Typing tool
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Typing tool
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Complete norovirus genomes
| PQ195914 | GII.4 Sydney | |
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| GII.P4 New Orleans |
ORF1: 5..5104
ORF2: 5085..6707
ORF3: 6707..7510
LOCUS PQ195914 7525 bp RNA linear VRL 01-JAN-2025
DEFINITION Norovirus GII isolate Hu/GII.4 Sydney[P4]/Lorain0064/2022/USA
nonstructural polyprotein (ORF1), VP1 (ORF2), and VP2 (ORF3) genes,
complete cds.
ACCESSION PQ195914
VERSION PQ195914.1
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JOURNAL Unpublished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]/Lorain0064/2022/USA"
/isolation_source="stool"
/host="Homo sapiens"
/db_xref="taxon:122929"
/geo_loc_name="USA"
/collection_date="22-Jan-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="XEJ39054.1"
/translation="MKMASNDASAAAVANSNNDTAKSSSDGVLSSMAVTFKRALGARP
KQPPPREKPQRPLRPPTPELVKNIPPPPPNGEDEIVVTYSVKDGVSGLPDLSTVRQPE
ESNTAFSVPPLNQRENRDAKEPLTGTILEMWDGEIYHYGLYVERGLVLGVHKPPAAIS
LAKVELAPLSLYWRPVYTPQYLISPDTLKKLSGETFPYTAFDNNCYAFCCWVLDLNDS
WLSRRMIQRTTGFFRPYQDWNRKPLPTMDDSKIKKVANIFLCALSSLFTRPIKDIIGK
IRPLNILNILASCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPED
LAVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFP
KKEEANELAMVRSIEDAVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARKLST
KSASPDIVGTINALLARIAAARSLVHRAKEELSSRPRPVVLMISGRPGIGKTHLAREV
AKRIAASLTGDQRVGLVPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTC
PLTLNCDRIENKGKVFDSDVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPDVEK
AKRDFPGQPDMWKNAFSSDFSHIKLALAPQGGFDKIGNTPHGKGVMKTLTTGSLIARA
SGLLHERLDEFELQGPALTTFNFDRNKVLAFRQLAAENKYGLMDTMRVGKQLKDVRTM
PELKQALKNVSIKKCQIVYNGCTYMLESDGKSNVKVDRIQSAAVQTNNELAGALHHLR
CARIRYYVRCVQEALYSIIQIAGAAFVTTRIAKRMNIQDLWSKPQVENTEETTSKDGC
PKPKDDEEFVISSDDIKTEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNG
KYSIEEYLQDRDKYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERVSLGLV
TGSEIRKRNPDDFKPKGKLWADDDRSVDYNEKLSFEAPPSIWSRIVNFGSGWGFWVSS
SLFITSTHVIPQGAKEFFGVPIKQIQVHKSGEFCRLRFPKPIRTDVTGMILEEGAPEG
TVVTLLIKRSTGELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGD
CGCPYIYKRGNDYVVIGVHTAAARGGNTVICATQGSEGEATLEGGDNKGTYCGAPILG
PGSAPTLSTKTKFWRSSTASLPPGTYEPAYLGGKDPRVKGGPSLQQVMREQLKPFTEP
RGKPPRPSVLEAAKKTIINALEQTIDPPEKWSFAQACASLDKTTSSGHPHHMRKNDCW
NGESFTGKLADQASKANLMFEEGKSMTPVYTAALKDELVKTDKIYGKIKKRLLWGSDL
ATMIRCARAFGGLMDELKAHCVTLPVRVGMNMNEDGPIIFERHSRYTYHYDADYSRWD
STQQRAVLAAALEIMVKFSPEPHLAQVVAEDLLSPSVVDVGDFTISINEGLPSGVPCT
SQWNSIAHWLLTLCALSEVTNLAPDIIQANSLFSFYGDDEIVSTDIKLDPEKLTAKLR
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="XEJ39055.1"
/translation="MKMASSDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ
QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
FEVQVILAGNAFTAGKVIFAAVPPNFPTEGLSPSQVTMFPHIVVDVRQLEPVLIPLPD
VRNNFYHYNQSNDPTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT
QLSPVNICTFRGDVTHIAGSRNYTMNLASQNWNNYDPTEEIPAPLGAPDFVGKIQGML
TQTTRADGSTRGHKATVYTGSADFAPKLGRVQFETDTDHDFEANQNTKFTPVGVIQDG
