc
1201 caatgagtta gctatggtga gggccataga ggatgccgta ctagatcttg aggcaataga
1261 aaacaaccac atgacaaccc tgttgaaaga caaagacagc ttagcaacat acatgaaaac
1321 actggacatg gaggaggaga aagccagaag gttgtccaca aaatctgcat cccctgacat
1381 agttgggaca atcaacgccc tgctggctcg aatagcagca gccaggtcat tagtccacag
1441 ggccaaggaa gaactgtcta gcaggataag gccagtagtt gttatgatat ctggcaaacc
1501 aggaataggc aaaactcatc tagccagaga ggtggcaaga aaggtggcat ccactctcac
1561 aggggaccaa agagtcggac tcataccaag aaacggtgtg gaccactggg atgcatacaa
1621 aggtgagaga gtcgtgctgt gggacgacta tggcatgagt aaccccattc atgatgctct
1681 ccgcatacaa gaattggctg atacgtgtcc ccttacctta aattgcgaca gaattgaaaa
1741 taaggggaaa gtttttgaca gtgaagtcat aataattaca acaaacctcg ccaacccagc
1801 cccacttgat tatgtcaact ttgaggcctg ctccaggaga attgatttcc tggtgtacgc
1861 tgaggcacca gaagtagaaa aggcaaaacg ggattttcct ggtcagccag atatgtggaa
1921 ggacgccttc aagccggact tttcgcacat caagctacag cttgcacctc agggcggctt
1981 tgacaagaat ggcaacaccc ctcatgggaa aggagtgatg aagaccctca ctaccggttc
2041 tctgattgcc cgtgcatcag gcctactgca tgagaggatg gatgaatttg aactccaagg
2101 ttccacaatc accactttca atttcgaccg gaacagaatc acagcattca gacaattggc
2161 tgcagaaaac aagtatggac tggtggacac catgaaagtt ggcaatcaac taaaaggagt
2221 gaaaaccatg gaagaactca aacaagcaat caggaatgtg accatcaaga ggtgccggat
2281 aatctacggt ggctccacgt atgaccttga gtctgatggc aagggcaaag ttttggtgga
2341 aaaggtcaag aacacctcta tacagaccaa caacgagttg accggggccc tgcatcatct
2401 caagcatgcc cgaatcaggt actatgtcaa atgtgtgcaa gaggcagtct attccatcat
2461 acaaattgcc ggcgctgcgt ttgtcaccac gcgcattgca cgccgcatga acatacaaga
2521 gctctggtcg aagccacaat tagaccaaaa tgaatcagag actaaggaag aggcccccaa
2581 gtcagaagat gacgagttca tcatatcttc taaggatatc aaggaggaag gaaagaaggg
2641 caaaaacaaa actggccgtg gcaagaaaca caccgcattc tccagcaagg gcttaagcga
2701 tgaggagtat gacgagtaca agaggataag agaagagaga aatgggaagt actccataga
2761 agagtatctt caagacagag acaggtatta tgaggagctc gccattgcca aggccacgga
2821 agaagacttc tgtgaagagg aggagatcaa aatccgtcag aggatttttc gtcccaccag
2881 gaaacaaaga aaggaagaga gggccacact agggctggta actggctcag aaatcagaag
2941 aagaaaccct gatgatttca aacccaaagg gaagctgtgg gccgatgaca acagaagtgt
3001 tgactacaat gagaaactgg attttgaggc tcccccaagc atatggtcta ggattgtgag
3061 ctttggttct ggctggggct tctgggtatc accaagcctg ttcataacgt caactcatgt
3121 gatccctgca ggcataacag aagcatttgg agtccccatc aaacaaatcc agatccacaa
3181 atcaggtgaa ttttgccgat tcagattccc aaaaccaatc agaccagatg tgacaggaat
3241 gatcttggaa gaaggtgcgc ctgaaggcac cgtggcaact gtgctcatca aacgccccac
