Typing tool
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Typing tool
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Complete norovirus genomes
| PQ195911 | GII.4 Sydney | |
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| GII.P16 |
ORF1: 1..5100
ORF2: 5081..6703
ORF3: 6703..7503
LOCUS PQ195911 7518 bp RNA linear VRL 01-JAN-2025
DEFINITION Norovirus GII isolate Hu/GII.4 Sydney[P16]/Hancock0047/2022/USA
nonstructural polyprotein (ORF1), VP1 (ORF2), and VP2 (ORF3) genes,
complete cds.
ACCESSION PQ195911
VERSION PQ195911.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norovirus norwalkense.
REFERENCE 1 (bases 1 to 7518)
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JOURNAL Unpublished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 7518)
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..7518
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="Hu/GII.4 Sydney[P16]/Hancock0047/2022/USA"
/isolation_source="stool"
/host="Homo sapiens"
/db_xref="taxon:122929"
/geo_loc_name="USA"
/collection_date="28-Feb-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="XEJ39045.1"
/translation="MKMASNDASAAVACNNNNDKEKSSGEGLFTNMSSTLKKALGARP
KQPAPRGEPQKPPRPPTPELVKRIPPPPPNGEEEEEPVIRYEVKSGISGLPELTTVPQ
PDVANTAFSVPPLSLRENREAKEPLTGAILEMWDGEIYHYGLYVEKGLVLGVHKPPAA
ISMARVELAPLSLYWRVVYTPQYLISPETLRRLNGEAFPYTAFDNNCYAFCCWVLDLN
DSWLSRRMVQRTTGFFRPYQEWNRKPLPTMDDSKIKKVANIFLCSLSTLFTRPIKDLI
GKIKPLNILNILATCDWTFAGIVESLILFAELFGVFWTPPDVSAMIAPLLGDYELQGP
EDLAVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWF
FPKKEEANELAMVRAIEDAVLDLEAIENNHMTTLLKDKDSLATYMKTLDMEEEKARRL
STKSASPDIVGTINALLARIAAARSLVHRAKEELSSRIRPVVVMISGKPGIGKTHLAR
EVARKVASTLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRIQELAD
TCPLTLNCDRIENKGKVFDSEVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEV
EKAKRDFPGQPDMWKDAFKPDFSHIKLQLAPQGGFDKNGNTPHGKGVMKTLTTGSLIA
RASGLLHERMDEFELQGPTITTFNFDRNRITAFRQLAAENKYGLVDTMKVGNQLKGVK
TMEELKQAIRNVTIKRCRIIYGGSTYDLESDGKGKVLVEKVKNTSIQVNNELAGALHH
LKHARIRYYVKCVQEAVYSIIQIAGAAFVTTRIARRMNIQELWSKPQLDQNESETKEE
APKPEDDEFIISSKDIKEEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNG
KYSIEEYLQDRDRYYEELAIAKATEEDFCEEEEIKIRQRIFRPTRKQRKEERATLGLV
TGSEIRRRNPDDFKPKGKLWADDNRSVDYNEKLDFEAPPSIWSRIVSFGSGWGFWVSP
SLFITSTHVIPAGITEAFGVPIKQIQIHKSGEFCRFRFPKPIRPDVTGMILEEGAPEG
TVATVLIKRPTGELMPLAARMGTHATMKIQGRMVGGQMGMLLTGSNAKGMDLGTTPGD
CGCPYIYKRGNDYIVIGVHTAAARGGNTVICATQGSEGEATLEGGDDKGTYCGAPILG
LGGAPKLSTKTKFWRSSNTPLPPGTYEPAYLGGRDPRVKGGPSLQQVMRDQLKPFTEP
RGKPPRPSVLEAAKQTIINVLEQTLDPPQKWTYAQACASLDKTTSSGHPHHVRKNEFW
NGETFTGKLADQASKANLMFEEGKHMTPVYTAALKDELVKTEKIYGKIKKRLLWGSDL
STMIRCARSFGGLMDEMKAHCISLPVRVGMNMNEDGPIIFEKHSRYKYHYDADYSRWD
STQQRAVLAAALEIMVRFSAEPQLAQIVAEDLLAPSVVDVGDFKITINEGLPSGVPCT
SQWNSIAHWLLTLCALSEVTKLSPDIIQANSMFSFYGDDEIVSTDIKLDPEQLTAKLK
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="XEJ39046.1"
/translation="MKMASSDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ
QNVIDPWIRSNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
FEVQVILAGNAFTAGKIIFAAVPPNFPTEGLSPSQVTMFPHIIVDVRQLEPVLIPLPD
VRNNFYHYNQSNDSTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFSVPILTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT