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="XEJ39056.1"
/translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA
SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQEMMKVKQAMLLEGGFSETDAARGAIN
APMTKALDWSGTRYWAPDARTTTYNAGRFSTPQPSGVPPGRANLKDAVPARGSSKSSN
SSTATSLYSNQTTSTRLGSTAGSGTSVSSLPSTARTRSWVEDQNRNLSPFMRGAHNIS
FVTPPSSRSSSQGTVSTVPKEVLDSWTGAFNTRRQPLFAHIRKRGESRA"
ORIGIN
1 gtgaatgaag atggcgtcta acgacgcttc cgctgccgct gttgctaaca gcaacaacga
61 caccgcaaaa tcttcaagtg acggagtgct ttctagcatg gctgtcactt ttaaacgagc
121 cctcggggcg cggcctaaac aacccccccc gagggagaaa ccacaaagac ccctacgacc
181 acccacacca gaactggtta aaaacatccc ccccccccca cccaacggag aggacgaaat
241 agtggttact tatagtgtca aagatggtgt ttccggcttg cctgaccttt ccaccgtcag
301 acagccggaa gaatccaaca cggccttcag tgtcccccca ctcaatcaga gggaaaacag
361 agatgctaag gaaccactca ctggaacaat tctggaaatg tgggacgggg aaatctacca
421 ttatggcctg tatgtggagc gaggtcttgt attaggcgta cacaagccgc cagctgccat
481 cagcctcgct aaggttgagt tggcgccact ctccttatac tggaggcctg tgtacacccc
541 tcagtacctc atctctccag acactctcaa gaaactgtcc ggggaaacgt tcccctacac
601 agcatttgac aacaactgct atgccttttg ttgctgggtt ctggacctaa atgactcgtg
661 gctgagcagg agaatgatcc agaggacaac tggtttcttc aggccctatc aagactggaa
721 taggaaaccc ctacccacta tggatgactc caaaataaaa aaggtggcca atatattttt
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 cggtggagct
1021 cgtccccgtg gtaatggggg gaattggttt ggtgctagga ttcaccaaag agaaaattgg
1081 gaaaatgttg tcatcagctg cgtccacctt aagagcttgc aaagaccttg gtgcatatgg
1141 gctagagatc ctaaagctag tcatgaaatg gttcttcccg aagaaggagg aggcaaatga
1201 gctggctatg gtgaggtcca tcgaggatgc agtcctggat ctcgaagcaa ttgaaaacaa
1261 tcatatgacc accttgctta aagataaaga cagcctggca acctacatga gaacactcga
1321 ccttgaagag gagaaagcca ggaaactctc aaccaagtct gcctcacctg acatcgtggg
1381 cacaatcaac gccctcctgg cgagaatcgc tgccgcacgt tccctggtgc accgagcgaa
1441 ggaggagctt tccagcagac caagacctgt ggtgttgatg atatcaggca ggccaggaat
1501 agggaagacc cacctcgcta gggaagtggc taagagaatc gcagcctccc ttacaggaga
1561 ccagcgtgtt ggtctcgtcc cacgcaatgg cgtcgatcac tgggatgcgt acaaggggga
1621 gagggtcgtc ctatgggacg attatggaat gagcaaccct attcacgatg ccctcagact
1681 gcaagaactc gctgatactt gcccccttac cctaaactgt gacaggattg aaaacaaagg
1741 aaaagtcttt gacagcgatg tcatcattat taccactaat ctggccaatc cagccccact
1801 ggactatgtc aactttgaag catgctcgag gcgcattgac ttcctcgtat atgcagaagc
1861 ccctgacgtc gaaaaggcga agcgtgactt cccaggccag cctgatatgt ggaagaacgc
1921 tttcagttcc gatttctcac acataaaact agcactggcc ccacagggtg gtttcgacaa
1981 gatcgggaac accccacacg gaaagggcgt catgaagact ctcaccaccg gctcccttat
2041 tgcccgggca tcagggctac tccatgagag gttagatgaa tttgaactgc agggcccagc
2101 tctcaccacc ttcaatttcg atcgcaataa agtgcttgcc tttagacagc ttgctgctga
2161 aaacaaatat ggactgatgg acacaatgag ggttgggaaa cagctcaagg atgtcagaac
2221 catgccagaa ctcaaacaag cactcaagaa tgtctcaatc aagaagtgtc aaatagtgta
2281 taatggttgc acctacatgc ttgagtctga tggcaagagc aatgtgaaag ttgacaggat
2341 ccagagcgcc gccgtgcaga ccaacaatga gctggctggt gccctgcacc acttgaggtg
