Typing tool
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Typing tool
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Complete norovirus genomes
| PQ196550 | GII.4 Sydney | |
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| GII.P16 |
ORF1: 1..5092
ORF2: 5073..6695
ORF3: 6695..7501
LOCUS PQ196550 7516 bp RNA linear VRL 27-MAR-2025
DEFINITION Norovirus GII isolate Hu/GII.4 Sydney[P16]/Pima0191/2023/USA
nonstructural polyprotein (ORF1) gene, partial cds; and VP1 (ORF2)
and VP2 (ORF3) genes, complete cds.
ACCESSION PQ196550
VERSION PQ196550.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norovirus norwalkense.
REFERENCE 1 (bases 1 to 7516)
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 7516)
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..7516
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="Hu/GII.4 Sydney[P16]/Pima0191/2023/USA"
/isolation_source="stool"
/host="Homo sapiens"
/db_xref="taxon:122929"
/geo_loc_name="USA"
/collection_date="01-May-2023"
/note="genotype: GII.4 Sydney[P16]"
gene <1..5092
/gene="ORF1"
CDS <1..5092
/gene="ORF1"
/codon_start=2
/product="nonstructural polyprotein"
/protein_id="XEJ39678.1"
/translation="ASNDASAAVACNNNNDKEKSSGEGLFTNMSSTLKKALGARPKQP
APRGEPQKPPRPPTPELVKRIPPPPPNGEEEDEPVIRYEVKSGISGLPELTTVPQPDV
ANTAFSVPPLSMRENREAKEPLTGAILEMWDGEIYHYGLYVEKGLVLGVHKPPAAISM
ARVELAPLSLYWRVVYTPQYLISPETLRRLNGEAFPYTAFDNNCYAFCCWVLDLNDSW
LSRRMVQRTTGFFRPYQEWNRKPLPTLDDSKIKKVANIFLCSLSTLFTRPIKDLIGKI
KPLNILNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPEDL
AVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFPK
KEEANELAMVRAIEDAVLDLEAIENNHMTTLLKDKDSLATYMKTLDMEEEKARRLSTK
SASPDIVGTINALLARIAAARSLVHRAKEELSSRIRPVVVMISGKPGIGKTHLAREVA
RKVASTLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRIQELADTCP
LTLNCDRIENKGKVFDSEVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEKA
KRDFPGQPDMWKDAFKPDFSHIKLQLAPQGGFDKNGNTPHGKGVMKTLTTGSLIARAS
GLLHERMDEFELQGPTITTFNFDRNRITAFRQLAAENKYGLVDTMKVGNQLKGVKTME
ELKQAIRNVTIKRCRIIYGGSTYDLESDGKGKVLVEKVKNTSIQTNNELTGALHHLKH
ARIRYYVKCVQEAVYSIIQIAGAAFVTTRIARRMNIQELWSKPQLDQNESETKEEAPK
SEDDEFIISSKDIKEEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKYS
IEEYLQDRDRYYEELAIAKATEEDFCEEEEIKIRQRIFRPTRKQRKEERATLGLVTGS
EIRRRNPDDFKPKGKLWADDNRSVDYNEKLDFEAPPSIWSRIVNFGSGWGFWVSPSLF
ITSTHVIPAGITEAFGVPIKQIQIHKSGEFCRFRFPKPIRPDVTGMILEEGAPEGTVA
TVLIKRPTGELMPLAARMGTHATMKIQGRMVGGQMGMLLTGSNAKGMDLGTTPGDCGC
PYIYKRGNDYIVIGVHTAAARGGNTVICATQGSEGEATLEGGDDKGTYCGAPILGPGG
APKLSTKTKFWRSSNTPLPPGTYEPAYLGGRDPRVKGGPSLQQVMRDQLKPFTEPRGK
PPRPSVLEAAKQTIINVLEQTLDPPQKWTYAQACASLDKTTSSGHPHHVRKNEFWNGE
TFTGKLADQASKANLMFEEGKHMTPVYTAALKDELVKTEKIYGKIKKRLLWGSDLSTM
