Typing tool
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Typing tool
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Complete norovirus genomes
| PQ209099 | GII.4 Sydney | |
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| GII.P16 |
ORF1: 1..5094
ORF2: 5075..6697
ORF3: 6697..7503
LOCUS PQ209099 7528 bp RNA linear VRL 01-JAN-2025
DEFINITION Norovirus GII isolate Hu/GII.4 Sydney[P16]/Linn0007/2023/USA
nonstructural polyprotein (ORF1) gene, partial cds; and VP1 (ORF2)
and VP2 (ORF3) genes, complete cds.
ACCESSION PQ209099
VERSION PQ209099.1
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.,
Lindesmith,L., Wall,H., Baric,R.S., Vinje,J. and Chhabra,P.
TITLE Norovirus GII.4 evolution in the United States since emergence of
GII.4 Sydney
JOURNAL Unpublished
REFERENCE 2 (bases 1 to 7528)
AUTHORS Tsaknaridis,L.J., Barclay,L., Montmayeur,A.M., Vinje,J. and
Chhabra,P.
TITLE Direct Submission
JOURNAL Submitted (20-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]/Linn0007/2023/USA"
/isolation_source="stool"
/host="Homo sapiens"
/db_xref="taxon:122929"
/geo_loc_name="USA"
/collection_date="04-Jan-2023"
/note="genotype: GII.4 Sydney[P16]"
gene <1..5094
/gene="ORF1"
CDS <1..5094
/gene="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="XEO40408.1"
/translation="MASNDASAAVVCNNNSDKEKSSGEGLFTNMSSTLKKALGARPKQ
PAPRDEPQKPPRPPTPELVKRIPPPPPNGEEEGEPVIRYEVKSGVSGLPELTTVPQPD
VANTAFSVPPLSLRESREAKEPLTGAILEMWDGEIYHYGLYVEKGLVLGVHKPPAAIS
MARVELAPLSLYWRVVYTPQYLISPETLRRLNGEAFPYTAFDNNCYAFCCWVLDLNDS
WLSRRMVQRTTGFFRPYQEWNRKPLPTMDDSKIKKVANIFLCSLSTLFTRPIKDLIGK
IKPLNILNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPED
LAVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFP
KKEEANELAMVRAIEDAVLDLEAIENNHMTTLLKDKDSLATYMKTLDMEEEKARRLST
KSASPDIVGTINALLARIAAARSLVHRAKEELSSRIRPVVVMISGKPGIGKTHLAREV
ARKVASTLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRIQELADTC
PLTLNCDRIENKGKVFDSEVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEK
AKRDFPGQPDMWKDAFKPDFSHIKLQLAPQGGFDKNGNTPHGKGVMKTLTTGSLIARA
SGLLHERMDEFELQGPSTTTFNFDRNRITAFRQLAAENKYGLVDTMKVGNQLKGVKTM
EELKQAIRNVTIKRCRIIYGGSTYDLESDGKGKVLVEKVKSAFIQTNNELAGALHHLK
HARIRYYVKCVQEAVYSIIQIAGAAFVTTRIARRMNIQELWSKPQLDQNESETKEEAP
KSGDDEFIISSKDIKEEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKY
SIEEYLQDRDRYYEELAIAKATEEDFCEEEEIKIRQRIFRPTRKQRKEERATLGLVTG
SEIRRRNPDDFKPKGKLWADDNRSVDYNEKLDFEAPPSIWSRIVSFGSGWGFWVSPSL
FITSTHVIPAGITEAFGVPIKQIQIHKSGEFCRFRFPKPIRPDVTGMILEEGAPEGTV
ATVLIKRPTGELMPLAARMGTHATMKIQGRMVGGQMGMLLTGSNAKGMDLGTTPGDCG
CPYIYKRGNDYIVIGVHTAAARGGNTVICATQGSEGEATLEGGDDKGTYCGAPILGPG
GAPKLSTKTKFWRSSNTPLPPGTYEPAYLGGRDPRVRGGPSLQQVMRDQLKPFTEPRG
KPPRPSVLEAAKQTIINVLEQTLDPPQKWTYVQACASLDKTTSSGHPHHVRKNEFWNG