QLSPVNICTFRGDVTHITGSHNFTMNLASQNWNNYDPTEEIPAPLGTPDFVGKIQGML
TQTTRTDGSTRGHKATVYTGSADFAPKLGRVQFETDTNHDFEANQNTKFTPVGVIQDG
STTHRNEPQQWVLPSYSGRNTHNVHLAPAVAPTFPGEQLLFFRSTIPGCSGYPNMDLD
CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV
IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRAV"
gene 6703..7503
/gene="ORF3"
CDS 6703..7503
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="XEJ39047.1"
/translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA
SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQEMMKVKQAMLLEGGFSETDAARGAIN
APMTKALDWSGTRYWAPDARITTYNAGHFSTPQPSGALPGRARDAAPARGPSTKPSNS
STATSVYSNQTISTRLGSTAGSGTSVSSFPSTARTRSWVEDQNRNLSPFMRGAHNISF
VTPPSSRSSSQGTVSTVPKEILDSWTGAFNTRRQPLFAHIRKRGESRV"
ORIGIN
1 atgaagatgg cgtctaacga cgcttccgct gccgttgctt gcaacaacaa caacgacaag
61 gaaaaatctt caggtgaagg cttattcaca aatatgtctt ccaccttaaa gaaagccctc
121 ggggctaggc ccaaacagcc tgccccgaga ggtgaaccac aaaaaccccc aagaccacca
181 actcccgagt tggtcaagag gataccccct cctccaccta atggcgaaga agaagaagaa
241 ccagtcatta ggtatgaggt taagagtggg atctctggcc tgcccgagct cacaacagtc
301 ccccaaccgg acgtggccaa cacagcattt agtgttccac cactgagctt gagagaaaac
361 agggaggcca aggaaccgct gacaggggca atactagaga tgtgggacgg agagatatac
421 cactatggcc tgtacgtgga gaaaggctta gtgttgggtg tgcataaacc acctgcagcc
481 ataagcatgg caagagtgga gctggcgccg ctgtcattgt actggcgtgt ggtgtacact
541 ccccaatacc tcatctcccc tgagactctc aggaggctca atggagaggc gtttccttac
601 accgcttttg acaacaactg ctacgctttt tgctgctggg tgttagacct caatgattca
661 tggcttagca ggaggatggt gcaacgaacc acgggcttct tcaggcctta ccaagagtgg
721 aacagaaaac ccttacccac catggatgac tccaaaataa agaaggtagc aaatatattc
781 ctatgttcat tgtccacatt attcaccagg cccataaaag acctcatagg aaaaattaaa
841 ccattaaaca tattgaacat cctggcaacg tgtgattgga cgtttgccgg aatagtggag
901 tctctgatat tgtttgccga actctttgga gttttctgga cacccccaga tgtgtctgct
961 atgatcgctc ccttacttgg ggactacgag ttgcaggggc cagaagacct cgccgttgaa
1021 ctcgtacctg tggtaatggg agggattggt ttggtgttgg gattcaccaa agagaaaatc
1081 ggcaaaatgt tgtcctcagc agcatcaaca ctcagggctt gtaaagatct tggtgcctat
1141 ggcttagaga tactcaaatt ggtcatgaag tggtttttcc caaagaaaga agaggccaat
1201 gagctagcta tggtgagggc catagaggat gccgtactag atcttgaggc aatagaaaac
1261 aaccacatga caaccctgtt gaaagacaaa gacagcttag caacatacat gaaaacactg
1321 gacatggagg aggagaaagc cagaaggttg tccacaaaat ctgcatcccc tgacatagtt
1381 gggacaatca acgccctgct ggctcgaata gcagcagcca ggtcattagt ccacagggcc
1441 aaggaagaac tgtctagcag gataaggcca gtagttgtta tgatatctgg caaaccagga
1501 ataggcaaaa ctcatctagc cagagaggtg gcaagaaagg tggcatccac tctcacaggg
1561 gatcaaagag tcggactcat accaagaaac ggtgtggacc attgggatgc atacaaaggt
1621 gagagagtcg tgctgtggga cgactatggc atgagtaacc ccattcatga tgctctccgc
1681 atacaagaat tggctgatac gtgtcccctt accttaaatt gcgacagaat tgaaaataag
1741 gggaaagttt ttgacagtga agtcataata attacaacaa acctcgccaa cccagcccca
1801 cttgattacg tcaactttga ggcctgctcc aggagaattg atttcctggt gtacgctgag
1861 gcaccagaag tagaaaaggc aaaacgggat tttcctggtc agccagatat gtggaaggac
1921 gccttcaagc cggacttttc gcacatcaag ctacagcttg cacctcaggg cggctttgac
1981 aagaatggca acaccccaca tgggaaagga gtgatgaaga ccctcactac cggttctctg