IRCARSFGGLMDEMKAHCISLPVRVGMNMNEDGPIIFEKHSRYKYHHDADYSRWDSTQ
QRAVLAAALEIMVRFSAEPQLAQIVAEDLLAPSVVDVGDFKIAINEGLPSGVPCTSQW
NSIAHWLLTLCALSEVTKLSPDIIQANSMFSFYGDDEIVSTDIKLDPEQLTAKLKEYG
LKPTRPDKTEGPLIISEDLDGLTFLRRTVTRDPAGWFGKLDQSSILRQMYWTRGPNHE
DPNETMIPHSQRPIQLMALLGEASLHGPSFYSRISKLVITELKEGGMDFYVPRQEPMF
RWMRFSDLSTWEGDRNLAPNFVNEDGVE"
mat_peptide <1..988
/gene="ORF1"
/product="p48"
mat_peptide 989..2086
/gene="ORF1"
/product="NTPase"
mat_peptide 2087..2617
/gene="ORF1"
/product="p22"
mat_peptide 2618..3016
/gene="ORF1"
/product="VPg"
mat_peptide 3017..3559
/gene="ORF1"
/product="Pro"
mat_peptide 3560..5089
/gene="ORF1"
/product="RdRp"
gene 5073..6695
/gene="ORF2"
CDS 5073..6695
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="XEJ39679.1"
/translation="MKMASNDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ
QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
FEVQVILAGNAFTAGKIIFAAVPPNFPTEGLSPSQVTMFPHIIVDVRQLEPVLIPLPD
VRNNFYHYNQSNDSTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFSVPILTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT
QLSPVNICTFRGDVTHITGSHNFTMNLASQNWNNYDPTEEIPAPLGTPDFVGKIQGML
TQTTRTDGSTRGHKATVYTGSADFAPKLGRVQFETDTNHDFEANQNTKFTPVGVIQDG
STTHRNEPQQWVLPSYSGRNTHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD
CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV
IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRAV"
gene 6695..7501
/gene="ORF3"
CDS 6695..7501
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="XEJ39680.1"
/translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA
SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQEMMRVKQAMLLEGGFSETDAARGAIN
APMTKALDWSGTRYWAPDARITTYNAGHFSTPQPSGALPGRANLRDAVPARGPSTKPS
NSPTATSVHSNQTVSTRLGSTAGSGTSVSSLPSTARTRSWVEDQNRNLSPFMKGAYNI
SFVTPPSSRSSSQGTVSTVPKEILDSWTGAFNTRRQPLFAHIRKRGESRV"
ORIGIN
1 ggcgtctaac gacgcttccg ctgccgttgc ttgcaacaac aacaacgaca aggaaaaatc
61 ttcaggtgaa ggcttattca caaatatgtc ttccacctta aagaaagccc tcggggctag
121 gcccaaacag cctgccccga gaggtgaacc acaaaagccc ccaagaccac caactcccga
181 gttggtcaag aggatacccc ctcctccacc taatggcgaa gaagaagacg aaccagtcat
241 taggtatgag gttaagagtg ggatctctgg cctgcccgag ctcacaacag ttccccaacc
301 ggacgtggcc aacacagcat ttagtgttcc accactgagc atgagagaaa acagggaggc
361 caaagaaccg ctgacagggg caatactaga gatgtgggat ggagagatat accactatgg
421 cctgtacgtg gagaaaggct tagtgttggg tgtgcacaaa ccacctgcag ccataagcat
481 ggcaagagtg gagctggcgc cgctgtcatt gtactggcgt gtggtgtaca ctccccaata
541 cctcatctct cctgagactc tcaggaggct caacggtgag gcgtttcctt acaccgcttt
601 tgacaacaac tgctacgctt tttgctgctg ggtgttagac ctcaatgact catggcttag
661 caggaggatg gtgcaacgaa ccacgggctt cttcaggcct tatcaagagt ggaacagaaa
721 acccttaccc accttggatg actccaaaat aaagaaggta gcaaatatat tcctgtgctc
