Typing tool
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Typing tool
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Complete norovirus genomes
| PQ195920 | GII.4 Sydney | |
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| GII.P16 |
ORF1: 1..5100
ORF2: 5081..6703
ORF3: 6703..7509
LOCUS PQ195920 7524 bp RNA linear VRL 01-JAN-2025
DEFINITION Norovirus GII isolate Hu/GII.4 Sydney[P16]/Mahoning0040/2022/USA
nonstructural polyprotein (ORF1), VP1 (ORF2), and VP2 (ORF3) genes,
complete cds.
ACCESSION PQ195920
VERSION PQ195920.1
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JOURNAL Unpublished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]/Mahoning0040/2022/USA"
/isolation_source="stool"
/host="Homo sapiens"
/db_xref="taxon:122929"
/geo_loc_name="USA"
/collection_date="24-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="XEJ39072.1"
/translation="MKMASNDASAAVACNNNNDKEKSSGEGLFTNMSSTLKKALGARP
KQPAPRDKPQKPPRPPTPELVKRIPPPPPNGEEEQEPVIRYEVKSGISGLPELTTVPQ
PDVANTAFSVPPLSLRENREAKEPLTGAILEMWDGEIYHYGLYVEKGLVLGVHKPPAA
ISMARVELTPLSLYWRVVYTPQYLISPETLRRLNGEAFPYTAFDNNCYAFCCWVLDLN
DSWLSRRMVQRTTGFFRPYQEWNRKPLPTMDDSKIKKVANIFLCSLSTLFTRPIKDLI
GKIKPLNILNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGP
EDLAVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWF
FPKKEEANELAMVRAIEDAVLDLEAIENNHMTTLLKDKDSLATYMKTLDMEEEKARRL
STKSASPDIVGTINALLARIAAARSLVHRAKEELSSRIRPVVVMISGKPGIGKTHLAR
EVARKVASTLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRIQELAD
TCPLTLNCDRIENKGKVFDSEVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEV
EKAKRDFPGQPDMWKDAFKPDFSHIKLQLAPQGGFDKNGNTPHGKGVMKTLTTGSLIA
RASGLLHERMDEFELQGPTITTFNFDRNRITAFRQLAAENKYGLMDTMKVGNQLKGVK
TMEELKQAIRNVTIKRCRIIYGGSTYDLESDGKGKVLVEKVKNTSVQTNNELAGALHH
LKHARIRYYVRCVQEAIYSIIQIAGAAFVTTRIARRMNIQELWSKPQLDQNESEIREE
APKPEDDEFIISSKDIKEEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNG
KYSIEEYLQDRDRYYEELAIAKATEEDFCEEEEVKIRQRIFRPTRKQRKEERATLGLV
TGSEIRKRNPDDFKPKGKLWADDNRSVDYNEKLDFEAPPSIWSRIVSFGSGWGFWVSP
SLFITSTHVIPAGITEAFGVPIKQIQIHKSGEFCRFRFPKPIRPDVTGMILEEGAPEG
TVATVLIKRPTGELMPLAARMGTHATMKIQGRMVGGQMGMLLTGSNAKGMDLGTTPGD
CGCPYIYKRGNDYIVIGVHTAAARGGNTVICATQGSEGEATLEGGDDKGTYCGAPILG
PGGAPKLSTKTKFWRSSNTPLPPGTYEPAYLGGRDPRVKGGPSLQQVMRDQLKPFTEP
RGKPPRPSVLEAAKQTIINVLEQTLDPPQKWTYAQACASLDKTTSSGHPHHARKNEFW
NGETFTGKLADQASKANLMFEEGKHMTPVYTAALKDELVKTEKIYGKIKKRLLWGSDL
STMIRCARSFGGLMDEMKAHCISLPVRVGMNMNEDGPIIFEKHSRYKYHYDADYSRWD
STQQRAVLAAALEIMVRFSAEPQLAQIVAEDLLAPSVVDVGDFKITINEGLPSGVPCT
SQWNSITHWLLTLCALSEVTKLSPDIIQANSMFSFYGDDEIVSTDIKLDPEQLTAKLK
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="XEJ39073.1"
/translation="MKMASSDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ
QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
FEVQVILAGNAFTAGKIIFAAVPPNFPTEGLSPSQVTMFPHIIVDVRQLEPVLIPLPD
VRNNFYHYNQSNDSTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT
QLSPVNICTFRGDVTHITGSRNYTMNLASQNWNNYDPTEEIPAPLGTPDFVGKIQGML
TQTTRTDGSTRGHKATVYTGSADFAPKLGRVQFETDTDHDFEANQNTKFTPVGVIQDG
STTHRNEPQQWVLPSYSGRNTHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD
CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKTGYVTVAHTGQHDLV
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="XEJ39074.1"
/translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA
SFQFSSNLQQVSFQHDKEMLQAQIEATKKLQQEMMKVKQAMLLEGGFSETDAARGAIN
APMTKALDWSGTRYWAPDARITTYNAGHFSTPQPSRALPGRANLRDAVPAQGSSIKSS
NSSTATSVYSNQTTSTRLGSTAGSGTSVSSLPSTARTRSWVEDQNRNLSPFMRRAHNI
SFVTPPSSRSSSQGTVSTVPKEILDSWTGAFNTHRQPLFAHIRKRGESRV"
ORIGIN
1 atgaagatgg cgtctaacga cgcttccgct gccgttgctt gtaacaacaa caacgacaag
61 gaaaaatctt caggtgaagg cttattcaca aatatgtctt ccaccttaaa gaaagccctc
121 ggggctaggc ccaaacagcc tgccccgaga gataaaccac aaaaaccacc aagaccacca
181 actcccgagt tggtcaagag gataccccct cctccaccta atggcgaaga agaacaagaa
241 ccagtcatta ggtatgaggt taagagtggg atctctggcc tgcccgagct cacaacagtt
301 ccccaaccgg acgtggccaa cacagcattc agtgttccac cactgagctt gagagaaaac
361 agggaggcca aggaaccgct aacaggagca atattagaaa tgtgggacgg agagatatac
421 cactatggcc tgtacgtgga gaaaggctta gtgttgggtg tgcacaagcc acctgcagcc
481 ataagtatgg caagagtgga gctgacgccg ctgtcactgt actggcgcgt ggtgtacact
541 ccccaatacc ttatctcccc cgaaactctc aggaggctca acggagaggc gtttccttac
601 accgccttcg acaacaactg ctacgccttt tgctgctggg tgttagacct caatgactca
661 tggcttagta ggaggatggt gcaaagaaca acgggcttct tcagacctta ccaagagtgg
721 aacagaaagc ccctgcctac catggatgac tccaaaataa agaaggtagc aaatatattc
781 ctatgttcat tgtccacatt attcaccagg cccataaaag acctcatagg gaaaattaaa
841 ccattaaaca tattgaacat cctggcaacg tgtgactgga cgtttgccgg aatagtggag
901 tctctgatat tacttgccga actcttcgga gttttctgga cacccccaga tgtgtctgct
961 atgatcgctc ccttactcgg ggactacgag ttgcaagggc cagaagacct cgccgttgaa
1021 ctcgtacctg tggtaatggg agggattggc ttggtgttgg gattcaccaa agagaaaatc
1081 ggcaaaatgt tgtcctcagc agcgtcaaca ctcagggctt gcaaagatct tggtgcctat
1141 ggcttagaga tacttaaatt ggtcatgaag tggttcttcc caaagaaaga ggaggccaac
1201 gagctagcta tggtgagggc catagaggac gccgtattag atcttgaggc aatagaaaac
1261 aaccacatga caaccctgtt gaaagacaaa gacagcttag caacatacat gaagacactg
1321 gacatggagg aggagaaagc caggaggttg tccacaaaat ctgcatcccc tgacatagtt
1381 gggacaatca acgcccttct ggctcgaata gcagcggcca ggtcattagt ccacagggcc
1441 aaggaagaac tatctagcag gataagacca gtagtcgtta tgatatctgg caaaccagga
1501 ataggcaaaa ctcatctggc cagggaggtg gcaagaaagg tggcatccac tctcacaggg
1561 gatcaaagag tcggactcat accaaggaac ggtgtggacc attgggatgc atacaaaggt
1621 gagagagtcg tgctgtggga cgactatggc atgagtaacc ccattcatga tgctcttcgc
1681 atacaggaat tggctgatac gtgtcccctc accttaaatt gtgacagaat tgaaaataag
1741 ggaaaagtct ttgacagtga agtcataata atcacaacaa accttgccaa cccagcccca
1801 cttgattatg tcaactttga ggcctgttcc aggagaattg atttcctggt gtacgctgag
1861 gcaccagaag tagaaaaggc aaaacgggat ttccctggtc aaccagacat gtggaaggac
1921 gctttcaagc cggacttctc acacatcaag ctacagcttg cacctcaggg cggctttgac
1981 aagaatggta acactccaca tgggaaagga gtgatgaaga ccctcactac cggttctctg
2041 attgcccgtg catcaggctt 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 ggtggaaaag
2341 gttaagaaca cctctgtaca gaccaacaac gagttggccg gggccctgca ccatctcaaa
