Typing tool
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Typing tool
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Complete norovirus genomes
| PQ195943 | GII.4 Sydney | |
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| GII.P16 |
ORF1: 1..5100
ORF2: 5081..6703
ORF3: 6703..7509
LOCUS PQ195943 7524 bp RNA linear VRL 01-JAN-2025
DEFINITION Norovirus GII isolate Hu/GII.4 Sydney[P16]/Summit0004/2022/USA
nonstructural polyprotein (ORF1), VP1 (ORF2), and VP2 (ORF3) genes,
complete cds.
ACCESSION PQ195943
VERSION PQ195943.1
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JOURNAL Unpublished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]/Summit0004/2022/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[P16]"
gene 1..5100
/gene="ORF1"
CDS 1..5100
/gene="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="XEJ39141.1"
/translation="MKMASNDASAAVACNNNNDKEKSSGEGLFTNMSSTLKKALGARP
KQPAPRDEPQKPPRPPTPELVKRIPPPPPNGEEEQEPVIRYEVKSGISGLPDLTTVPQ
PDVANTAFSVPPLSLRENREAKEPLTGAILEMWDGEIYHYGLYVEKGLVLGVHKPPAA
ISMARVELTPLSLYWRVVYTPQYLISPETLRRLNGEVFPYTAFDNNCYAFCCWVLDLN
DSWLSRRMVQRTTGFFRPYQEWNRKPLPTMDDSKIKKVANIFLCSLSTLFTRPIKDLI
GKIKPLNILNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGP
EDLAVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWF
FPKKEEANELAMVRAIEDAVLDLEAIENNHMTTLLKDKDSLATYMKTLDMEEEKARRL
STKSASPDIVGTINALLARIAAARSLVHRAKEELSSRIRPVVVMISGKPGIGKTHLAR
EVARKVASTLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRIQELAD
TCPLTLNCDRIENKGKVFDSEVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEV
EKAKRDFPGQPDMWKDAFKPDFSHIKLQLAPQGGFDKNGNTPHGKGVMKTLTTGSLIA
RASGLLHERMDEFELQGPTITTFNFDRNRITAFRQLAAENKYGLMDTMKVGNQLKGVK
TMEELKQAIRNVTIKRCRIIYGGSTYDLESDGKGKVLVERVKNTSVQTNNELAGALHH
LKHARIRYYVKCVQEVIYSIIQIAGAAFVTTRIARRMNIQELWSKPQLDQNESETKEE
APKLEDDEFIISSKDIKEEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNG
KYSIEEYLQDRDRYYEELAIAKATEEDFCEEEEIKIRQRIFRPTRKQRKEERATLGLV
TGSEIRKRNPDDFKPKGKLWADDNRSVDYNEKLDFEAPPSIWSRIVSFGSGWGFWVSP
SLFITSTHVIPAGITEAFGVPIKQIQIHKSGEFCRFRFPKPIRPDVTGMILEEGAPEG
TVATVLIKRPTGELMPLAARMGTHATMKIQGRMVGGQMGMLLTGSNAKGMDLGTTPGD
CGCPYIYKRGNDYIVIGVHTAAARGGNTVICATQGSEGEATLEGGDDKGTYCGAPILG
PGGAPKLSTKTKFWRSSNTPLPPGTYEPAYLGGRDPRVKGGPSLQQVMRDQLKPFTEP
RGKPPRPSVLEAAKQTIINVLEQTLDPPQKWTYAQACASLDKTTSSGHPHHARKNEFW
NGDTFTGKLADQASKANLMFEEGKHMTPVYTAALKDELVKTEKIYGKIKKRLLWGSDL
STMIRCARSFGGLMDEMKAHCISLPVRVGMNMNEDGPIIFEKHSRYKYHYDADYSRWD
STQQRAVLAAALEIMVRFSAEPQLAQIVAEDLLAPSVVDVGDFKVTINEGLPSGVPCT
SQWNSIAHWLLTLCALSEVTKLSPDIIQANSMFSFYGDDEIVSTDIKLDPEQLTAKLR