ETFTGKLADQASKANLMFEEGKHMTPVYTAALKDELVKTEKIYGKIKKRLLWGSDLST
MIRCARSFGGLMDEMKAHCISLPVRVGMNMNEDGPIIFEKHSRYKYHYDADYSRWDST
QQRAVLAAALEIMVRFSAEPQLAQIVAEDLLAPSVVDVGDFKVTINEGLPSGVPCTSQ
WNSIAHWLLTLCALSEVTKLSPDIIQANSMFSFYGDDEIVSTDIKLDPEQLTAKLKEY
GLKPTRPDKTEGPLIIGEDLNGLTFLRRTVTRDPAGWFGKLDQSSILRQMYWTRGPNH
EDPNETMIPHSQRPIQLMALLGEASLHGPSFYSRISKLVITELKEGGMDFYVPRQEPM
FRWMRFSDLSTWEGDRNLAPSFVNEDGVE"
mat_peptide <1..990
/gene="ORF1"
/product="p48"
mat_peptide 991..2088
/gene="ORF1"
/product="NTPase"
mat_peptide 2089..2619
/gene="ORF1"
/product="p22"
mat_peptide 2620..3018
/gene="ORF1"
/product="VPg"
mat_peptide 3019..3561
/gene="ORF1"
/product="Pro"
mat_peptide 3562..5091
/gene="ORF1"
/product="RdRp"
gene 5075..6697
/gene="ORF2"
CDS 5075..6697
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="XEO40409.1"
/translation="MKMASSDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ
QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
FEVQVILAGNAFTAGKIIFAAVPPNFPTEGLSPSQVTMFPHIIVDVRQLEPVLIPLPD
VRNNFYHYNQSNDSTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT
QLSPVNICTFRGDVTHITGSHNFTMNLASQNWNNYDPTEEIPAPLGTPDFVGKIQGML
TQTTRTDGSTRGHKATVYTGSADFAPKLGRVQFETDTNHDFEANQNTKFTPVGVIQDG
STTHRNEPQQWVLPSYSGRNTHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD
CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV
IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRAV"
gene 6697..7503
/gene="ORF3"
CDS 6697..7503
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="XEO40410.1"
/translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA
SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQEMMRVKQAMLLEGGFSETDAARGAVN
APMTKALDWSGTRYWAPDARITTYNAGHFSTPQPSGALSGRANLGDAVPARGSPTKPS
NSSTATSVYSNQTISTRLGSTAGSGTNVSSLPSTARTRSWVEDQNRNLSPFMRGAHNI
SFVTPPSSRSSSQGTVSTVPKEILDSWTGAFNTRRQPLFAHIRKRGESRV"
ORIGIN
1 atggcgtcta acgacgcttc cgctgccgtt gtttgcaaca acaacagcga caaggaaaaa
61 tcttcaggtg aaggcttatt cacaaatatg tcttccacct taaagaaagc cctcggggct
121 aggcccaaac agcctgcccc gagagacgaa ccacaaaagc ccccaagacc accaactccc
181 gagttggtca agaggatacc ccctccgcca cctaatggcg aagaagaagg agagccagtc
241 attaggtatg aggttaagag tggggtctct ggcctgcccg agctcacaac agtcccccaa
301 ccggacgtgg ccaacacagc atttagtgtc ccaccactga gcttgagaga aagcagggag
361 gccaaggaac cgctgacagg ggcaatacta gagatgtggg acggagagat ataccactat
421 ggcctgtacg tggagaaagg cttagtgttg ggtgtgcaca aaccacctgc agccataagc
481 atggcaagag tggagctggc gccgctgtca ttgtactggc gtgtggtgta cactccccaa
541 tacctcatct cccctgaaac tctcagaagg ctcaacggag aggcgtttcc ttacaccgct
601 tttgacaaca actgttacgc cttttgctgc tgggtgttgg acctcaatga ctcatggctt
661 agcaggagga tggtgcaacg aacaacgggc ttcttcaggc cttaccaaga gtggaacaga
