Typing tool
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Typing tool
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Complete norovirus genomes
| PQ195931 | GII.4 Sydney | |
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| GII.P16 |
ORF1: 1..5100
ORF2: 5081..6703
ORF3: 6703..7509
LOCUS PQ195931 7524 bp RNA linear VRL 01-JAN-2025
DEFINITION Norovirus GII isolate Hu/GII.4 Sydney[P16]/Portage0040/2023/USA
nonstructural polyprotein (ORF1), VP1 (ORF2), and VP2 (ORF3) genes,
complete cds.
ACCESSION PQ195931
VERSION PQ195931.1
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JOURNAL Unpublished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]/Portage0040/2023/USA"
/isolation_source="stool"
/host="Homo sapiens"
/db_xref="taxon:122929"
/geo_loc_name="USA"
/collection_date="27-Feb-2023"
/note="genotype: GII.4 Sydney[P16]"
gene 1..5100
/gene="ORF1"
CDS 1..5100
/gene="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="XEJ39105.1"
/translation="MKMASNDASAAVACNSNNDKEKSSGEGLFTNMSSTLKKALGARP
KQPAPRDEPQKPPRPPTPELIKRIPPPPPNGEEEGEPVIRYEVKSGVSGLPELTTVPQ
PDVANTAFSVPPLSLRENREAKEPLTGAILEMWDGEIYHYGLYVEKGLVLGVHKPPAA
ISMARVELTPLSLYWRVVYTPQYLISPETLKRLNGEAFPYTAFDNNCYAFCCWVLDLN
DSWLSRRMVQRTTGFFRPYQEWNRKPLPTMDDSKIKKVANIFLCSLSTLFTRPIKDLI
GKIKPLNILNILATCDWTFAGIVESLILFAELFGVFWTPPDVSAMIAPLLGDYELQGS
EDLAVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWF
FPKKEEANELAMVRAIEDAVLDLEAIENNHMTTLLKDKDSLATYMKTLDMEEEKARRL
STKSASPDIVGTINALLARIAAARSLVHRAKEELSSRMRPVVVMISGKPGIGKTHLAR
EVARKVASTLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRIQELAD
TCPLTLNCDRIENKGKVFDSEVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEV
EKAKRDFPGQPDMWKDAFKPDFSHIKLQLAPQGGFDKNGNTPHGKGVMKTLTTGSLIA
RASGLLHERMDEFELQGPTITTFNFDRNRITAFRQLAAENKYGLVDTMKVGNQLKGVK
TMEELKQAIRNVIIKRCRIIYGGSTYDLESDGKGKVLVEKVKNASIQTNNELVGALHH
LKHARIRYYVKCVQEAVYSIIQIAGAAFVTTRIARRMNIQELWSKPQLDQNESETKVE
APKSEDDEFIISSKDIKEEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNG
KYSIEEYLQDRDRYYEELAIAKATEEDFCEEEEIKIRQRIFRPTRKQRKEERATLGLV
TGSEIRRRNPDDFKPKGKLWADDNRSVDYNEKLDFEAPPSIWSRIVSFGSGWGFWVSP
SLFITSTHVIPAGITEAFGVPIKQIQIHKSGEFCRFRFPKPIRPDVTGMILEEGAPEG
TVATVLIKRPTGELMPLAARMGTHATMKIQGRMVGGQMGMLLTGSNAKGMDLGTTPGD
CGCPYIYKRGNDYIVIGVHTAAARGGNTVICATQGSEGEATLEGGDDKGTYCGAPILG
PGGAPKLSTKTKFWRSSNTPLPPGTYEPAYLGGRDPRVRGGPSLQQVMRDQLKPFTEP
RGKPPRPSVLEAAKQTIINVLEQTLDPPQKWTYAQACASLDKTTSSGHPHHVRKNEFW
DGETFTGKLADQASKANLMFEEGKHMTPVYTAALKDELVKTEKIYGKIKKRLLWGSDL
STMIRCARSFGGLMDEMKAHCISLPVRVGMNMNEDGPIIFEKHSRYKYHYDADYSRWD
STQQRAVLAAALEIMVRFSAEPQLAQIVAEDLLAPSVVDVGDFKITINEGLPSGVPCT
SQWNSIAHWLLTLCALSEVTKLSPDIIQANSMFSFYGDDEIVSTDIKLDPGQLTAKLK
EYGLKPTRPDKTEGPLIISEDLNGLTFLRRTVTRDPAGWFGKLDQSSILRQMYWTRGP
