Typing tool
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Typing tool
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Complete norovirus genomes
| PQ195908 | GII.4 Sydney | |
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| GII.P16 |
ORF1: 1..5100
ORF2: 5081..6703
ORF3: 6703..7509
LOCUS PQ195908 7524 bp RNA linear VRL 01-JAN-2025
DEFINITION Norovirus GII isolate Hu/GII.4 Sydney[P16]/Hancock0001/2024/USA
nonstructural polyprotein (ORF1), VP1 (ORF2), and VP2 (ORF3) genes,
complete cds.
ACCESSION PQ195908
VERSION PQ195908.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norovirus norwalkense.
REFERENCE 1 (bases 1 to 7524)
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JOURNAL Unpublished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 7524)
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..7524
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="Hu/GII.4 Sydney[P16]/Hancock0001/2024/USA"
/isolation_source="stool"
/host="Homo sapiens"
/db_xref="taxon:122929"
/geo_loc_name="USA"
/collection_date="07-Jan-2024"
/note="genotype: GII.4 Sydney[P16]"
gene 1..5100
/gene="ORF1"
CDS 1..5100
/gene="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="XEJ39036.1"
/translation="MKMASNDASAAVACNNNNDKEKSSGEGLFTNMSSTLKKALGARP
KQPAPRDKPQKPPRPPTPELVKRIPPPPPNGEEEEEPVIRYEVKSGISGLPELTTVPQ
PDVANTAFSVPPLSLRENREAKEPLTGAILEMWDGEIYHYGLYVEKGLVLGVHKPPAA
ISMARVELTPLSLYWRVVYTPQYLISPETLRRLNGEAFPYTAFDNNCYAFCCWVLDLN
DSWLSRRMVQRTTGFFRPYQEWNRKPLPTMDDSKIKKVANIFLCSLSTLFTRPIKDLI
GKIKPLNILNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGP
EDLAVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWF
FPKKEEANELAMVRAIEDAVLDLEAIENNHMTTLLKDKDSLATYMKTLDMEEEKARRL
STKSASPDIVGTINALLARIAAARSLVHRAKEELSSRIRPVVVMISGKPGIGKTHLAR
EVARKVASTLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRIQELAD
TCPLTLNCDRIENKGKVFDSEVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEV
EKAKRDFPGQPDMWKDAFKPDFSHIKLQLAPQGGFDKNGNTPHGKGVMKTLTTGSLIA
RASGLLHERMDEFELQGPTITTFNFDRNRIAAFRQLAAENKYGLVDTMRVGNQLKGVK
TMEELKQAIRNVTIKRCRIIYGGSIYDLESDGKGKVLVEKVKNTSVQTNNELAGALHH
LKHARIRYYVKCVQEAVYSIIQIAGAAFVTTRIARRMNIQELWSKPQLDQSEPETKEE
ALKSEDDEFVISSKDIKEEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNG
KYSIEEYLQDRDRYYEELAIAKATEEDFCEEEEIKIRQRIFRPTRKQRKEERATLGLV
TGSEIRKRNPDDFKPKGKLWADDNRSVDYNEKLDFEAPPSIWSRIVSFGSGWGFWVSP
SLFITSTHVIPAGITEAFGVSIKQIQIHKSGEFCRLRFPKPIRPDVTGMILEEGAPEG
TVATVLIKRPTGELMPLAARMGTHATMKIQGRMVGGQMGMLLTGSNAKGMDLGTTPGD
CGCPYIYKRGNDYIVIGVHTAAARGGNTVICATQGSEGEATLEGGDDKGTYCGAPILG
PGGAPKLSTKTKFWRSSNTPLPPGTYEPAYLGGRDPRVKGGPSLQQVMRDQLKPFTEP
RGKPPRPNVLEAAKQTIINVLEQTLDPPQKWTYAQACASLDKTTSSGNPHHVRKNEFW
NGETFTGKLADQASKANLMFEEGKHMTPVYTAALKDELVKTEKIYGKIKKRLLWGSDL