2041 attgcccgtg catcaggcct actgcatgag aggatggatg aatttgaact ccaaggtccc
2101 acaatcacca ctttcaattt cgaccggaac agaatcacag cattcagaca attggctgca
2161 gaaaacaagt atggactggt ggacaccatg aaagttggca atcaactaaa aggagtgaaa
2221 accatggaag aactcaaaca agcaatcagg aatgtgacca tcaagaggtg ccggatcatc
2281 tacggtggct ccacgtatga ccttgaatct gatggcaagg gcaaagtttt ggtggaaaag
2341 gtcaagaaca cctctataca ggtcaacaac gagttggccg gggccctgca tcatctcaaa
2401 catgcccgaa tcaggtacta tgtcaaatgt gtgcaagaag cagtctattc catcatacaa
2461 attgccggcg ctgcgtttgt caccacgcgc attgcacgcc gcatgaacat acaagagctc
2521 tggtcgaagc cacaattaga tcaaaatgaa tcagagacta aggaggaggc ccccaagcca
2581 gaagatgacg agttcatcat atcttctaag gatatcaagg aggaaggaaa gaagggcaag
2641 aacaaaactg gccgtggcaa gaaacacacc gcattctcca gcaagggctt aagcgatgag
2701 gagtatgacg agtacaagag gataagagaa gagagaaatg ggaagtactc tatagaagag
2761 tatcttcaag acagagacag gtattatgag gagctcgcca ttgccaaggc cacggaagaa
2821 gacttctgtg aagaggagga gatcaaaatc cgtcagagaa ttttccgtcc caccaggaaa
2881 caaagaaagg aagagagggc cacactaggg ctagtaacag gttcagaaat cagaagaaga
2941 aaccctgatg atttcaaacc caaagggaag ctgtgggccg atgacaacag aagtgttgac
3001 tacaacgaga aactggattt tgaggccccc ccaagcatat ggtctaggat tgtgagcttt
3061 ggttctggct ggggcttctg ggtatcacca agcctgttca taacatcaac tcatgtgatc
3121 cctgcaggca taacagaagc attcggagtc cccatcaaac agattcagat ccacaaatca
3181 ggtgaatttt gccgattcag attcccaaaa ccaatcagac cagatgtgac aggaatgatc
3241 ttggaagaag gtgcgcctga aggcaccgtg gcaactgtac tcatcaaacg ccccaccgga
3301 gagctcatgc ctcttgcagc cagaatggga acacacgcaa ccatgaagat tcaaggccgc
3361 atggttggtg gacagatggg tatgctgctc actggatcaa atgctaaagg gatggatttg
3421 ggaacaactc ctggtgactg tggctgccct tacatctata aaaggggcaa tgactatata
3481 gtcattgggg tgcacaccgc agcagcccgt ggtggaaaca ccgtcatctg tgccacacag
3541 ggaagtgagg gtgaggcaac tcttgaggga ggagatgaca aaggaacata ctgtggggca
3601 cccattctag gccttggggg tgcaccaaaa ttgagcacta aaaccaaatt ttggagatca
3661 tcgaacacgc cccttccacc agggacgtac gaacctgcct acctcggtgg ccgtgacccg
3721 cgtgttaagg gtgggccctc attacaacag gtaatgagag accagttgaa gccattcact
3781 gaacccaggg gcaaacctcc aagaccaagt gttttggaag cagccaaaca aaccattatc
3841 aatgtccttg aacaaaccct ggatcctcca caaaagtgga catacgcaca ggcgtgtgcc
3901 tcacttgaca aaaccacctc cagcgggcat ccccaccatg tccgaaagaa tgaattctgg
3961 aatggtgaga ccttcactgg taaattggca gaccaagcat caaaagcaaa cctaatgttt
4021 gaggaaggga aacacatgac accagtgtac acagcagcac tcaaggacga gctagtcaag
4081 actgagaaaa tctatggaaa gatcaagaag agactgctct ggggctctga cttgtccacc
4141 atgatccggt gcgctaggtc atttggtggg ctcatggacg agatgaaggc acactgcata
4201 tcactcccag tacgagttgg catgaatatg aatgaagatg gcccaataat atttgagaaa
4261 cattccaggt acaaatatca ctatgatgca gactactctc gttgggattc aacacagcag
4321 agggcagtat tagcagcagc cttggaaatt atggtcagat tctctgcaga accacaattg
4381 gcacaaatag tcgctgagga tctactggcc cctagtgtag tagatgtagg agactttaaa
4441 attacaataa atgaagggct cccatctggc gtgccatgca cttctcaatg gaactccatt
4501 gcacactggc tgctaactct ctgtgccttg tctgaagtca ccaaactgtc ccctgacatt
4561 atacaagcaa attccatgtt ctcattttac ggtgatgacg agattgtcag caccgacata
4621 aaattggacc ctgaacagtt gaccgccaag ttgaaggagt acggcctgaa accaacccgc