2401 cgccagaatc agatactatg tcaggtgtgt ccaggaagcc ctgtattcca tcattcaaat
2461 tgctggggct gcatttgtca ccacgcgcat tgccaagcgc atgaacatac aggatctatg
2521 gtccaagcca caagtggaaa atacagagga aactaccagc aaggacgggt gcccaaaacc
2581 caaggatgat gaggagtttg tcatttcatc cgacgatatc aaaactgagg gcaagaaagg
2641 gaagaacaag actggccgtg gcaagaagca cacagcattt tcaagcaaag gcctcagtga
2701 tgaggagtac gatgaataca agaggatcag agaagaaagg aatggcaagt actctataga
2761 agagtacctc caggacaggg ataaatatta tgaggaggtg gccattgcca gagcgactga
2821 ggaagacttc tgtgaagagg aggaagccaa gatccgacaa aggatcttta ggccaacaag
2881 gaaacaacgc aaggaggaaa gagtctctct cggtttagtc acgggctctg aaattaggaa
2941 aagaaaccca gatgacttca aacccaaggg gaaattgtgg gctgacgatg acaggagtgt
3001 ggactacaat gaaaaactca gttttgaggc cccgccaagc atttggtcga gaatagtcaa
3061 ctttggttca ggctggggat tctgggtctc ctccagcttg ttcataacat caacccatgt
3121 tataccccag ggcgcaaagg agttctttgg agtccccatc aaacaaatac aggtacacaa
3181 gtcaggcgag ttttgccgct tgagattccc taaaccaatc aggactgatg tgacgggcat
3241 gatcttagaa gaaggcgcac ctgagggcac cgtggttaca ctactcatca aaagatccac
3301 cggggaactt atgcccctag cagctaggat ggggactcat gcgaccatga agatccaagg
3361 gcgcactgtt gggggccaga tgggcatgct tctaacagga tccaacgcca agagtatgga
3421 cctgggtact acaccaggtg attgtggctg tccctacatc tacaagagag gtaatgacta
3481 tgtggtcatt ggagtccata cggctgccgc acgtgggggg aacactgtca tatgtgccac
3541 ccaggggagt gaaggagagg ctacacttga gggtggtgac aacaagggga cttactgtgg
3601 tgcaccaatc ctaggcccag ggagtgcccc aacacttagc accaagacca aattctggag
3661 atcgtccaca gcatcactcc cacctggcac ctatgaacca gcctatcttg gtggcaagga
3721 ccctagagtc aagggtggcc cttcgctaca gcaagtcatg agggaacagt tgaagccatt
3781 cacagagccc agaggtaagc caccaagacc aagtgtgtta gaagctgcca agaaaaccat
3841 catcaatgct cttgagcaaa caatcgatcc acctgagaaa tggtcgttcg cacaagcttg
3901 tgcgtctctt gacaagacca cttccagtgg tcatccgcat cacatgcgga aaaacgactg
3961 ctggaacggg gagtccttca caggcaagct ggcagaccag gcttctaagg ccaacctgat
4021 gtttgaagaa ggaaagagca tgaccccagt ctacacagct gcgctcaagg atgagctagt
4081 taaaactgac aaaatttatg gtaagattaa gaagaggctt ctttggggct cggacttggc
4141 gaccatgatc cggtgtgcac gggcattcgg aggcctaatg gatgaactca aagcacactg
4201 tgtcacactt cccgttagag ttggcatgaa tatgaatgag gatggcccca tcatcttcga
4261 gaggcattcc aggtacacgt accactatga tgctgattac tctcgatggg attcaacaca
4321 acagagagcc gtattggcgg cagctctaga aatcatggta aaattctccc cagaaccaca
4381 cttggcccag gtagtcgctg aagaccttct ttctcctagc gtggtagacg tgggcgactt
4441 cacaatatca atcaacgagg gccttccctc tggggtgcct tgcacctccc aatggaactc
4501 catcgcccac tggcttctca ctctctgcgc gctctccgaa gtcacaaacc tggctcctga
4561 tatcatacag gctaattctc tcttttcttt ttatggtgat gatgaaattg ttagcacaga
4621 cataaaattg gacccggaga aattgacagc aaaactcaga gaatacgggt taaaaccaac
4681 ccgccctgac aaaactgaag gaccccttgt catctctgaa gaccttaatg gcctaacttt
4741 cctgcggaga actgtgaccc gcgacccagc tggttggttt ggaaaactgg agcagagttc
4801 aatactcagg caaatgtact ggaccagagg tcccaaccat ggagacccat ctgaaacaat
4861 gattccgcat tcccaaagac ccatacaatt gatgtccctg ctgggggagg ccgctctcca
4921 cggcccagca ttttatagta aaattagcaa attggtcatt gcagagctaa aagaaggtgg