NHEDPNETMIPHSQRPIQLMALLGEASLHGPSFYSRISKLVITELKEGGMDFYVPRQE
PMFRWMRFSDLSTWEGDRNLAPSFVNEDGVE"
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="XEJ39106.1"
/translation="MKMASSDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ
QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
FEVQVILAGNAFTAGKIIFAAVPPNFPTEGLSPSQVTMFPHIIVDVRQLEPVLIPLPD
VRNNFYHYNQSNDSTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT
QLSPVNICTFRGDVTHITGSHNYTMNLASQNWNNYDPTEEIPAPLGTPDFVGKIQGML
TQTTRTDGSTRGHKATVYTGSADFAPKLGRVQFETDTNHDFEANQNTKFTPVGVIQDG
STTHRNEPQQWVLPSYSGRNAHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD
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="XEJ39107.1"
/translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA
SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQEMMRVKQAMLLEGGFSETDAARGAIN
APMTKALDWSGTRYWAPDARITTYNAGHFSTPQPSRALPGRANFRDAVPARGPSTRPS
NSSTATSVYSNQTISTRLGSTAGSGTSVSSLPSTARTRSWVEDQNRNLSPFMRGAHNI
SFVTPPSSRSSSQGTVSTVPKEILDSWTGAFNTRRQPLFAHIRKRGESRV"
ORIGIN
1 atgaagatgg cgtctaacga cgcttccgct gccgttgctt gcaacagcaa caacgacaag
61 gaaaaatctt caggtgaagg cttattcaca aatatgtctt ccaccttaaa gaaagccctc
121 ggggctaggc ccaaacagcc tgccccgaga gacgaaccac aaaagccccc aagaccacca
181 actccagagt tgatcaagag gatacccccc cctccaccta atggcgaaga agaaggagaa
241 ccagtcatta ggtatgaggt taagagtggg gtctctggcc tgcccgagct cacaacagtc
301 ccccaaccgg acgtggccaa cacagcattt agtgttccac cactgagctt gagagaaaac
361 agggaggcca aggagccgct aacaggggca atactagaga tgtgggacgg agagatatac
421 cactatggcc tgtacgtgga gaaaggctta gtgttgggtg tgcacaaacc acctgcagcc
481 ataagcatgg cgagagtgga gctgacgccg ctgtcattgt actggcgtgt ggtgtacact
541 ccccaatacc tcatctcccc tgaaactctc aagaggctca acggagaggc gtttccttac
601 accgctttcg acaacaactg ctatgccttt tgttgctggg tgttagacct caatgattca
661 tggcttagca ggaggatggt gcaaagaaca acgggcttct tcagacctta tcaagagtgg
721 aacagaaaac ccttgcccac catggatgac tccaaaataa agaaggtagc aaatatattc
781 ctatgttcat tgtccacatt attcaccaga cccataaaag acctcatagg aaaaattaaa
841 ccattaaaca tattgaacat cctggcaacg tgtgactgga cgtttgccgg aatagtggag
901 tctctgatat tgtttgctga actcttcgga gttttctgga cacccccaga tgtgtctgct
961 atgatcgctc ccttactcgg ggactacgag ttgcaggggt cagaagacct cgccgttgaa
1021 ctcgtacctg tggtaatggg agggattggc ttggtgttgg gattcaccaa agagaaaatt
1081 ggcaaaatgt tgtcctcagc agcatcaaca ctcagggctt gtaaagatct tggtgcctat
1141 ggcttagaga tactcaaatt ggtcatgaag tggttcttcc caaagaaaga ggaggccaat
1201 gagctagcca tggtgagggc catagaggat gccgtactag atcttgaggc aatagaaaac
1261 aaccacatga caaccctgtt gaaagacaaa gacagcttag caacatacat gaaaacactg
1321 gatatggagg aggagaaagc cagaaggttg tccacaaaat ctgcatcccc tgacatagtt
1381 gggacaatca acgccctgct ggctcgaata gcagcggcca ggtcattggt ccacagggcc