4681 ccagacaaga ccgagggacc tctgattatc agtgaagatt taaacggact cactttcctc
4741 cgaaggacgg tgactcgtga cccagctggc tggtttggaa aactggacca aagttcaatt
4801 ttgaggcaga tgtactggac tagaggacca aatcatgaag accccaatga gacaatgata
4861 ccccattctc agaggcccat acagctcatg gcactgcttg gtgaagcctc tcttcacgga
4921 ccctctttct acagtagaat cagtaaattg gtcataactg aacttaaaga aggtgggatg
4981 gacttttacg tgccaaggca ggaacccatg ttcaggtgga tgagattctc tgacttgagc
5041 acgtgggagg gcgatcgcaa tctggctccc aactttgtga atgaagatgg cgtcgagtga
5101 cgccaaccca tctgatgggt ccgcagccaa cctcgtacca gaggtcaaca atgaggttat
5161 ggctttggag cccgttgttg gtgccgctat tgcggcacct gtagcgggcc aacaaaatgt
5221 aattgacccc tggattagaa gtaattttgt acaagctcct ggtggggagt ttacagtatc
5281 ccctagaaat gctccaggtg aaatactatg gagcgcgccc ctaggtcctg acctaaatcc
5341 ctacctatcc catttggcca gaatgtacaa tggttatgca ggtggttttg aagtgcaggt
5401 aattctcgcg gggaacgcgt tcaccgccgg gaagattata tttgcagcag tcccaccaaa
5461 tttcccaact gaaggcttaa gccctagtca ggtcactatg tttccccata taatagtaga
5521 tgttagacaa ttggaacctg tgctgatccc cttacccgat gttaggaata acttctatca
5581 ttacaatcag tcaaatgact ccactattaa gttgatagca atgttgtaca caccacttag
5641 ggctaataat gctggagatg atgttttcac agtttcgtgc cgagttctca cgagaccatc
5701 ccccgatttt gatttcatat tcttagtacc acccacagtt gagtcaagaa ctaaaccatt
5761 ctctgtccca attttaactg ttgaggagat gaccaattca agattcccca tccctttgga
5821 aaagttgttc acaggcccca gcagtgcatt tgttgttcaa ccacaaaacg gcagatgcac
5881 aactgatggc gtgctcctag gcaccaccca actttctcct gtcaacatct gcaccttcag
5941 aggggacgtc actcatatca caggtagcca caacttcact atgaatttgg cttctcaaaa
6001 ttggaacaac tatgacccaa cagaagaaat cccagccccc ctaggaactc cagattttgt
6061 ggggaagatc caaggcatgc tcacccaaac cacaaggaca gatggttcaa cacgcggcca
6121 caaagctaca gtgtacactg ggagtgccga ctttgctcca aaactgggta gagttcaatt
6181 tgaaactgac acaaaccatg actttgaagc taatcaaaac acaaagttca ccccagtcgg
6241 tgtcattcaa gatggtagca ccacccaccg aaacgaaccc caacagtggg tgcttccaag
6301 ttactcaggc agaaatactc acaatgtaca tttggccccc gctgtagccc ccacctttcc
6361 gggtgagcaa ctcctcttct tcagatccac catacccgga tgcagcgggt accccaacat
6421 ggatttggac tgtctgctcc cccaggaatg ggtgcagtac ttctaccaag aggcagcccc
6481 agcacaatct gatgtggctc tgctaagatt tgtgaatcca gacacaggta gggttctgtt
6541 tgagtgcaag cttcacaaat caggctatgt tacagtggct cacactggcc aacatgattt
6601 ggttatcccc cccaatggtt actttaggtt tgattcctgg gtcaaccagt tctacacgct
6661 tgcccccatg ggaaatggaa cggggcgtag acgtgcagta taatggctgg agctttcttt
6721 gctggattgg catctgatgt ccttggctct ggacttggtt cccttatcaa tgctggggct
6781 ggggccatca accaaaaagt tgagtttgaa aataacagaa aattgcaaca agcatccttc
6841 caatttagca gcaatttgca acaggcttcc tttcaacatg ataaagagat gctccaagca
6901 caaattgagg ccaccaaaaa gctacagcag gaaatgatga aagttaagca ggcaatgctc
6961 ctagagggtg ggttctctga gacagatgca gcccgcgggg caattaacgc ccccatgaca
7021 aaggctttgg actggagcgg gacaaggtac tgggctccag atgctagaat tacaacatac
7081 aatgcaggcc acttttccac ccctcaacca tcgggggcat tgccaggaag agctagggat
7141 gctgcccctg ctcgtggacc ctccaccaaa ccttctaact cttctactgc cacctctgtg
7201 tactcaaatc aaactatttc aacgagactt ggttctacag ctggttctgg aaccagtgtc
7261 tcgagtttcc cgtcaactgc aagaactagg 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 taaagtgaaa agacaaaa
//