STMVRCARSFGGLMDEMKAHCISLPVRVGMNMNEDGPIIFEKHSRYKYHYDADYSRWD
STQQRAVLAAALEIMVRFSAEPQLAQIVAEDLLAPSVVDVGDFKITINEGLPSGVPCT
SQWNSIAHWLLTLCALSEVTKLSPDIIQANSMFSFYGDDEIVSTDIKLDPEQLTAKLK
EYGLKPTRPDKTEGPLIISEDLDGLTFLRRTVTRDPAGWFGKLDQSSILRQMYWTRGP
NHEDPSETMIPHSQRPIQLMALLGEASLHGPSFYSKISKLVITELKEGGMDFYVPRQE
PMFRWMRFSDLSTWEGDRNLAPNFVNEDGVE"
mat_peptide 1..996
/gene="ORF1"
/product="p48"
mat_peptide 997..2094
/gene="ORF1"
/product="NTPase"
mat_peptide 2095..2625
/gene="ORF1"
/product="p22"
mat_peptide 2626..3024
/gene="ORF1"
/product="VPg"
mat_peptide 3025..3567
/gene="ORF1"
/product="Pro"
mat_peptide 3568..5097
/gene="ORF1"
/product="RdRp"
gene 5081..6703
/gene="ORF2"
CDS 5081..6703
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="XEJ39037.1"
/translation="MKMASSDANPSDGSAASLVPEVNNEVMALEPVVGAAIAAPVAGQ
QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
FEVQVILAGNAFTAGKIIFAAIPPNFPTEGLSPSQVTMFPHIIVDVRQLEPVLIPLPD
VRNNFYHYNQSNDSTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT
QLSPVNICTFRGDVTHITGSHNFTMNLSSQNWNNYDPTEEIPAPLGTPDFVGKIQGML
TQTTRTDGSTRGHKATVYTGSADFAPKLGRVQFETDTNHDFEANQNTKFTPVGVIQDG
STTHRNEPQQWVLPSYSGRNTHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD
CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV
IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRAV"
gene 6703..7509
/gene="ORF3"
CDS 6703..7509
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="XEJ39038.1"
/translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA
SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQEMMRVKQAMLLEGGFSETDAARGAIN
APMTKALDWSGTRYWAPDARITTYNAGHFSTPQPSGALPGRANFRDAVPARGPSTRPS
NSSTATSVYSNQTISTRLGSTAGSGTSVSSLPSTARTRSWVEDQNRNLSPFMRGAHNI
SFVTPPSSRSSSQGTVSTVPKEILDSWTGAFNTRRQPLFAHIRKRGESRV"
ORIGIN
1 atgaagatgg cgtctaacga cgcttccgct gccgttgctt gcaacaacaa caacgacaag
61 gaaaaatctt caggtgaagg cttatttaca aatatgtctt ccaccttaaa gaaagccctc
121 ggggctaggc ccaaacagcc tgccccgaga gacaaaccac aaaagccccc aagaccacca
181 actcctgagt tggtcaagag gataccccct cctccaccta atggcgaaga agaagaagaa
241 ccagtcatta ggtatgaggt taagagcgga atctctggcc tgcccgagct cacaacagtc
301 ccccaaccgg acgtggccaa cacagcattc agtgttccac cactgagctt gagagaaaac
361 agggaggcca aggaaccgct aacaggggca atattagaga tgtgggatgg agagatatat
421 cactatggcc tatacgtgga gaaaggccta gtgttgggtg tgcacaaacc acctgcagcc
481 ataagcatgg caagagtgga actgacgccg ctgtcattat actggcgtgt agtgtacact
541 ccccaatacc tcatctcccc tgaaactctt aggaggctca acggagaggc tttcccttac
601 accgcctttg acaacaactg ctatgccttt tgttgctggg tgctagacct caacgactca
661 tggcttagca ggagaatggt gcagagaaca acgggcttct tcagacctta ccaagagtgg
721 aacagaaaac ccctgcctac catggatgac tccaaaatta agaaggtggc aaatatattc