781 attgtccaca ttattcacca ggcccataaa agacctcata ggaaaaatta aaccattaaa
841 catattgaac atcctggcaa cgtgtgactg gacgtttgcc ggaatagtgg agtctctgat
901 attgcttgcc gaactcttcg gagttttttg gacaccccca gatgtgtctg ctatgattgc
961 tcccttactt ggggactacg agttgcaggg gccagaagac ctcgccgttg aactcgtacc
1021 tgtggtaatg ggagggattg gtttggtgtt gggattcacc aaagagaaaa ttggcaaaat
1081 gttgtcctca gcagcatcaa cactcagagc ttgtaaagat cttggtgcct atggcttaga
1141 gatactcaaa ttggtcatga agtggttttt cccaaagaaa gaagaggcca atgagctagc
1201 tatggtgagg gccatagagg atgccgtact agatcttgag gcaatagaaa acaaccacat
1261 gacaaccctg ttgaaagaca aagacagctt agcaacatac atgaaaacac tggacatgga
1321 ggaggagaaa gccagaaggt tgtccacaaa atctgcatcc cctgacatag ttgggacaat
1381 caacgccctg ctggctcgaa tagcagcagc caggtcatta gtccacaggg ccaaggaaga
1441 actgtctagc aggataaggc cagtagttgt tatgatatct ggcaaaccag gaataggcaa
1501 aactcatcta gccagagagg tggcaagaaa ggtggcatcc actctcacag gggaccaaag
1561 agtcggactc ataccaagaa acggtgtgga ccactgggat gcatacaaag gtgagagagt
1621 cgtgctgtgg gacgactatg gcatgagtaa ccccattcat gatgctctcc gcatacaaga
1681 actggctgat acgtgtcccc ttaccttaaa ttgcgacaga attgaaaata aggggaaagt
1741 ttttgacagt gaagtcataa taattacaac aaatctcgcc aacccagccc cacttgatta
1801 tgtcaacttt gaggcctgct ccaggagaat tgatttcctg gtgtacgctg aggcgccaga
1861 agtagaaaag gcaaaacggg attttcctgg tcagccagat atgtggaagg acgccttcaa
1921 gccggacttt tcgcacatca agctacagct tgcacctcag ggcggctttg acaagaatgg
1981 caacacccct catgggaaag gagtgatgaa gaccctcact accggttctc tgattgcccg
2041 tgcatcaggc ctactgcatg agaggatgga tgaatttgaa ctccaaggtc ccacaatcac
2101 cactttcaat ttcgaccgga acagaatcac agcattcaga caattggctg cagaaaacaa
2161 gtatggactg gtggatacca tgaaagttgg caatcaacta aaaggagtga aaaccatgga
2221 agaactcaaa caagcaatca ggaatgtgac catcaagagg tgccggataa tctacggtgg
2281 ctccacgtat gaccttgagt ctgatggcaa gggcaaagtt ttggtggaaa aggtcaagaa
2341 cacctctata cagaccaaca acgagttgac cggggccctg catcatctca agcatgcccg
2401 aatcaggtac tatgtcaaat gtgtgcaaga ggcagtctat tccatcatac aaattgccgg
2461 cgctgcgttt gtcaccacgc gcattgcacg ccgcatgaac atacaagagc tctggtcgaa
2521 gccacaatta gaccaaaatg aatcagagac taaggaagag gcccccaagt cagaagatga
2581 cgagttcatc atatcttcta aggatatcaa ggaggaagga aagaagggca aaaacaaaac
2641 tggccgtggc aagaaacaca ccgcattctc cagcaagggc ttaagtgatg aggagtatga
2701 cgagtacaag aggataagag aagagagaaa tgggaagtac tccatagaag agtatcttca
2761 agacagagac aggtattacg aggagctcgc cattgccaag gccacggaag aagacttctg
2821 tgaagaggag gagatcaaaa tccgtcagag gatttttcgt cccaccagga aacaaagaaa
2881 ggaagagagg gccacactag ggctggtaac tggctcagaa atcagaagaa gaaaccctga
2941 tgatttcaaa cccaaaggga agctgtgggc cgatgacaac agaagtgttg actacaatga