4981 tatggatttt tacgtgccca gacaagagcc aatgttcaga tggatgagat tctcagatct
5041 gagcacgtgg gagggcgatc gcaatctggc tcccagtttt gtgaatgaag atggcgtcga
5101 gtgacgccaa cccatctgat gggtccgcag ccaacctcgt cccagaggtc aacaatgagg
5161 ttatggctct ggagcccgtt gttggtgccg ctattgcggc acctgtagcg ggccaacaaa
5221 atgtaattga cccctggatt agaaacaatt ttgtacaagc ccctggtgga gagtttacag
5281 tgtcccccag aaacgctcca ggtgaaatac tatggagcgc acccttaggt cctgatttaa
5341 acccctacct atcccacttg gccagaatgt ataatggtta tgcaggtggt tttgaagtgc
5401 aggtgattct cgcggggaac gcgttcaccg ccgggaaggt catatttgca gcagtcccac
5461 caaattttcc aactgaaggc ttgagcccca gccaggtcac tatgttcccc catatagtag
5521 tggatgttag gcaactagaa cctgtgttga ttcccttacc cgatgttagg aataatttct
5581 accattacaa tcaatcaaat gatcccacca ttaagttgat agcaatgttg tatacaccac
5641 ttagggctaa taatgctggg gatgatgttt tcacagtttc ttgccgagtt ctcacaaggc
5701 catcccccga ttttgatttc atatttctag tgccacccac agttgagtct agaaccaaac
5761 cattttctgt cccagtttta actgttgagg agatgactaa ttcaagattc cccattcctt
5821 tggaaaagtt gttcacgggt cccagcagtg cctttgttgt tcaaccacag aacggtaggt
5881 gtacgactga tggtgtgctc ctaggcacca cccagttgtc ccctgtcaac atctgcacct
5941 tcagagggga tgtcacccac attgcgggta gtcgtaacta cacaatgaac ttggcttctc
6001 aaaattggaa caattatgac ccaacagaag aaatcccagc ccctctagga gctccagatt
6061 ttgtggggaa gattcaaggc atgctcaccc aaaccacaag ggcagatggc tcaacccgcg
6121 gccacaaggc tacggtgtac actgggagcg ccgacttcgc tccaaaactg ggcagagtcc
6181 aatttgaaac tgacacagac catgattttg aagctaacca aaacacaaag ttcaccccag
6241 tcggtgtcat ccaagatggt agcaccaccc accgaaatga accccaacag tgggtgctcc
6301 caagttactc aggcagaaat actcataatg ttcatcttgc ccccgctgtg gcccccactt
6361 ttccgggtga acaacttctc ttctttagat ccaccatgcc cggatgtagc gggtatccca
6421 acatggattt ggactgtttg ctcccccagg aatgggtgca gtacttctac caagaggcag
6481 ccccagcaca atctgatgtg gccctgctaa gatttgtgaa tccagacaca ggtagggttt
6541 tgtttgagtg taaacttcat aagtcaggct atgtcacagt ggcccacact ggccaacatg
6601 atttggtcat cccccccaat ggttatttta ggtttgattc ctgggtcaat cagttctaca
6661 cgcttgcccc catgggaaat ggaacggggc gtagacgcgt agtataatgg ctggagcttt
6721 ctttgctggg ttagcatctg atgtcctcgg ctctggactt ggttccctta tcaatgctgg
6781 ggctggggcc atcaaccaaa aagttgagtt tgaaaataac agaaaattgc aacaggcatc
6841 cttccaattt agcagcaatt tacaacaggc ttcctttcaa catgacaaag aaatgctcca
6901 agcacaaatt gaggctacca agaagctaca acaggaaatg atgaaagtta agcaggcaat
6961 gctcctagag ggtgggttct ctgaaacaga tgcagcccgc ggggcaatca acgcccccat
7021 gacaaaagct ttggactgga gcgggacaag gtactgggct cctgatgcta ggactacaac
7081 ttataatgca ggccgctttt ccacccctca accatcgggg gtaccaccag gaagagctaa
7141 tcttaaggat gctgtccctg ctcggggttc ctctaaatct tctaattctt ctactgctac
7201 ttctttgtat tcaaatcaaa ccacttcaac gagacttggt tctacagctg gttctggtac
7261 cagtgtctcg agtctcccgt caactgcaag gaccaggagc tgggttgagg atcagaatag
7321 gaatttgtct ccttttatga ggggggccca caacatatcg tttgtcaccc caccatctag
7381 cagatcctct agccaaggca cagtctcaac cgtgcctaaa gaggttttgg actcctggac
7441 tggcgctttc aacacgcgca ggcagcctct cttcgctcac attcgtaaac gaggggagtc
7501 acgggcgtaa tgtgaaaaga caaaa
//