721 aaacccttac ccaccatgga tgactccaaa ataaagaagg tagcaaatat attcctatgt
781 tcactgtcca cattattcac cagacccata aaggacctca taggaaaaat taaaccatta
841 aacatattga acatcctggc aacgtgtgat tggacgtttg ccggaatagt ggagtctctg
901 atattgcttg ccgaactctt cggagttttc tggacacccc cagatgtgtc tgctatgatc
961 gctcccttac tcggggacta cgagttgcaa gggccagaag acctcgccgt tgaactcgta
1021 cctgtggtaa tgggagggat tggtttggtg ttgggattca ccaaagagaa aattggcaaa
1081 atgttgtctt cagcagcgtc aacactcagg gcttgtaaag atcttggtgc ctatggctta
1141 gagatactca aattggtcat gaagtggttt ttcccaaaga aagaagaggc caatgagcta
1201 gccatggtga gggccataga ggatgccgta ctagatcttg aggcaataga aaacaaccac
1261 atgacaaccc tgttgaaaga taaagacagc ttagcaacat acatgaaaac actggatatg
1321 gaggaggaga aagctagaag gttgtccaca aaatctgcat cccctgacat agttgggaca
1381 atcaacgccc tgctggctcg aatagcagca gccaggtcat tggtccacag ggccaaggaa
1441 gaactgtcta gcaggataag gccagtagtt gttatgatat ctggcaagcc aggaataggc
1501 aaaactcatc tggccagaga ggtggcaaga aaggtggcat ccactctcac aggggatcaa
1561 agagtcggac tcataccaag aaacggtgtg gatcattggg atgcatacaa aggtgagaga
1621 gttgtgctgt gggacgacta tggcatgagt aaccccattc atgatgctct ccgcatacaa
1681 gaattggctg atacgtgccc ccttacccta aattgcgaca gaattgaaaa taaggggaaa
1741 gtttttgaca gtgaagtcat aataattaca acaaacctcg ccaacccagc cccacttgat
1801 tatgtcaact ttgaggcctg ctccaggaga attgacttcc tggtgtacgc tgaggcacca
1861 gaagtagaaa aggcaaaacg ggattttcct ggtcagccag atatgtggaa ggacgccttc
1921 aagccggact tttcgcacat caagctacag cttgcacctc agggcggctt tgacaagaat
1981 ggcaacaccc cgcatgggaa aggagtgatg aagaccctca ctaccggttc tctgattgcc
2041 cgtgcatcag gcctattgca tgagaggatg gatgaatttg aactccaagg cccctcaacc
2101 actactttca atttcgaccg gaacagaatc acagcattca gacaattggc tgcagaaaac
2161 aagtatggac tggtggacac catgaaagtt ggcaatcaac taaaaggagt aaaaaccatg
2221 gaagaactca aacaagcaat caggaatgtg accatcaaga ggtgccggat catctacggt
2281 ggctccacgt atgaccttga atctgatggc aagggcaaag ttttggtgga aaaggtcaag
2341 agcgccttta tacaaaccaa caacgaattg gccggggccc tgcatcatct taaacatgcc
2401 cgaattaggt attatgtcaa atgtgtgcaa gaagcagtct attccatcat acaaattgcc
2461 ggcgctgcgt ttgtcaccac gcgcattgca cgccgcatga acatacaaga gctctggtcg
2521 aagccacaat tagatcaaaa tgaatcagag actaaggaag aggcacccaa gtcaggagat
2581 gacgagttca tcatatcttc taaggatatc aaggaggaag gaaagaaggg caaaaacaaa
2641 actggccgcg gcaagaaaca caccgcattc tccagcaagg gcctgagcga tgaggagtat
2701 gacgagtaca agaggataag agaagagaga aatgggaagt actccataga ggagtatctt
2761 caagacagag acagatatta tgaggagctc gccattgcca aggccacgga agaagatttc
2821 tgtgaagagg aggagatcaa aatccgtcag agaatttttc gtcccaccag gaaacaaaga
2881 aaggaagaga gggccacact aggactggta acaggttcag aaatcagaag aagaaaccct
2941 gatgatttca aacccaaagg gaagctgtgg gccgatgaca acagaagtgt tgactacaat