2401 cacgcccgta tcaggtacta tgtcagatgt gtgcaagaag caatctattc catcatacaa
2461 attgccggcg ctgcgtttgt caccacgcgc attgcacgcc gcatgaacat acaagaactc
2521 tggtcgaagc cacaattaga tcaaaatgaa tcagagatca gggaagaggc ccccaaacca
2581 gaagatgacg agttcatcat atcttctaag gacatcaagg aggaaggaaa gaagggcaaa
2641 aacaaaactg gccgtggcaa gaaacacact gcattctcca gcaagggctt gagcgatgag
2701 gagtacgacg agtacaagag gataagagaa gagaggaatg ggaagtactc tatagaggag
2761 tatcttcaag acagagacag gtactatgag gagctcgcca ttgccaaggc cacggaagaa
2821 gacttttgtg aagaggagga ggtcaaaatc cgtcagagaa ttttccgtcc caccaggaaa
2881 caaagaaagg aagagagagc cacattaggg ctggtgacag gctcagaaat cagaaaaaga
2941 aatcctgacg acttcaaacc caaagggaag ctgtgggccg atgacaatag aagtgttgac
3001 tacaatgaga agctggactt tgaggccccc ccgagcatat ggtctaggat tgtgagcttt
3061 ggttctggct ggggcttctg ggtatcacca agcctgttca taacatcaac tcatgtaatc
3121 cccgcaggca taacagaagc atttggagtc cccatcaaac aaattcagat ccacaaatca
3181 ggtgaatttt gccgattcag gttcccaaaa ccaattagac cagatgtgac agggatgatc
3241 ttggaagaag gtgcgcctga aggcaccgtg gcaactgtac tcatcaaacg ccccaccgga
3301 gagctcatgc ctctcgcagc cagaatggga acacacgcaa ccatgaaaat tcagggccgt
3361 atggttggcg gacagatggg tatgttgctc accggatcaa atgctaaagg aatggatttg
3421 ggaacaactc ctggtgactg tggctgccct tacatctata aaaggggcaa tgactatata
3481 gtcattgggg tgcatactgc agcagcacgt ggtggaaaca ccgtcatctg tgccacacag
3541 ggaagtgagg gtgaggcaac tcttgagggt ggggatgaca aaggaacata ttgtggggca
3601 cccattctag gccctggggg cgcaccaaaa ttgagcacca aaaccaaatt ttggaggtca
3661 tcaaacacgc cccttccacc aggaacatat gagcctgcct accttggtgg ccgtgacccg
3721 cgtgttaagg gtgggccctc cttacagcag gtaatgagag accagctaaa gccattcact
3781 gaacccaggg gcaaacctcc aagaccaagt gttttggaag cagccaaaca aaccattatt
3841 aatgttctcg aacaaaccct ggatcctcca caaaaatgga catacgcaca ggcgtgtgcc
3901 tcacttgaca aaaccacctc cagcgggcat ccccatcacg cccgaaagaa tgagttctgg
3961 aatggtgaga ccttcactgg caaattggca gaccaagcat caaaagcaaa cctaatgttt
4021 gaggaaggga aacacatgac accggtgtac acagcagcac tcaaggacga gctagtcaag
4081 actgagaaaa tctatggaaa gatcaagaag agactgctct ggggctctga cttgtctact
4141 atgatccggt gcgctaggtc atttggtggg ctcatggacg agatgaaggc acactgcata
4201 tcactcccag tgcgagttgg catgaatatg aatgaagatg gcccaataat atttgagaaa
4261 cattccagat acaaatatca ctatgatgca gactactctc gttgggattc aacacaacag
4321 agggcagtac tagcagcagc cttagaaatc atggtcagat tctctgcaga accacaattg
4381 gcacaaatag tcgctgagga cctgctggcc cctagtgtag tagatgtagg agacttcaaa
4441 atcacaataa atgaaggact cccatctggt gtgccatgca cttctcaatg gaactccatc
4501 acacactggc tgctaactct atgtgctttg tctgaagtca ccaaactgtc ccctgacatt
4561 atacaagcaa attctatgtt ctcattttac ggtgatgatg agattgtcag taccgacata
4621 aaattggatc ctgagcagtt gaccgccaag ttgaaggagt acggcctgaa gccaacccgc
4681 ccagacaaga ccgagggacc cctgatcatc agtgaagatt tgaacggact cactttcctc
4741 agaaggacgg tgactcgtga cccagctggc tggtttggaa aactggacca aagctcaatt
4801 ctgaggcaga tgtactggac tagaggacca aatcatgaag accccaatga gacaatgata
4861 cctcattctc aaagacccat acagctcatg gcactgcttg gtgaagcctc tcttcacgga
4921 ccctctttct acagtagaat cagcaaattg gtcataactg aactcaaaga aggtgggatg