781 ctatgctcat tgtccacatt attcaccaga cccataaaag atctcatagg aaaaattaaa
841 ccattaaaca tattgaacat tctggcaacg tgtgactgga cgtttgccgg gatagtggag
901 tctctaatat tacttgctga actcttcgga gttttctgga cacccccaga tgtgtctgct
961 atgatcgctc ccttgctcgg ggactacgag ttgcaggggc cagaggacct cgccgttgaa
1021 ctcgtgcctg tggtaatggg agggattggt ttggtgttgg gattcaccaa agagaaaatt
1081 ggcaaaatgt tgtcttcagc agcatcaaca ctcagggctt gcaaagatct tggtgcctat
1141 ggcttggaga tactaaaatt ggtcatgaag tggttcttcc caaagaaaga ggaggccaat
1201 gagctagcca tggtgagggc catagaggat gctgtactag atcttgaggc aatagaaaat
1261 aaccacatga caaccctgtt gaaagacaaa gacagcttag caacatacat gaagacacta
1321 gacatggagg aggagaaagc caggaggttg tccacaaaat ctgcatcccc cgacatagtt
1381 gggacaatca acgccctact ggctcgaata gcagcggcca ggtcattagt ccacagggcc
1441 aaggaagagc tatctagcag gataagacca gtagttgtta tgatatctgg caaaccagga
1501 ataggcaaga ctcatctggc cagggaggtg gcaagaaagg tggcttctac tctcacaggg
1561 gaccagagag tcggactcat accaagaaac ggtgtggacc attgggatgc atacaaaggc
1621 gagagagtcg tgctgtggga cgactatggc atgagtaacc ccatccatga tgctcttcgc
1681 atacaagaat tggctgatac gtgtcccctc actttaaatt gtgacagaat tgaaaacaaa
1741 ggaaaagttt ttgacagtga agtcataata attacaacaa accttgccaa cccagcccca
1801 cttgattatg tcaactttga ggcttgttcc aggagaattg acttcctggt gtacgctgag
1861 gcaccagaag tagagaaggc aaagcgggac ttccctggtc agccagatat gtggaaggac
1921 gccttcaagc cggacttttc acacatcaag ctgcaacttg cacctcaggg cggctttgac
1981 aagaatggca acaccccaca tgggaaagga gtgatgaaga ccctcaccac tggctctctg
2041 atcgctcgtg catcaggcct actgcatgag aggatggatg aatttgaact ccaaggcccc
2101 acaatcacca ccttcaattt cgaccggaac agaatcgcag cattcagaca actggctgca
2161 gaaaacaagt atggattagt ggacaccatg agagttggca atcaattgaa aggagtgaaa
2221 accatggaag aactcaagca agcaattagg aatgtaacca tcaagaggtg ccggatcatt
2281 tacggtggct ctatatatga ccttgaatct gacggcaagg gcaaagtttt ggtggaaaag
2341 gtcaagaaca cctctgtaca gaccaacaac gagttggccg gggccttgca ccatcttaaa
2401 cacgctcgaa tcagatacta tgtcaaatgc gtgcaagaag cggtctattc catcatacaa
2461 attgccggcg ctgcgtttgt caccacgcgt attgcacgcc gcatgaacat acaagaactc
2521 tggtcgaagc cacaattaga tcaaagtgaa ccagagacta aggaagaggc cctcaagtca
2581 gaagacgacg agttcgtcat atcttctaag gacatcaagg aggaaggaaa gaagggcaaa
2641 aataaaactg gccgtggcaa gaaacatact gcattctcca gcaagggctt gagtgatgag
2701 gagtatgacg agtataagag gataagagaa gagagaaatg ggaagtactc tatagaggag
2761 tatcttcaag acagagacag gtactatgag gagctcgcca ttgccaaggc cacggaagaa
2821 gacttctgtg aagaggagga gattaaaatc cgtcagagaa ttttccgtcc caccaggaaa
2881 caaaggaagg aagagagggc cacattaggg ctagtaacgg gttcagaaat cagaaagaga
2941 aaccctgatg acttcaaacc caaagggaag ctgtgggccg atgacaacag aagtgttgac
3001 tacaatgaaa aactagactt tgaggccccc ccaagcatat ggtctaggat cgtgagcttt