EYGLKPTRPDKTEGPLIISEDLNGLTFLRRTVTRDPAGWFGKLDQSSILRQMYWTRGP
NHEDPNETMIPHSQRPIQLMALLGEASLHGPSFYSRISKLVITELKEGGMDFYVPRQE
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="XEJ39142.1"
/translation="MKMASNDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ
QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
FEVQVILAGNAFTAGKIIFAAVPPNFPTEGLSPSQVTMFPHIIVDVRQLEPVLIPLPD
VRNNFYHYNQSNDSTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT
QLSPVNICTFRGDVTHITGSHNYTMNLASQNWNNYDPTEEIPAPLGTPDFVGKIQGML
TQTTRTDGSTRGHKATVYTGSADFAPKLGRVQFETDTNHDFEANQNTKFTPVGVIQDG
STTHRNEPQQWVLPSYSGRNTHNVHLAPAVAPTFPGEQLLFFRSTIPGCSGYPNMDLD
CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHNGQHDLV
IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRVV"
gene 6703..7509
/gene="ORF3"
CDS 6703..7509
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="XEJ39143.1"
/translation="MAGAFFAGLASDVLGSGIGSLINAGAGAINQKVEFENNRKLQQA
SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQEMMKVKQAMLLEGGFSETDAARGAIN
APMTKTLDWSGTRYWAPDARITTYNAGHFSAPQPSRTLPGRANLRDAVPARGPSIKSS
NSSTTTSVYSNQTISTRLGSTAGSGTSVSSLPSTARTRSWVEDQNRNLSPFMRGAHNI
SFVTPPSSRSSSQGTVSTVPKEILDSWTGAFNTRRQPLFAHIRKRGESRV"
ORIGIN
1 atgaagatgg cgtctaacga cgcttccgct gccgttgctt gcaacaacaa caacgacaag
61 gaaaaatctt caggtgaagg cttatttaca aatatgtctt ccaccttaaa gaaagccctc
121 ggggctaggc ccaaacagcc tgccccgaga gacgaaccac agaagccacc aagaccacca
181 actcccgagt tggtcaagag gataccccct cctccaccta atggcgaaga agaacaagaa
241 ccagtcatta ggtatgaggt taagagcggg atctctggcc tgcccgatct cacaacagtc
301 ccccagccgg acgtggccaa cacagcattc agtgttccac cactgagctt gagagaaaac
361 agggaggcca aggaaccgtt aacaggggca atattagaga tgtgggacgg agagatatac
421 cactatggcc tgtacgtgga gaaaggctta gtgttgggtg tgcacaaacc acctgcagcc
481 ataagcatgg caagagtgga gctgacgccg ctgtcattgt actggcgcgt ggtgtacact
541 ccccaatacc tcatctcccc tgaaactctc aggaggctca acggagaggt gtttccttac
601 accgccttcg acaacaactg ctacgccttt tgctgctggg tgctagacct caatgactca
661 tggcttagca ggaggatggt gcaaagaaca acgggcttct tcagacctta ccaagagtgg
721 aacagaaaac ccctgcctac catggatgac tccaaaataa agaaggtagc aaatatattc
781 ttatgttcat tgtccacatt attcaccaga cccataaaag acctcatagg aaaaatcaaa
841 ccattaaaca tattgaacat cctggcaacg tgtgactgga cgtttgccgg aatagtggag
901 tctctgatat tacttgccga actcttcgga gttttctgga cacccccaga tgtgtctgct
961 atgatcgctc ccttactcgg ggactacgag ttgcaaggac cagaagatct cgccgttgaa
1021 ctcgtacctg tggtgatggg agggattggc ttggtgttgg gattcaccaa agagaaaatt
1081 ggcaaaatgt tgtcctcggc agcatcaaca ctcagggctt gcaaagatct tggcgcctat
