Typing tool
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Typing tool
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Complete norovirus genomes
| PQ195945 | GII.4 Sydney | |
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| GII.P4 New Orleans |
ORF1: 5..5104
ORF2: 5085..6707
ORF3: 6707..7510
LOCUS PQ195945 7525 bp RNA linear VRL 01-JAN-2025
DEFINITION Norovirus GII isolate Hu/GII.4 Sydney[P4]/Summit0060/2022/USA
nonstructural polyprotein (ORF1), VP1 (ORF2), and VP2 (ORF3) genes,
complete cds.
ACCESSION PQ195945
VERSION PQ195945.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norovirus norwalkense.
REFERENCE 1 (bases 1 to 7525)
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JOURNAL Unpublished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 7525)
AUTHORS Brandt,E., 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..7525
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="Hu/GII.4 Sydney[P4]/Summit0060/2022/USA"
/isolation_source="stool"
/host="Homo sapiens"
/db_xref="taxon:122929"
/geo_loc_name="USA"
/collection_date="06-Mar-2022"
/note="genotype: GII.4 Sydney[P4]"
gene 5..5104
/gene="ORF1"
CDS 5..5104
/gene="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="XEJ39147.1"
/translation="MKMASNDASAAAVANSNNDTAKSSSDGVLSSMAVTFKRALGARP
KQPPPREKPQRPPRPPTPELVKNIPPPPPNGEDEIVVTYSVKDGVSGLPDLSTVRQPE
ESNTAFSVPPLNQRENRDAKEPLTGTILEMWDGEIYHYGLYVERGLVLGVHKPPAAIS
LAKVELAPLSLYWRPVYTPQYLISPDTLKKLSGEMFPYTAFDNNCYAFCCWVLDLNDS
WLSRRMIQRTTGFFRPYQDWNKKPLPTMDDSKIKKVANIFLCALSSLFTRPIKDIIGK
IRPLNILNILASCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPED
LAVELVPVVMGGVGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFP
KKEEANELAMVRSIEDAVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARKLST
KSASPDIVGTINALLARIAAARSLVHRAKEELSSRPRPVVLMISGRPGIGKTHLAREV
AKRIAASLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTC
PLTLNCDRIENKGKVFDSDVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPDVEK
AKRDFPGQPDMWKNAFSSDFSHIKLALAPQGGFDKNGNTPHGKGVMKTLTTGSLIARA
SGLLHERLDEFELQGPALTTFNFDRNKVLAFRQLAAENKYGLMDTMRVGKQLKDVKTM
PELKQALKNVSIKKCQIVYNGCTYMLESDGKGNVKVDRIQSAAVQTNNELAGALHHLR
CARIRYYVKCVQEALYSIIQIAGAAFVTTRIAKRMNIQDLWSKPQVENTEETTSKDGC
PKPKDDEEFVISSDDIKAEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNG
KYSIEEYLQDRDKYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERVSLGLV
TGSEIRKRNPDDFKPKGKLWADDDRSVDYNEKLSFEAPPSIWSRIVNFGSGWGFWVSP
SLFITSTHVIPQGAKEFFGVPIKQIQVHKSGEFCRLRFPKPIRTDVTGMILEEGAPEG
TVVTLLIKRSTGELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGD
CGCPYIYKRGNDYVVIGVHTAAARGGNTVICATQGSEGEATLEGGDNKGTYCGAPILG
PGSAPTLSTKTKFWRSSTASLPPGTYEPAYLGGKDPRIKGGPSLQQVMREQLKPFTEP