3001 gaaactggat tttgaggctc ccccaagcat atggtctagg attgtgaact ttggttctgg
3061 ctggggcttc tgggtatcac caagcctgtt cataacgtca actcatgtga tccctgcagg
3121 cataacagaa gcatttggag tccccatcaa acaaatccag atccacaaat caggtgaatt
3181 ttgccgattc agattcccaa aaccaatcag accagatgtg acaggaatga tcttggaaga
3241 aggtgcgcct gaaggcaccg tggcaactgt gctcatcaaa cgccccaccg gagagctcat
3301 gcctcttgca gccagaatgg gaacacacgc aaccatgaag attcaaggcc gcatggttgg
3361 tggacagatg ggtatgctgc tcactgggtc aaatgctaaa gggatggatt tgggaacaac
3421 tcctggtgac tgtggctgcc cttacatcta taaaaggggc aatgactata tagtcattgg
3481 ggtgcacacc gcagcagccc gtggtggaaa caccgtcatc tgtgccacac agggaagtga
3541 gggtgaggca actcttgagg gtggagatga caaaggaaca tattgtgggg cacccattct
3601 aggccctgga ggtgcaccaa aattgagcac taaaaccaaa ttttggaggt catcgaacac
3661 gccccttcca ccggggacgt acgaacctgc ctacctcggt ggccgtgacc cgcgtgttaa
3721 gggtgggccc tccttacaac aggtaatgag agatcagttg aagccattca ctgaacccag
3781 gggcaaacct ccaagaccaa gtgttttgga agcagccaaa caaaccatta tcaacgtcct
3841 tgaacaaacc ctggatcctc cacaaaagtg gacatacgca caggcgtgtg cctcacttga
3901 caaaaccacc tccagcgggc atccccacca tgtccgaaag aatgaattct ggaatggtga
3961 gaccttcact ggtaaattgg cagaccaagc atcaaaagcg aacctaatgt ttgaggaagg
4021 gaaacacatg acaccagtgt acacagcagc actcaaggac gagctagtca agactgagaa
4081 aatctatgga aagatcaaga agagactgct ctggggctct gacttgtcca ccatgatccg
4141 gtgcgctagg tcatttggtg ggctcatgga cgagatgaag gcacactgta tatcactccc
4201 agtgcgagtt ggcatgaata tgaatgaaga tggcccaata atatttgaga aacattctag
4261 gtacaaatat caccatgatg cagactactc tcgttgggat tcaacacagc aaagggcagt
4321 attagcagca gccttggaaa ttatggtcag attctctgca gaaccacaat tggcacaaat
4381 agtcgctgag gatctactgg cccctagtgt agtagatgta ggagacttta aaattgcaat
4441 aaatgaaggg ctcccatctg gcgtgccatg cacttctcaa tggaactcca ttgcacactg
4501 gctgctaact ctctgtgcct tgtctgaagt caccaaactg tcccctgaca ttatacaagc
4561 aaattccatg ttctcatttt acggtgatga cgagattgtc agcaccgaca taaaattaga
4621 ccctgaacag ttgaccgcca agttgaagga gtacggcctg aaaccaaccc gcccagacaa
4681 gactgaggga cctctgatca tcagtgaaga tttggacgga ctcactttcc tccgaaggac
4741 ggtgactcgt gacccagctg gctggtttgg aaaactggac caaagttcaa ttttgaggca
4801 gatgtattgg actagaggac caaatcatga agaccccaat gagacaatga taccccattc
4861 ccagaggccc atacagctca tggcactgct tggtgaagcc tctcttcacg gaccctcttt
4921 ctacagtaga atcagtaaat tggttataac tgaactcaaa gaaggtggga tggactttta
4981 cgtgccaagg caggaaccca tgttcaggtg gatgaggttc tctgacttga gcacgtggga
5041 gggcgatcgc aatctggctc ccaactttgt gaatgaagat ggcgtcgaat gacgccaacc
5101 catctgatgg gtccgcagcc aacctcgtac cagaggtcaa caatgaggtt atggctttgg
5161 agcccgttgt tggtgccgct attgcggcac ccgtagcggg ccaacaaaat gtaattgacc
5221 cctggattag aaataatttt gtacaagccc ctggtgggga gttcacagta tcccctagaa