3001 gagaaactgg attttgaggc ccccccaagc atatggtcta ggattgtgag ctttggttct
3061 ggctggggct tctgggtatc accaagcctg ttcataacat caactcatgt gatccctgca
3121 ggcataacag aagcatttgg agttcccatc aaacaaattc agatccacaa atcaggtgaa
3181 ttttgccgat tcagattccc aaaaccaatt agaccagatg tgacaggaat gatcttggaa
3241 gaaggtgcgc ctgaaggcac cgtggcaact gtgctcatca aacgccccac cggagagctc
3301 atgcctcttg cagccagaat gggaacacac gcaaccatga agattcaagg ccgcatggtt
3361 ggtggacaga tgggtatgtt gctcactgga tcaaatgcta aggggatgga tttgggaaca
3421 actcctggtg actgtggctg cccttacatc tacaaaaggg gcaatgacta tatagtcatt
3481 ggggtgcaca ctgcagcagc ccgtggtgga aacaccgtca tctgtgccac acagggaagt
3541 gagggtgagg caactcttga gggtggagat gacaaaggaa catactgtgg ggcacccatt
3601 ctaggccctg ggggtgcacc aaaattgagc actaaaacca aattctggag gtcatcgaac
3661 acgccccttc caccagggac gtatgagcct gcctacctcg gtggccgtga cccgcgtgtt
3721 aggggtgggc cctccttaca acaggtaatg agagaccagt tgaagccatt cactgaaccc
3781 aggggcaaac ctccaagacc aagtgttttg gaagcagcca aacaaaccat tatcaatgtc
3841 cttgaacaaa ccctggatcc tccacaaaaa tggacatacg tacaggcgtg tgcctcactt
3901 gacaaaacca cctccagcgg gcatccccac cacgtccgaa agaatgaatt ctggaatggt
3961 gagaccttca ctggtaaatt ggcagaccaa gcatcaaaag caaacctaat gtttgaggaa
4021 gggaaacaca tgacaccagt gtacacagca gcactcaagg acgagctagt caagactgag
4081 aaaatctatg gaaagatcaa gaagagactg ctctggggct ctgacttgtc caccatgatc
4141 cggtgcgcta ggtcatttgg tgggctcatg gacgagatga aggcacactg catatcactc
4201 ccagtacgag ttggcatgaa tatgaatgaa gatggcccaa taatatttga gaaacattcc
4261 agatacaaat atcactatga tgcagactac tctcgttggg attcaacaca gcagagggca
4321 gtattagcag cagccttgga aattatggtc agattctctg cagaaccaca attggcacaa
4381 atagtcgctg aggatctact ggcccctagt gtagtagatg taggggactt taaagttaca
4441 ataaatgaag ggctcccatc tggcgtgcca tgcacttctc aatggaactc cattgcacac
4501 tggctgttaa ctctctgtgc cctgtctgaa gtcaccaaac tgtcccctga cattatacaa
4561 gcaaactcca tgttctcatt ttacggtgat gacgagattg tcagcaccga cataaaattg
4621 gaccctgaac agttgaccgc caagttgaag gagtacggcc tgaaaccaac ccgcccagac
4681 aagaccgagg gacctctaat catcggtgaa gatttaaacg ggctcacttt cctccgaaga
4741 acggtgactc gtgacccagc tggctggttt ggaaaactgg accaaagctc aattttgagg
4801 cagatgtact ggactagagg accaaatcat gaagacccca acgagacaat gataccccat
4861 tcccagagac ccatacagct catggcactg cttggtgaag cctctcttca cggaccctct
4921 ttctacagta gaatcagtaa attggtcata actgagctta aagaaggtgg gatggacttt
4981 tacgtgccaa ggcaggaacc catgttcagg tggatgaggt tctctgactt gagcacgtgg
5041 gagggcgatc gcaatctggc tcccagcttt gtgaatgaag atggcgtcga gtgacgccaa
5101 cccatctgat gggtccgcag ccaacctcgt accagaggtc aacaatgagg ttatggcttt
5161 ggagcccgtt gttggtgccg ctattgcggc acctgtagcg ggccaacaaa atgtaattga
5221 cccctggatt agaaataatt ttgtacaagc ccctggtggg gagtttacag tgtcccctag