RGKPPKPSVLEAAKKTIINVLEQTIDPPEKWSFAQACASLDKTTSSGHPHHMRKNDCW
NGESFTGKLADQASKANLMFEEGKNMTPVYTAALKDELVKTDKIYGKIKKRLLWGSDL
ATMIRCARAFGGLMDELKAHCVTLPVRVGMNMNEDGPIIFERHSRYTYHYDADYSRWD
STQQRAVLAAALEIMVKFSPEPHLAQVVAEDLLSPSVVDVGDFTISINEGLPSGVPCT
SQWNSIAHWLLTLCALSEVTNLSPDTIQANSLFSFYGDDEIVSTDIKLDPEKLTAKLR
EYGLKPTRPDKTEGPLVISEDLNGLTFLRRTVTRDPAGWFGKLEQSSILRQMYWTRGP
NHGDPSETMIPHSQRPIQLMSLLGEAALHGPAFYSKISKLVIAELKEGGMDFYVPRQE
PMFRWMRFSDLSTWEGDRNLAPSFVNEDGVE"
mat_peptide 5..994
/gene="ORF1"
/product="p48"
mat_peptide 995..2092
/gene="ORF1"
/product="NTPase"
mat_peptide 2093..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="XEJ39148.1"
/translation="MKMASSDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ
QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
FEVQVILAGNAFTAGKVIFAAVPPNFPTEGLSPSQVTMFPHIVVDVRQLEPVLIPLPD
VRNNFYHYNQSNDPTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT
QLSPVNICTFRGDVTHIAGSRNYTMNLASQNWNNYDPTEETPAPLGAPDFVGKIQGML
TQTTRADGSTRGHKATVYTGSADFAPKLGRVQFETDTDRDFEANQNTKFTPVGVIQDG
STTHRNEPQQWVLPSYSGRNTHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD
CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV
IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRVV"
gene 6707..7510
/gene="ORF3"
CDS 6707..7510
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="XEJ39149.1"
/translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA
SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQEMMKVKQAMLLEGGFSETDAARGAIN
APMTKALDWSGTRYWAPDARITTYNAGRFSTPQPSGVLPGRANLRDAVPARGSSKSSN
SSTATSVYSNQTTSTRLGSTAGSGASVSSLPSTARTRSWVEDQSGNLSPFMRGAHNIS
FVTPPSSRSSSQGTVSTVPKEVLDSWTGAFNTRRQPLFAHIRKRGESRA"
ORIGIN
1 gtgaatgaag atggcgtcta acgacgcttc cgctgccgct gttgctaaca gtaacaacga
61 caccgcaaaa tcttcaagtg acggagtgct ttctagcatg gctgtcactt ttaaacgggc
121 cctcggggcg cggcctaaac agcccccccc gagggaaaaa ccacaaagac ccccacgacc
181 acccacacca gaactggtta aaaacattcc ccccccccca cccaacggag aggatgaaat
241 agtggttact tatagtgtca aagatggtgt ttccggcttg cctgaccttt ccaccgtcag
301 acagccggaa gaatccaaca cggctttcag tgtccctcca ctcaatcaga gggagaacag
361 agatgctaag gaaccactca ctggaacaat tctggaaatg tgggacgggg aaatctacca
421 ttatggcctg tacgtggagc gaggtcttgt attaggcgta cacaaaccgc cagctgccat
481 cagcctcgct aaggttgagt tggcgccact ctccttatat tggaggcctg tgtacactcc
541 tcagtacctc atctctccag acactctcaa gaaattgtcc ggggaaatgt tcccctacac
601 agcatttgac aacaactgct atgccttttg ttgctgggtt ctggacctaa atgactcgtg
661 gctgagcagg agaatgatcc agaggacaac tggtttcttc aggccctacc aagactggaa
721 taagaaaccc cttcccacta tggatgactc caaaataaag aaagtggcca atatatttct
781 gtgtgccctg tcctcgctat tcaccaggcc cataaaagat ataataggga aaataaggcc