3301 cggagagctc atgcctcttg cagccagaat gggaacacac gcaaccatga agattcaagg
3361 ccgcatggtt ggtggacaga tgggtatgct gctcactggg tcaaatgcta aagggatgga
3421 tttgggaaca actcctggtg actgtggctg cccttacatc tataaaaggg gcaatgacta
3481 tatagtcatt ggggtgcaca ccgcagcagc ccgtggtgga aacaccgtca tctgtgccac
3541 acagggaagt gagggtgagg caactcttga gggtggagat gacaaaggaa catactgtgg
3601 ggcacccatt ctaggccctg gaggtgcacc aaaattgagc actaaaacca agttttggag
3661 gtcatcgaac acgccccttc caccggggac gtacgaacct gcctacctcg gtggccgtga
3721 cccgcgtgtt aagggtgggc cctccttaca acaggtaatg agagatcagt tgaagccatt
3781 cactgaaccc aggggcaaac ctccaagacc aagtgttttg gaagcagcca agcaaaccat
3841 tatcaatgtc cttgaacaaa ccctggatcc tccacaaaag tggacatacg cacaggcgtg
3901 tgcctcactt gacaaaacca cctccagcgg gcatccccac catgtccgaa agaatgaatt
3961 ctggaatggt gagaccttca ctggtaaatt ggcagaccaa gcatcaaaag caaacctaat
4021 gtttgaggaa gggaaacaca tgacaccagt gtacacagca gcactcaagg acgagctagt
4081 caagactgag aaaatctatg gaaagatcaa gaagagactg ctctggggct ctgacttgtc
4141 caccatgatc cggtgcgcta ggtcatttgg tgggctcatg gacgagatga aggcacactg
4201 tatatcactc ccagtgcgag ttggcatgaa tatgaatgaa gatggcccaa taatatttga
4261 gaaacattct aggtacaaat atcactatga tgcagactac tctcgttggg attcaacaca
4321 gcaaagggca gtattagcag cagccttgga aattatggtc agattctctg cagaaccaca
4381 attggcacaa atagtcgctg aggatctact ggcccctagt gtagtagatg taggagactt
4441 taaaattgca ataaatgaag ggctcccatc tggcgtgcca tgcacttctc aatggaactc
4501 cattgcacac tggctgctaa ctctctgtgc cttgtctgaa gtcaccaaac tgtcccctga
4561 cattatacaa gcaaattcca tgttctcatt ttacggtgat gacgagattg tcagcaccga
4621 cataaaatta gaccctgagc agttgaccgc caagttgaag gagtacggcc tgaaaccaac
4681 ccgcccagac aagactgagg gacctctgat catcagtgaa gatttggacg gactcacttt
4741 cctccgaagg acggtgactc gtgacccagc tggctggttt ggaaaactgg accaaagttc
4801 aattttgagg cagatgtatt ggactagagg accaaatcat gaagacccca atgagacaat
4861 gataccccat tcccagaggc ccatacagct catggcactg cttggtgaag cctctcttca
4921 cggaccctct ttctatagta gaatcagtaa attggttata actgaactca aagaaggtgg
4981 gatggacttt tacgtgccaa ggcaggaacc catgttcagg tggatgaggt tctctgactt
5041 gagcacgtgg gagggcgatc gcaatctggc tcccaacttt gtgaatgaag atggcgtcga
5101 atgacgccaa cccatctgat gggtccgcag ccaacctcgt accagaggtc aacaatgagg
5161 ttatggcttt ggagcccgtt gttggtgccg ctattgcggc acccgtagcg ggccaacaaa
5221 atgtaattga cccctggatt agaaataatt ttgtacaagc ccctggtggg gagttcacag
5281 tatcccctag aaatgctcca ggtgaaatac tgtggagcgc acccttaggc cctgacctaa
5341 atccctacct atcccatttg gccagaatgt acaatggtta tgcaggtggt ttcgaagtgc