5281 atgctccagg tgaaatactg tggagtgcac ccttaggccc tgacctaaat ccctacctat
5341 cccatttggc cagaatgtac aatggttatg caggtggttt cgaagtgcag gtaattctcg
5401 cggggaacgc gttcaccgca gggaagatta tatttgcagc agtcccacca aattttccaa
5461 ctgaaggctt aagccctagc caggttacca tgtttcccca tataatagta gatgttagac
5521 aattggaacc tgtgctgatc cccttacccg atgttaggaa taacttctat cattacaatc
5581 agtcaaatga ctccactatc aagttgatag caatgttgta cacaccactt agggctaata
5641 atgctgggga tgatgttttc acagtttcgt gccgagttct cacgagacca tcccccgatt
5701 ttgattttat attcttagta ccacccacag ttgagtcaag aactaaacca ttctctgtcc
5761 caattttaac tgttgaggag atgaccaatt caagattccc catccctttg gaaaagttgt
5821 tcacaggccc cagcagtgca tttgttgttc aaccacaaaa cggcagatgc acaactgatg
5881 gcgtgctcct aggtaccacc caactttctc ctgtcaacat ctgcaccttc agaggggacg
5941 tcacccatat cacaggtagt cacaacttca ctatgaattt ggcttctcaa aattggaaca
6001 actatgaccc aacagaagaa atcccagccc ccctaggaac tccagatttt gtggggaaga
6061 tccaaggcat gctcacccaa accacaagga cagatggttc aacacgcggc cacaaagcta
6121 cagtgtacac tgggagcgcc gactttgctc caaaactggg tagagttcaa tttgaaactg
6181 acacaaacca tgactttgaa gccaatcaga atacaaagtt caccccagtc ggtgtcattc
6241 aagatggtag caccacccac cgaaacgaac cccaacagtg ggtgcttcca agttactcag
6301 gcagaaatac tcacaatgta catttggccc ccgctgtagc ccccaccttt ccaggtgagc
6361 aactcctctt ctttagatcc accatgcccg gatgcagcgg gtaccccaac atggacttgg
6421 actgtctgct cccccaggaa tgggtgcagt acttctacca agaggcagcc ccagcacaat
6481 ctgatgtggc tctgctaaga tttgtaaacc cagacacagg cagggttctg tttgagtgca
6541 agcttcacaa atcaggctat gttacagtgg ctcacactgg tcaacatgat ttggttatcc
6601 cccccaatgg ttactttagg tttgattcct gggtcaacca gttctacacg cttgccccca
6661 tgggaaatgg aacggggcgt agacgtgcag tataatggct ggagctttct ttgctggatt
6721 ggcatctgat gtccttggct ccggacttgg ttctcttatc aatgctgggg ctggggccat
6781 caaccaaaaa gttgagtttg aaaataacag aaaattgcaa caagcatcct tccaatttag
6841 cagcaatttg caacaggctt cttttcaaca tgataaagag atgctccaag cacaaattga
6901 ggccaccaaa aagctacagc aggaaatgat gagagttaag caggcaatgc tcttagaggg
6961 tgggttctct gagacagatg cagcccgcgg ggcaattaat gcccccatga caaaggcttt
7021 ggactggagc gggacaaggt actgggctcc agatgctaga attacaacat acaatgcagg
7081 ccacttttcc acccctcaac catcgggggc actgccagga agagctaatc tcagggatgc
7141 tgtccctgct cgtgggccct ccaccaaacc ttctaactct cctactgcca cctctgtgca
7201 ctcaaaccaa actgtttcaa cgagacttgg ttctacagct ggttctggaa ccagtgtctc
7261 gagcctcccg tcaactgcaa gaactaggag ctgggttgag gatcaaaata ggaatttgtc
7321 acccttcatg aagggggcct acaacatatc atttgtcacc ccaccatcta gcagatcctc
7381 tagccagggc acagtctcaa ccgtgcccaa agaaattttg gactcctgga ctggcgcttt
7441 caacacgcgc aggcagcctc tcttcgctca cattcgtaag cgaggggagt cacgggtgta
7501 atgtgaaaag acaaaa
//