841 tcttaacatc ctcaacatct tggcctcatg tgattggacc tttgcgggca tagtagagtc
901 cctgatactc ttagcagagc tctttggagt tttctggaca cccccagatg tgtctgcaat
961 gattgccccc ttacttggtg actacgagct acaaggacct gaggaccttg cagtagagct
1021 cgtccccgtg gtgatggggg gagttggttt ggtgctagga ttcaccaaag agaaaattgg
1081 gaaaatgttg tcatcagctg cgtccacctt aagagcttgc aaagaccttg gtgcatatgg
1141 gctagagatc ctaaagctag tcatgaagtg gttcttcccg aagaaggagg aggcaaatga
1201 gctggctatg gtgaggtcca tcgaggatgc agtcctggat ctcgaagcaa ttgaaaacaa
1261 ccacatgacc accttgctta aagataaaga cagtctggca acctacatga gaacactcga
1321 ccttgaagag gagaaagcca ggaaactctc aaccaagtct gcctcacctg acatcgtggg
1381 cacaatcaac gccctcctgg cgagaatcgc tgccgcacgt tctttggtgc atcgagcgaa
1441 ggaggagctt tccagcagac caagacctgt ggtgttgatg atatcaggca gaccaggaat
1501 agggaagacc catctcgcta gggaagtggc taagagaatc gcagcctccc tcacaggaga
1561 ccagcgtgtt ggtctcatcc cacgcaatgg cgtcgatcat tgggatgcgt acaaggggga
1621 aagggtcgtc ctatgggacg attatggaat gagcaaccct attcacgatg ccctcaggct
1681 gcaagaactc gctgacactt gcccccttac cctgaactgt gacaggattg aaaataaagg
1741 aaaagtcttt gacagcgatg tcatcattat caccactaat ctggccaacc cagccccact
1801 ggactacgtc aactttgaag catgctcgag gcgcattgac ttcctcgtat atgcagaagc
1861 ccctgatgtc gaaaaggcga agcgcgactt cccaggccag cctgacatgt ggaagaacgc
1921 tttcagttcc gatttctcac acataaaact agcactggct ccacagggtg gtttcgacaa
1981 gaacgggaac accccacacg gaaagggcgt catgaagact ctcaccactg gctcccttat
2041 tgcccgggca tcagggctac tccatgagag gttagatgaa tttgaactgc agggcccagc
2101 tctcaccacc ttcaatttcg atcgcaataa agtgcttgcc tttagacagc ttgctgctga
2161 aaataaatat ggactgatgg acacaatgag ggttgggaaa cagctcaagg atgtcaaaac
2221 catgccagaa ctcaaacaag cactcaagaa tgtatcaatc aaaaagtgcc aaatagtgta
2281 taatggttgc acctacatgc ttgagtctga cggcaagggc aatgtgaaag ttgacaggat
2341 ccagagcgcc gccgtgcaga ccaacaatga gctggctggt gccctgcacc acttgagatg
2401 cgccagaatc agatactatg tcaagtgtgt ccaggaagcc ctgtattcca tcattcaaat
2461 tgctggggct gcatttgtca ccacgcgcat tgccaagcgc atgaacatac aggatctgtg
2521 gtccaagcca caagtggaaa acacagagga aactaccagc aaggacgggt gcccaaaacc
2581 caaggatgat gaggagtttg tcatttcatc cgacgacatc aaagctgagg gcaagaaagg
2641 gaagaacaag actggccgtg gcaagaagca cacagcattt tcaagcaaag gtctcagtga
2701 tgaagagtac gatgaataca agaggatcag agaagaaagg aatggcaagt actctataga
2761 agagtacctc caggacaggg acaaatatta tgaggaggtg gccattgcca gagcgactga
2821 ggaagacttc tgtgaagagg aggaagccaa gatccgacaa aggatcttta ggccaacaag
2881 gaaacaacgc aaggaggaaa gagtctctct cggtttagtc acgggctctg aaattaggaa
2941 aagaaaccca gatgacttca aacccaaagg gaaattgtgg gctgacgatg acaggagtgt
3001 ggactacaat gagaaactca gttttgaggc cccgccaagc atttggtcaa gaatagttaa