1141 ggcttagaga tacttaaatt ggtcatgaag tggtttttcc caaagaaaga ggaggccaat
1201 gagctagcca tggtgagggc catagaggat gccgtactgg atcttgaggc aatagaaaat
1261 aaccacatga caaccctgtt gaaagacaaa gacagcttag caacatacat gaagacactg
1321 gacatggagg aggagaaagc cagaaggctg tccacaaaat ctgcatcccc tgacatagtt
1381 gggacaatta acgccctgct ggctcgaata gcagcggcca gatcattagt ccatagggcc
1441 aaggaagagt tatctagcag gataagacca gtagtcgtta tgatatctgg caaaccagga
1501 ataggcaaaa ctcatctggc cagggaggtg gcaagaaaag tggcatccac tcttacaggg
1561 gatcaaagag tcggactcat accaagaaac ggtgtggacc attgggatgc atacaaagga
1621 gagagagtcg tgttatggga cgactatggc atgagtaacc ccattcatga tgctcttcgc
1681 atacaagaat tggctgacac ctgtcccctt accttaaatt gtgacagaat tgaaaataag
1741 ggaaaagttt ttgacagtga ggtcataata attacaacaa accttgccaa cccagcccca
1801 cttgactatg tcaactttga agcctgttcc aggagaattg atttcctggt gtacgctgag
1861 gcaccagaag tagaaaaggc aaaacgggat ttccctggtc aaccagatat gtggaaggac
1921 gcttttaagc cggacttttc acacatcaaa ctacagcttg cacctcaggg cggctttgac
1981 aagaatggca acaccccaca tgggaaagga gtgatgaaga ccctcactac cggttctctg
2041 attgcccgtg catcaggcct actgcatgag aggatggatg aatttgagct ccaaggtccc
2101 acaatcacca cttttaattt cgaccggaac agaatcacag cattcagaca attggctgca
2161 gaaaacaagt atggattgat ggataccatg aaagttggca atcaactaaa aggagtgaaa
2221 accatggaag aactcaaaca agcaatcagg aacgtgacca tcaagaggtg ccgaatcatc
2281 tacggcggct ccacgtatga ccttgaatct gatggcaagg gcaaagtttt ggtggaaagg
2341 gtcaagaaca cctctgtaca gaccaacaac gagttggccg gggccctgca ccatctcaaa
2401 cacgcccgaa tcaggtacta cgttaaatgt gtgcaagagg taatctactc catcatacaa
2461 attgccggcg ccgcgtttgt caccacacgc attgcacgcc gcatgaacat acaagaactc
2521 tggtcgaagc cacaattaga tcaaaatgaa tcagagacca aggaagaggc ccccaagtta
2581 gaagatgatg agttcatcat atcttctaag gacatcaagg aggaaggaaa gaagggcaaa
2641 aacaaaactg gccgtggcaa gaaacatact gcattctcca gcaagggctt gagcgatgag
2701 gagtatgacg agtacaagag gataagagaa gagagaaatg ggaagtactc tatagaggag
2761 tatcttcaag acagagacag gtactatgaa gagctcgcca ttgccaaggc cacggaagaa
2821 gacttctgtg aagaggagga gatcaaaatc cgtcagagaa ttttccgtcc caccaggaaa
2881 caaagaaagg aagagagagc cacattagga ctggtgacag gttcagaaat cagaaagaga
2941 aaccccgatg acttcaaacc caaagggaag ctgtgggccg atgacaacag aagtgttgac
3001 tacaatgaga aactggactt tgaggccccc ccaagcatat ggtctaggat tgtaagcttt
3061 ggttctggct ggggcttctg ggtgtcacca agcctgttca taacatcaac ccatgtaatc
3121 cccgcaggca taacagaagc atttggagtc cccatcaaac aaattcagat ccacaaatca
3181 ggtgaatttt gccgattcag gttcccaaaa ccaattagac cagatgtgac aggaatgatc
3241 ttggaagaag gtgcgcctga aggcaccgtg gcaactgtgc tcatcaaacg ccccaccgga