1441 aaggaagaac tgtctagcag gatgaggcca gtagttgtta tgatatctgg caaaccagga
1501 ataggcaaaa ctcacctggc cagggaggtg gcaaggaagg tggcatccac tctcacaggg
1561 gatcagagag tcggactcat accaagaaac ggtgtggatc attgggatgc atacaaaggt
1621 gagagagtcg tgttgtggga cgactatggc atgagtaacc ccattcatga tgctctccgc
1681 atacaagaat tggctgatac gtgtcccctt accttaaatt gtgacagaat tgaaaataag
1741 ggaaaagttt ttgacagtga agtcataata attacaacaa accttgccaa cccagcccca
1801 cttgattatg tcaactttga ggcctgttcc aggagaattg atttcctggt gtacgctgag
1861 gcaccagaag tagaaaaggc aaaacgggat tttcctggtc agccagatat gtggaaggac
1921 gccttcaagc cggacttttc acacatcaag ctacagcttg cacctcaggg cggctttgac
1981 aagaatggca acaccccaca tgggaaagga gtgatgaaga cactcactac cggttctctg
2041 attgcccgtg catcaggcct actgcatgag aggatggatg aatttgaact ccaaggtccc
2101 acaatcacca ctttcaattt cgaccggaac agaatcacag cattcagaca attggctgca
2161 gaaaacaagt atggactggt ggataccatg aaagttggca atcaactaaa aggagtgaaa
2221 accatggaag aactcaaaca agcgatcagg aatgtgatca tcaagaggtg ccggatcatc
2281 tacggtggct ccacgtatga ccttgaatct gatggcaagg gcaaagtttt ggtggaaaag
2341 gtcaaaaacg cctctataca gaccaacaac gagttggtcg gggccctgca ccatcttaaa
2401 catgcccgaa tcaggtacta tgtcaaatgt gtgcaagaag cagtctattc catcatacaa
2461 attgccggcg ctgcgtttgt cactacgcgt attgcacgcc gcatgaacat acaagaactc
2521 tggtccaagc cacaattaga ccaaaatgaa tcagagacca aggtagaggc ccccaagtca
2581 gaagatgacg agttcatcat atcttctaag gatatcaagg aggaaggaaa gaagggcaaa
2641 aacaaaactg gccgtggcaa gaaacacact gcattctcca gcaagggctt gagcgatgag
2701 gagtatgacg agtacaagag gataagagaa gagagaaatg ggaagtactc tatagaggag
2761 tatcttcaag acagagacag gtactatgag gagctcgcca ttgccaaggc cacggaagaa
2821 gacttctgtg aagaggagga gatcaaaatc cgtcagagaa ttttccgtcc caccaggaaa
2881 caaagaaagg aagagagggc cacactaggg ctggtgacag gttcagaaat cagaagaaga
2941 aaccctgatg atttcaaacc caaagggaag ctgtgggccg atgataacag aagtgttgac
3001 tacaatgaga aactggactt tgaggccccc ccaagcatat ggtctaggat tgtgagcttt
3061 ggttctggct ggggcttctg ggtatcacca agcctgttca taacatcaac tcatgtgatc
3121 cctgcaggca taacagaagc atttggagtc cccatcaagc aaattcagat ccacaaatca
3181 ggtgaatttt gtcgattcag attcccaaaa ccaattagac cagatgtgac aggaatgatc
3241 ttggaagaag gtgcgcctga aggtaccgtg gcaactgtgc tcatcaaacg ccccaccgga
3301 gagctcatgc ctcttgcagc cagaatggga acacacgcaa ccatgaagat tcaaggccgc
3361 atggttggcg gacagatggg tatgttgctc actggatcaa atgccaaagg aatggatttg
3421 ggaacaactc ctggtgactg tggctgccct tacatctata aaaggggcaa tgactatata
3481 gtcattgggg tgcacactgc agcagcccgt ggtggaaaca ccgtcatctg tgccacacag
3541 ggaagtgagg gtgaggcaac ccttgagggt ggagatgaca aaggaacata ctgtggggca
3601 cccattctag gccctggggg cgcaccaaaa ttgagcacca aaaccaaatt ttggaggtca
3661 tcgaacacgc cccttccacc agggacatat gagcctgcct acctcggtgg ccgtgaccca