5401 aggtaattct cgcggggaac gcgttcaccg cagggaagat tatatttgca gcagtcccac
5461 caaattttcc aactgaaggc ttaagcccta gccaggttac catgtttccc catataatag
5521 tagatgttag acaattggaa cctgtgctga tccccttacc cgatgttagg aataacttct
5581 atcattacaa tcagtcaaat gactccacta tcaagttgat agcaatgttg tacacaccac
5641 ttagggctaa taatgctggg gatgatgttt tcacagtttc gtgccgagtc ctcacgagac
5701 catcccccga ttttgatttc atattcttag taccacccac agttgagtca agaactaaac
5761 cattctctgt cccaatttta actgttgagg agatgaccaa ttcaagattc cccatccctt
5821 tggaaaagtt gttcacaggc cccagcagtg catttgttgt tcaaccacaa aacggcagat
5881 gcacaactga tggcgtgctc ctaggtacca cccaactttc tcctgtcaac atctgcacct
5941 tcagagggga cgtcacccat atcacaggta gtcacaactt cactatgaat ttggcttctc
6001 aaaattggaa caactatgac ccaacagaag agatcccagc ccccctagga actccagatt
6061 ttgtggggaa gatccaaggc atgctcaccc aaaccacaag gacagatggt tcaacacgcg
6121 gccacaaagc tacagtgtac actgggagcg ccgactttgc tccaaaactg ggtagagttc
6181 aatttgaaac tgacacaaac catgattttg aagccaatca gaacacaaag ttcaccccag
6241 tcggtgtcat tcaagatggt agcaccaccc accgaaacga accccaacag tgggtgctcc
6301 caagttactc aggcagaaat actcacaatg tacatttggc ccccgctgta gcccccacct
6361 ttccgggtga gcaactcctc ttctttagat ccaccatgcc cggatgcagc gggtacccca
6421 acatggactt ggactgtctg ctcccccagg aatgggtgca gtacttctac caagaggcag
6481 ccccagcgca atctgatgtg gctctgctaa gatttgtaaa cccagacaca ggtagggttc
6541 tgtttgagtg caagcttcac aaatcaggct atgttacagt ggctcacact ggtcaacatg
6601 atttggttat cccccccaat ggttacttta ggtttgattc ctgggtcaac cagttctaca
6661 cgcttgcccc catgggaaat ggaacggggc gtagacgtgc agtataatgg ctggagcttt
6721 ctttgctgga ttggcatctg atgtccttgg ctccggactt ggttctctta tcaatgctgg
6781 ggctggggcc atcaaccaaa aagttgagtt tgaaaataac agaaaattgc aacaagcatc
6841 cttccaattt agcagcaatt tgcaacaggc ttcctttcaa catgataaag agatgctcca
6901 agcacaaatt gaggccacca aaaagctgca gcaggaaatg atgagagtta agcaggcaat
6961 gctcttagag ggtgggttct ctgagacaga tgcagcccgc ggggcaatta acgcccccat
7021 gacaaaggct ttggactgga gcgggacaag gtactgggct ccagatgcta gagttacaac
7081 atacaatgca ggccactttt ccacccctca accttcgggg gcactgccag gaagagctag
7141 tctcagggat gctgtccctg ctcgtgggcc ctccaccaaa ccttctaact ctcctactgc
7201 cacctctgtg cactcaaacc acactgattc aacgagactt ggttctacag ctggttctgg
7261 aaccagtgtc tcgagcctcc cgtcaactgc aagaactagg agctgggttg aggatcagaa
7321 taggaatttg tcacctttca tgaagggggc ctacaacata tcatttgtca ccccaccatc
7381 tagcagatcc tctagccagg gcacagtctc aaccgtgccc aaagaaattt tggactcctg
7441 gactggcgct ttcaacacgc gcaggcagcc tctcttcgct cacattcgta agcgagggga
7501 gtcacgggtg taatgtgaaa agacgaaa
//