3061 ctttggttca ggctggggat tctgggtctc ccccagcttg ttcataacat caacccatgt
3121 tataccccaa ggcgcaaagg agttctttgg agtccccatc aaacaaatac aggtacacaa
3181 gtcaggcgag ttctgtcgct tgagattccc taaaccaatc aggactgatg tgacgggcat
3241 gatcttagaa gaaggcgcac ctgagggcac cgtggttaca ctactcatca aaaggtccac
3301 cggggaactt atgcccctag cagctaggat gggaacccat gcgaccatga agatccaagg
3361 gcgcactgtt gggggccaga tgggcatgct tctgacagga tccaacgcca agagtatgga
3421 cctgggtact acaccaggtg actgtggctg cccctacatc tacaagagag gtaatgacta
3481 tgtggtcatt ggagtccaca cggctgccgc acgtgggggg aacactgtca tatgtgccac
3541 ccaggggagt gaaggagagg ctacacttga gggtggtgac aacaagggga cttactgtgg
3601 tgcaccaatc ctaggcccag ggagtgcccc aacacttagc accaagacca agttctggag
3661 atcgtccaca gcatcactcc cacctggcac ctatgaacca gcctaccttg gtggcaagga
3721 ccctagaatc aagggtggcc cttcactaca gcaggtcatg agggaacagt tgaagccatt
3781 cacagagccc agaggtaagc caccaaaacc aagtgtgtta gaagctgcca agaaaaccat
3841 catcaatgtt cttgagcaaa caattgatcc acctgagaaa tggtcgttcg cacaagcttg
3901 cgcgtctctt gacaagacca cttccagtgg tcatccgcat cacatgcgga aaaacgactg
3961 ctggaacggg gagtccttca caggcaagct ggcagaccaa gcttctaagg ccaacctgat
4021 gtttgaagaa ggaaagaaca tgaccccagt ctacacagct gcgctcaagg atgagctagt
4081 taaaactgac aaaatttatg gtaagattaa gaagaggctt ctttggggct cggacttggc
4141 gaccatgatc cggtgtgctc gggcattcgg gggcctaatg gatgaactca aagcacactg
4201 tgtcacactt cccgttagag ttggcatgaa tatgaatgag gatggcccca tcatcttcga
4261 gaggcattcc aggtacacgt accactacga tgctgattac tctcgatggg attcaacaca
4321 acagagagcc gtgttggcgg cagctctaga aatcatggta aaattctccc cagaaccaca
4381 tttggcccag gtagtcgctg aagaccttct ttctcctagc gtggtggacg tgggcgactt
4441 cacaatatca atcaacgagg gtcttccctc tggggtgccc tgcacctccc aatggaactc
4501 catcgcccac tggcttctca ctctctgcgc gctctccgaa gtcacaaacc tgtctcctga
4561 taccatacag gctaattctc tcttttcttt ttatggtgat gatgaaattg ttagcacaga
4621 cataaaattg gacccagaga aattgacagc aaaactcaga gaatacgggt taaaaccaac
4681 ccgccctgac aaaactgaag gaccccttgt catctctgaa gacctgaatg gcctaacttt
4741 cctgcggaga actgtgaccc gcgacccagc tggttggttt ggaaaactgg agcagagttc
4801 aatactcagg caaatgtact ggactagggg tcccaaccat ggagacccat ctgagacaat
4861 gattccacat tcccaaagac ccatacaatt gatgtcccta ctgggggagg ccgctctcca
4921 cggcccagca ttttacagta aaattagcaa attggtcatt gcagagctaa aagaaggtgg
4981 tatggacttt tacgtgccca gacaagagcc aatgttcaga tggatgaggt tctcagatct
5041 gagcacgtgg gagggcgatc gcaatctggc tcccagtttt gtgaatgaag atggcgtcga
5101 gtgacgccaa cccatctgat gggtccgcag ccaacctcgt cccagaggtc aacaatgagg
5161 ttatggctct ggagcccgtt gttggtgccg ctattgcggc acctgtagcg ggccaacaaa
5221 atgtaattga cccctggatc agaaacaatt ttgtacaagc ccctggtgga gagtttacag