3061 ggttctggct ggggcttctg ggtatcacca agcctgttta taacatcaac tcatgtgatc
3121 cccgcaggca taacagaagc atttggagtc tccatcaaac aaattcagat ccacaaatca
3181 ggtgaatttt gtcggctcag attcccaaaa ccaattagac cagatgttac aggaatgatc
3241 ttggaagaag gtgcgcctga gggtaccgtg gcaactgtgc tcatcaagcg ccccaccgga
3301 gagctcatgc ctcttgcagc cagaatggga acacacgcaa ccatgaaaat tcaaggccgc
3361 atggttggcg ggcagatggg tatgttgctc actggatcaa atgctaaagg aatggatttg
3421 gggacaaccc ctggtgactg tggctgccca tacatctata aaagaggcaa cgactatata
3481 gtcattgggg tgcatactgc agcagcccgt ggtggaaaca ccgtcatctg tgccacacag
3541 ggaagtgagg gtgaggcaac tcttgagggt ggagatgaca aaggaacata ctgtggggca
3601 cccattctgg gccctggggg cgcaccaaaa ttgagcacca aaaccaaatt ttggaggtca
3661 tcgaacacgc cccttccacc agggacgtat gagcctgcct acctcggcgg ccgtgatcca
3721 cgtgtcaagg gcgggccctc cttgcagcag gtaatgagag atcagttgaa gccattcact
3781 gaacccaggg gcaaacctcc aagaccaaat gtattagaag cagccaaaca aaccatcatc
3841 aatgtcctcg aacaaaccct ggatcctcca caaaaatgga catacgcaca ggcgtgtgcc
3901 tcacttgaca aaaccacctc cagcggaaac ccccatcacg tccgaaagaa tgaattctgg
3961 aatggtgaga cctttactgg aaaattggca gaccaagcat caaaagcaaa tctaatgttt
4021 gaggaaggga aacatatgac accagtgtat acagcagcac tcaaggacga gctagttaag
4081 actgagaaaa tctatggaaa gatcaagaag aggctgctct ggggctctga cttgtccacc
4141 atggtccggt gtgctaggtc atttggtggg ctcatggacg agatgaaggc acactgcata
4201 tcactcccag tccgagttgg catgaatatg aatgaagatg gcccaataat atttgagaaa
4261 cattccagat ataagtacca ctatgatgca gactactctc gttgggattc aacacaacag
4321 agggcagtat tggcagcagc cttggaaatc atggtcagat tctctgcaga accacaactg
4381 gcacaaatag tcgctgagga tctgctggcc cctagtgtag tagatgtagg agacttcaaa
4441 attacaataa atgaagggct cccctctggt gttccatgca cttctcaatg gaactccatt
4501 gcacactggc tactaactct ctgtgccttg tctgaagtca ccaaactgtc ccctgacatt
4561 atacaggcaa attccatgtt ctcattttac ggtgatgacg agattgtcag caccgacata
4621 aaattggacc ctgaacagtt aaccgccaaa ttgaaggagt acggcctgaa accaacccgc
4681 ccagacaaaa ccgagggacc cctgatcatc agtgaagatt tggacggact cactttcctc
4741 cgaaggacgg tgactcgtga cccagctggc tggtttggta aactggacca gagctccatt
4801 ttgaggcaga tgtactggac tagagggcca aatcatgaag accccagtga gacaatgata
4861 ccccattctc agagacccat acagctcatg gcactgcttg gtgaagcttc tcttcacggg
4921 ccctctttct atagtaaaat cagcaaattg gtcataactg aactcaagga aggtgggatg
4981 gatttttacg tgccaagaca ggagcccatg ttcaggtgga tgaggttttc tgacttgagc
5041 acgtgggagg gcgatcgcaa tctggctccc aattttgtga atgaagatgg cgtcgagtga
5101 cgccaaccca tctgatgggt ccgcagccag cctcgtacca gaggtcaaca atgaggttat
5161 ggctttggag cccgttgttg gtgccgctat tgcggcacct gtagcgggcc aacaaaatgt
5221 aattgacccc tggattagaa ataattttgt acaagcccct ggtggggagt ttacagtatc