4981 gacttttacg tgccaaggca ggaacccatg ttcagatgga tgaggttttc tgacttgagc
5041 acgtgggagg gcgatcgcaa tctggctccc aattttgtga atgaagatgg cgtcgagtga
5101 cgccaaccca tctgatgggt ccgcagccaa cctcgtacca gaggtcaaca atgaggttat
5161 ggctttggag cccgttgttg gtgccgctat tgcggcacct gtagcgggcc aacaaaatgt
5221 aattgacccc tggattagaa ataattttgt acaagcccct ggtggggagt tcacagtatc
5281 ccctagaaac gctccaggtg aaatactatg gagcgcgccc ctaggccctg acctaaatcc
5341 ctatctgtcc catttggcca gaatgtacaa tggttatgca ggtggttttg aagtgcaggt
5401 aatcctcgcg gggaacgcgt tcaccgccgg gaagatcata tttgcagcag tcccaccgaa
5461 tttcccaact gaaggcttaa gtcctagcca ggtcactatg ttcccccaca taatagtaga
5521 tgttagacaa ctagaacctg tgctaattcc cttacccgat gttaggaata atttctatca
5581 ttataatcaa tcaaatgatt ccactattaa gttaatagca atgttgtata caccacttag
5641 ggctaataat gctggggatg atgttttcac agtttcgtgc cgagttctca cgagaccatc
5701 ccccgatttt gatttcatat tcttagtgcc acccacagtt gagtcaagaa ctaaaccatt
5761 ctctgtccca gttttaactg ttgaggagat gaccaattca agattcccca tccctttgga
5821 aaagttgttc acaggcccca gcagtgcctt tgttgttcaa ccacaaaacg gcagatgcac
5881 aactgatggc gtactcttag gcaccaccca actttctcca gtcaacatct gcaccttcag
5941 aggggatgtc acccacatca caggtagtcg caattataca atgaatttgg cttctcaaaa
6001 ttggaacaac tatgacccaa cagaagaaat cccagcccct ctaggaactc cagattttgt
6061 ggggaagatt caaggcatgc tcacccaaac cacaaggaca gatggttcaa cacgcggcca
6121 caaagccaca gtgtacactg ggagcgccga ctttgctcca aaactgggta gagttcaatt
6181 tgaaactgac acagaccatg attttgaagc taatcaaaac acaaagttca ccccagtcgg
6241 tgtcattcaa gatggaagta ccacccaccg aaacgaaccc caacagtggg tgctcccaag
6301 ttactcaggc agaaacactc acaatgtaca tttggccccc gctgtggccc ccacctttcc
6361 gggtgagcaa cttctcttct tcagatccac catgcccgga tgcagcgggt accccaacat
6421 ggatttggac tgtctgctcc cccaggaatg ggtgcagtac ttctaccaag aggcagcccc
6481 agcacaatct gatgtggctc tgctaagatt tgtgaatcca gacacaggta gggttttgtt
6541 tgagtgcaag cttcacaaaa caggctatgt tacagtggct cacactggcc aacatgatct
6601 ggttatcccc cccaatggct actttaggtt tgattcctgg gtcaaccagt tctacacgct
6661 cgcccccatg ggaaatggaa cggggcgtag acgtgtggta taatggctgg agctttcttt
6721 gctggattgg catctgatgt cctcggctct ggacttggtt ccctcatcaa cgctggggct
6781 ggggccatta accaaaaagt tgagtttgaa aataacagaa aattgcaaca agcatccttc
6841 caatttagca gcaatttgca acaggtttct tttcaacatg ataaagagat gctccaagca
6901 caaattgagg ccaccaaaaa gctacaacag gaaatgatga aagttaagca ggcaatgctc
6961 ctagagggtg ggttctctga gacagatgca gcccgcgggg caattaacgc ccccatgaca
7021 aaagctttgg actggagcgg gacaaggtat tgggccccag atgctagaat tacaacatac
7081 aatgcaggcc acttttccac ccctcagcca tcgagggcac tgccaggaag agctaatctt
7141 agggatgctg tccctgctca gggatcctct attaaatctt ctaactcttc tactgctacc
7201 tctgtgtact caaatcaaac cacttcaacg agacttggtt ctacagctgg ttctggaacc
7261 agtgtctcga gtctcccgtc aactgcaagg actaggagct gggttgagga tcaaaatagg
7321 aatttgtcac ctttcatgag aagggcccac aacatatcat ttgtcacccc accatctagc
7381 agatcctcta gccaaggcac agtctcaacc gtgcctaaag agattttgga ctcctggact
7441 ggcgctttca acacgcacag gcagcctctc ttcgcccaca ttcgtaagcg aggggagtca
7501 cgggtgtaat gtgaaaagac aaaa
//