5281 tgtcccccag aaacgctcca ggtgaaatac tatggagcgc acccttaggc cctgatttaa
5341 atccctacct atcccacttg gccagaatgt ataatggtta tgcaggtggt tttgaagtgc
5401 aggtgattct cgcggggaac gcgttcaccg ccgggaaggt catattcgca gcagtcccac
5461 caaattttcc aactgaaggc ttgagcccca gccaggtcac tatgttcccc catatagtag
5521 tggatgttag gcaactagaa cctgtgttga ttcccttacc cgatgttagg aataatttct
5581 accattacaa ccaatcaaat gatcccacca ttaagttgat agcaatgtta tatacaccac
5641 ttagggctaa taatgctgga gatgatgtct tcacagtttc ttgccgagtc ctcacgaggc
5701 catcccccga ttttgatttc atatttctag tgccacccac agttgagtct agaaccaaac
5761 cattttctgt cccagtttta actgttgagg agatgaccaa ttcaagattc cccattcctt
5821 tggaaaagtt gttcacgggt cccagcagtg cctttgttgt tcaaccacaa aacggtaggt
5881 gcacgactga tggcgtgctc ctaggcacca cccaattgtc tcctgtcaac atctgtacct
5941 tcagagggga tgtcacccac attgcaggta gtcgtaacta cacaatgaat ttggcttctc
6001 aaaattggaa caactatgac ccaacagaag aaaccccagc ccctctagga gctccagatt
6061 ttgtggggaa gattcaaggc atgctcaccc aaaccacaag ggcagatggc tcaacacgcg
6121 gccacaaggc tacggtgtac actgggagcg ccgacttcgc tccaaaactg ggcagagttc
6181 aatttgaaac tgacacagat cgtgattttg aagctaacca aaacacaaag ttcaccccag
6241 tcggtgtcat ccaagatggt agcaccaccc accgaaatga accccaacag tgggtgctcc
6301 caagttactc aggcagaaat actcataatg ttcatctggc ccccgctgtg gcccccactt
6361 ttccgggtga acaacttctc ttctttagat ccaccatgcc cggatgtagc gggtatccca
6421 acatggactt ggactgtttg ctcccccagg aatgggtgca gtacttctac caagaggcag
6481 ccccagcaca atctgatgtg gccctgctaa gatttgtgaa tccagacaca ggtagggttt
6541 tgtttgaatg taaacttcat aaatcaggct atgttacagt ggctcacact ggccagcatg
6601 atttggtcat cccccccaat ggttatttta ggtttgattc ctgggtcaac cagttctaca
6661 cgcttgcccc catgggaaat ggaacggggc gtagacgcgt agtataatgg ctggagcttt
6721 ctttgctggg ttagcctctg atgtcctcgg ctctggactt ggttccctta tcaatgctgg
6781 ggctggggcc atcaaccaaa aagttgagtt tgaaaataac agaaaattac aacaagcatc
6841 cttccaattt agcagtaatt tacaacaggc ttcctttcaa catgacaaag aaatgctcca
6901 agcacaaatt gaggccacca aaaagctgca acaggaaatg atgaaagtta agcaggcaat
6961 gctcctagag ggtgggttct ctgaaacaga tgcagcccgc ggggcaatca acgcccctat
7021 gacaaaagct ttggactgga gcgggacaag gtactgggct cctgatgcta ggattacaac
7081 ttataatgca ggccgctttt ccacccctca accatcgggg gtactaccag gaagagctaa
7141 tcttagggat gctgtccctg ctcggggttc ctctaaatct tctaactctt ctactgctac
7201 ttctgtgtac tcaaatcaaa ccacttcaac gagacttggt tctacagccg gttctggtgc
7261 cagtgtctcg agtctcccgt caactgcaag aaccaggagc tgggttgagg atcaaagtgg
7321 gaatttgtct cctttcatga ggggggccca caacatatcg tttgtcaccc caccatctag
7381 cagatcctct agccaaggca cagtctcaac cgtgcctaaa gaggttttgg actcctggac
7441 tggcgctttc aacacgcgca ggcagcctct cttcgctcac attcgtaaac gaggggagtc
7501 acgggcgtaa tgtgaaaaga caaaa
//