3301 gagctcatgc cccttgcagc cagaatggga acacacgcaa ccatgaaaat tcaaggccgc
3361 atggttggcg gacagatggg tatgttgctc accggatcaa atgctaaagg aatggacttg
3421 ggaacaactc ctggtgactg tggctgccct tacatataca aaaggggcaa tgactatata
3481 gtcattgggg tgcacactgc agcagcccgt ggtggaaaca ccgtcatctg tgccacacag
3541 ggaagtgagg gtgaggcaac tcttgagggt ggagacgaca aaggaacata ctgtggggca
3601 cctattctag gccctggggg tgcgccaaaa ttgagcacca aaaccaaatt ttggaggtca
3661 tcgaacacgc cccttccacc aggaacatat gagcctgcct accttggtgg ccgtgatccg
3721 cgtgttaagg gtgggccctc cttgcagcag gtaatgagag accagttgaa gccattcact
3781 gaacccaggg gcaaaccccc aagaccaagt gttttggaag cagccaaaca aaccattatc
3841 aatgttctcg aacaaaccct agaccctcca caaaaatgga catacgcaca ggcgtgtgcc
3901 tcacttgaca aaaccacctc cagcgggcat ccccatcacg cccgaaagaa tgaattctgg
3961 aatggtgata ccttcactgg caaattggca gaccaagcat caaaagcaaa cctaatgttt
4021 gaggaaggga aacacatgac accagtgtac acagcagcac tcaaggacga gctagtcaag
4081 actgagaaaa tctatggaaa gatcaagaag agactgctct ggggctctga cttgtccacc
4141 atgatccggt gcgctagatc atttggtggg ctcatggacg agatgaaggc acactgcata
4201 tcactcccag tgcgagttgg catgaatatg aatgaagatg gcccaataat atttgagaaa
4261 cattccagat ataagtacca ctatgatgca gactactctc gttgggattc aacacaacag
4321 agggcagtgc tagcagcagc cttagaaatc atggtcagat tctctgcaga accacaattg
4381 gcacaaatag tcgctgagga tctgctggcc cctagtgtag tagatgtagg agacttcaaa
4441 gtcacaataa atgaagggct cccatctggt gtgccatgca cttctcaatg gaactccatc
4501 gcacactggc tgctaactct ctgtgccttg tctgaagtca ccaaactgtc ccctgacatt
4561 atacaagcaa attccatgtt ctcattttac ggtgatgacg agattgtcag caccgacata
4621 aaattggacc ctgagcagtt aaccgccaag ttgagggagt acggcctgaa gccaacccgc
4681 ccagacaaga ccgagggacc cctgatcatc agtgaagact tgaacggact cactttcctc
4741 cgaaggacgg tgactcgtga cccagctggc tggtttggaa aactggatca aagttcaatt
4801 ctgaggcaga tgtactggac tagaggacca aatcatgaag accccaatga gacaatgata
4861 ccccactctc aaagacccat acagctcatg gcactgcttg gtgaagcctc tcttcacgga
4921 ccctctttct acagtagaat cagcaaattg gtcataactg agctcaaaga aggtgggatg
4981 gacttttacg tgccaaggca ggaacccatg ttcaggtgga tgaggttttc tgacttgagc
5041 acgtgggagg gcgatcgcaa tctggctccc aattttgtga atgaagatgg cgtcgaatga
5101 cgccaaccca tctgatgggt ccgcagccaa cctcgtacca gaggtcaaca atgaggtcat
5161 ggctttggag cccgttgttg gtgccgctat tgcggcacct gtagcgggcc aacaaaatgt
5221 aattgacccc tggattagaa ataattttgt acaagcccct ggtggggagt tcacagtatc
5281 ccctagaaac gctccaggtg aaatactatg gagcgcgccc ctaggccctg acctaaatcc
5341 ctacctgtcc catttggcca gaatgtacaa tggttatgca ggtggttttg aagtgcaggt