5281 ccctagaaat gctccaggtg aaatactatg gagcgcgccc ctaggccctg acctaaatcc
5341 ctacctatcc cacttggcca gaatgtacaa tggttatgca ggtggctttg aagtgcaagt
5401 aattctcgcg gggaacgcgt tcaccgctgg gaagattata tttgcagcaa tcccaccaaa
5461 ttttccaact gaaggcttaa gccctagcca ggtcactatg ttcccccaca taatagtaga
5521 tgttagacaa ttggaacctg tgctgatccc cttacccgat gttaggaata atttctatca
5581 ttacaatcag tcaaatgact ccactattaa gttgatagca atgttgtaca caccacttag
5641 ggctaataat gctggagatg atgttttcac agtctcgtgc cgagttctca cgagaccatc
5701 ccccgatttt gatttcatat tcttagtacc acccacagtt gagtcaagaa ctaaaccatt
5761 ctccgtccca gttttaactg ttgaggagat gaccaattca agattcccta tccctttgga
5821 aaagttgttc acaggtccca gtagtgcatt tgttgttcaa ccacaaaacg gcagatgcac
5881 aactgatggc gtgctcctag gcaccaccca actttctcct gtcaacatct gcaccttcag
5941 aggggatgtc acccacatca caggtagtca caacttcact atgaatttgt cttctcaaaa
6001 ttggaataac tacgacccaa cagaagaaat cccagctccc ctaggaactc cagattttgt
6061 ggggaagatt caaggcatgc tcacccaaac cacaaggaca gatggttcaa cacgcggcca
6121 caaagctaca gtgtacactg ggagcgccga ctttgctcca aaactgggta gagttcaatt
6181 tgaaactgac acaaaccatg attttgaagc taatcaaaac acaaagttca ccccagtcgg
6241 tgttatccaa gatggtagca ccacccaccg aaacgaaccc caacagtggg tgcttccaag
6301 ttactcaggc agaaataccc acaatgtaca tttggccccc gctgtagccc ccacctttcc
6361 gggtgagcaa cttctcttct ttagatctac catgcccgga tgtagcgggt accccaacat
6421 ggatttggac tgtctgctcc cccaggaatg ggtgcagtat ttctaccaag aggcagcccc
6481 agcacaatct gacgtggctc tgctaagatt tgtgaaccca gacacaggta gggttttgtt
6541 tgagtgcaag cttcacaaat caggttatgt tacagtggct cacactggcc aacatgattt
6601 ggttatcccc cccaatggtt actttaggtt tgattcctgg gtcaaccagt tctacacgct
6661 tgcccccatg ggaaatggaa cggggcgtag acgtgcagta taatggctgg agctttcttt
6721 gctgggttgg catctgatgt ccttggctct ggacttggtt cccttatcaa tgctggggct
6781 ggggccatca accaaaaagt tgagtttgaa aataacagaa aattgcaaca agcatccttc
6841 caatttagca gcaatttgca acaggcttcc tttcaacatg ataaagagat gctccaagca
6901 caaatcgagg ccaccaaaaa gctacaacag gaaatgatga gagttaagca ggcaatgctc
6961 ctagagggtg ggttctctga gacagatgcg gcccgcgggg caattaacgc ccccatgaca
7021 aaggctttgg actggagcgg gacaaggtac tgggctccag atgctagaat tacaacatac
7081 aatgcaggcc acttttccac tcctcaacca tcgggggcac tgccaggaag agctaatttt
7141 agggatgctg tccctgctcg gggaccctcc accagacctt ctaactcctc tactgccacc
7201 tctgtgtatt caaatcaaac tatttcaacg agacttggtt ctacagctgg ttctggaacc
7261 agtgtctcga gcctcccgtc aactgcaagg actaggagct gggttgagga tcaaaatagg
7321 aatttgtctc cttttatgag gggggcccac aacatatcat ttgtcacccc accatctagc
7381 agatcctcta gccaaggcac agtctcaacc gtgcctaaag aaattttgga ctcctggact
7441 ggcgctttca acacgcgcag gcagcctctc ttcgctcaca ttcgtaagcg aggggagtca
7501 cgggtgtaat gtgaaaagac aaaa
//