5281 aaatgctcca ggtgaaatac tatggagcgc gcccctaggc cctgacctaa atccctacct
5341 atcccatttg gccagaatgt acaatggtta tgcaggtggt tttgaagtgc aggtaattct
5401 cgcggggaac gcgttcaccg ccgggaagat tatatttgca gcagtcccac caaattttcc
5461 aactgaaggc ttaagcccta gccaggtcac tatgttcccc cacataatag tagatgttag
5521 acaattggaa cctgtgctga tccccttacc cgatgttagg aataatttct atcattacaa
5581 tcagtcaaat gactccacta ttaagttgat agcaatgctg tacacaccac ttagggccaa
5641 taatgctggg gatgatgttt tcacagtttc gtgccgagtt ctcacgagac catcccccga
5701 ttttgatttc atattcttag taccacccac agttgagtca agaactaaac cattctctgt
5761 cccagtttta actgttgagg agatgaccaa ttcaagattc cccatccctt tggaaaagtt
5821 gttcacaggc cccagcagtg catttgttgt tcaaccacaa aacggcagat gcacaactga
5881 tggcgtgctc ctaggcacca cccaactttc tcctgtcaac atctgcacct tcagagggga
5941 tgtcacccac atcacaggta gtcacaactt cactatgaat ttggcttctc aaaattggaa
6001 caactatgac ccaacagaag aaatcccagc ccccctagga actccagatt ttgtggggaa
6061 gatccaaggc atgctcaccc aaacaacaag gacagatggt tcaacacgcg gccacaaagc
6121 tacagtgtac actgggagcg ccgactttgc tccaaaactg ggtagggttc aatttgaaac
6181 tgatacaaac catgactttg aagctaatca aaacacaaag ttcaccccag tcggcgtcat
6241 ccaagatggt agcaccaccc accgaaacga accccaacag tgggtgctcc caagttactc
6301 aggcagaaat actcacaatg tacatttggc ccccgctgta gcccccacct ttccgggtga
6361 gcaactcctc ttcttcaggt ccaccatgcc cggatgcagc gggtacccca atatggattt
6421 ggactgtctg ctcccccagg aatgggtgca gtacttctac caagaggcag ccccagcaca
6481 atctgatgta gctctgctaa gatttgtgaa tccagacaca ggtagggttt tgtttgagtg
6541 caagcttcac aagtcaggct atgttacagt ggctcacact ggccaacatg atttggttat
6601 cccccccaat ggttacttta ggtttgactc ctgggtcaac cagttctaca cgcttgcccc
6661 catgggaaat ggaacggggc gtagacgtgc agtataatgg ctggagcttt ctttgctgga
6721 ttggcatctg atgtccttgg ctctggactt ggttccctta tcaatgctgg agctggggct
6781 atcaaccaaa aagttgagtt tgaaaataat agaaaattgc aacaagcatc cttccaattt
6841 agcagcaatc tgcagcaggc ttcctttcaa catgacaaag agatgctcca agcacaaatt
6901 gaggccacca aaaagctaca gcaggaaatg atgagagtta agcaggcaat gctcctagag
6961 ggtgggttct ctgagacaga tgcagcccgc ggggcagtta acgcccccat gacaaaggct
7021 ttggactgga gcgggacaag gtactgggct ccagatgcta gaattacaac atacaatgca
7081 ggccactttt ccacccctca accatcgggg gcactatcag gaagagccaa tcttggggat
7141 gctgtccctg ctcgtggatc acccactaaa ccttctaatt cttctactgc tacctctgtg
7201 tattcaaatc aaactatttc aacgagactt ggttctacag ctggttctgg aaccaatgtc
7261 tcgagcctcc cttcaactgc aaggactagg agctgggttg aggatcagaa taggaatttg
7321 tcacctttca tgaggggggc ccacaacata tcatttgtca ccccaccatc tagcagatcc
7381 tctagccaag gcacagtctc aaccgtgcct aaagaaattt tggactcctg gactggcgct
7441 ttcaacacgc gcaggcagcc tctcttcgct cacattcgta agcgagggga gtcacgggtg
7501 taatgtgaaa agacaaaatt gattatct
//