5401 aattctcgcg gggaacgcgt tcaccgccgg gaagattata tttgcagcag tcccaccaaa
5461 ttttccaact gaaggcctaa gtcctagcca ggtcactatg ttcccccata taatagtaga
5521 tgttagacaa ttagaacctg tgctaattcc cttacccgat gttaggaata atttctatca
5581 ttacaatcaa tcaaatgact ccactattaa gttgatagca atgttgtaca caccacttag
5641 ggctaataat gctggggatg atgttttcac agtttcgtgc cgagtactca cgagaccatc
5701 ccccgatttt gatttcatat ttttagtgcc acccacagtt gagtcaagaa ctaaaccatt
5761 ttctgtccca gttttaactg ttgaggagat gaccaattca agattcccca tccctttgga
5821 aaagctgttc acaggcccca gcagtgcctt tgttgttcaa ccacaaaacg gcagatgtac
5881 aactgatggt gtgctcctag gtaccaccca actttctcct gtcaacatct gcaccttcag
5941 aggggatgtc acccacatca caggtagcca caactataca atgaatttgg cttctcaaaa
6001 ttggaacaac tatgacccaa cagaagaaat cccagcccct ctaggaactc cagattttgt
6061 ggggaagatt caaggcatgc tcactcaaac cacaaggaca gatggttcaa cacgtggcca
6121 caaagctaca gtgtacactg ggagcgccga ctttgctcca aaactgggta gagttcaatt
6181 tgaaactgac acaaaccatg attttgaagc taaccaaaac acaaagttca ccccagtcgg
6241 tgttatccaa gatggcagca ccacccaccg aaacgaaccc caacagtggg tgctcccaag
6301 ttactcaggt agaaatactc acaatgtaca tttggccccc gctgtagccc ccacctttcc
6361 gggtgagcaa cttctcttct tcagatccac catacccgga tgcagtgggt accccaacat
6421 ggatttggac tgtctgctcc cccaggaatg ggtgcagtac ttctaccaag aagcagcccc
6481 agcacaatct gatgtggctc tgctaagatt tgtgaatcca gacacaggta gggttttgtt
6541 tgagtgcaag cttcacaaat caggctatgt tacagtggct cacaatggcc aacatgattt
6601 ggttatcccc cccaatggct actttaggtt tgattcctgg gtcaaccaat tctacacgct
6661 tgcccccatg ggaaatggaa cggggcgtag acgtgtggta taatggctgg agctttcttt
6721 gctggattgg catctgatgt ccttggctct ggaattggtt cccttatcaa tgctggggct
6781 ggggccatca accaaaaagt tgagtttgaa aataacagaa aattgcaaca agcatccttc
6841 caatttagca gcaacttgca acaggcttct tttcaacatg ataaagagat gctccaagca
6901 caaattgagg ccaccaaaaa gctacaacag gaaatgatga aagttaagca ggcaatgctc
6961 ctagagggtg ggttttctga gacagatgca gcccgcgggg caattaacgc ccccatgaca
7021 aaaactttgg actggagcgg gacaaggtat tgggctccag atgctagaat tacaacatac
7081 aatgcaggcc acttttccgc ccctcaacca tcgaggacac tgccaggaag agctaacctt
7141 agggatgctg tccccgctcg gggaccctcc attaaatctt ctaactcttc tactactacc
7201 tctgtgtact caaatcaaac catttcaacg agacttggtt ctacagctgg ttctggaacc
7261 agtgtctcga gcctcccgtc aactgcaagg actaggagct gggttgaaga tcaaaatagg
7321 aatttgtcac ccttcatgag gggggcccac aacatatcat ttgtcacccc accatctagc
7381 agatcctcta gccaaggcac agtctcaacc gtgcctaaag agattttgga ctcctggact
7441 ggcgctttca acacgcgcag gcagcctctc ttcgctcaca tccgtaagcg aggggagtca
7501 cgggtgtaat gtgaaaagac aaaa
//