3721 cgtgttaggg gtgggccctc cttacagcag gtgatgagag accagttgaa gccattcact
3781 gaacccaggg gcaaacctcc aagaccaagt gttttggaag cagccaaaca aaccattatc
3841 aatgtccttg aacaaaccct ggatcctcca caaaaatgga catacgcgca ggcgtgtgcc
3901 tcacttgaca aaaccacctc cagcgggcat ccccatcacg tccgaaagaa tgaattctgg
3961 gatggcgaga ccttcactgg caaattggca gaccaagcat caaaagcaaa cctaatgttt
4021 gaggaaggga aacacatgac accagtgtac acagcagcac tcaaggatga gctagttaag
4081 actgagaaaa tctatggaaa gattaagaag agactgctct ggggctctga cctgtctacc
4141 atgatccggt gcgctaggtc atttggtggg ctcatggacg agatgaaggc acactgcata
4201 tcactcccag tacgagttgg catgaatatg aatgaagatg gcccaataat atttgagaaa
4261 cattccagat acaaatacca ctatgatgca gactactctc gttgggattc aacacaacag
4321 agggcagtat tagcagcagc cttggaaatc atggtcagat tctctgcaga accacaattg
4381 gcacaaatag tcgctgagga tctactggcc cctagtgtag tagatgtagg agactttaaa
4441 atcacaataa atgaagggct tccatctggc gtgccatgca cttctcaatg gaactccatc
4501 gcacactggc tgctaactct ctgtgccttg tctgaagtca ccaaactatc tcctgacatt
4561 atacaagcaa attccatgtt ctcattttac ggtgatgacg agattgtcag caccgacata
4621 aagttggacc ctggacagtt gaccgccaag ttgaaggagt acggcctgaa accaacccgc
4681 ccagacaaga ccgagggacc cctgatcatc agtgaagatt tgaacggact cactttcctc
4741 cgaaggacgg tgactcgtga cccagctggc tggtttggaa aactggacca aagttcaatt
4801 ttgaggcaga tgtactggac tagaggacca aatcatgaag accccaatga gacaatgata
4861 ccccattctc aaagacccat acagctcatg gcactgcttg gtgaagcctc tcttcacgga
4921 ccctctttct acagtagaat cagcaaattg gtcataactg aactcaaaga aggtgggatg
4981 gacttttacg tgccaaggca ggaacccatg ttcaggtgga tgaggttttc tgacttgagc
5041 acgtgggagg gcgatcgcaa tctggctccc agttttgtga atgaagatgg cgtcgagtga
5101 cgccaaccca tctgatgggt ccgcagccaa cctcgtacca gaggtcaaca atgaggttat
5161 ggctttggag cccgttgttg gtgccgctat tgcggcacct gtagcgggcc aacaaaatgt
5221 aattgacccc tggattagaa ataattttgt acaagcccct ggtggggagt ttacagtatc
5281 ccctagaaat gctccaggtg aaatactatg gagcgcgccc ctaggccctg atctaaatcc
5341 ctacctatcc catctggcca ggatgtacaa tggttatgca ggtggctttg aagtgcaggt
5401 aattctcgcg gggaacgcgt tcaccgccgg gaagattata tttgcagcag tcccaccaaa
5461 ttttccaact gaaggcttaa gccctagcca ggttactatg tttccccata taatagtaga
5521 tgttagacaa ttggaacctg tgctgatccc cttacccgat gttaggaata atttctatca
5581 ttacaatcag tctaatgact ccactattaa gttgatagca atgttgtaca caccacttag
5641 ggctaataat gctggagatg atgttttcac agtctcgtgc cgagttctca cgagaccatc
5701 ccccgatttt gatttcatat tcttagtacc acccacagtt gagtcaagaa ctaaaccatt
5761 ctccgtccca gttttaactg ttgaggagat gaccaattca agatttccca tccctttaga
5821 aaagttgttc acaggcccca gcagtgcatt tgttgttcaa ccacaaaacg gcagatgcac
5881 aactgatggc gtgctcctag gcaccaccca actttctcct gtcaacatct gcaccttcag
5941 aggggatgtc acccacatca caggtagtca caactacact atgaatttgg cttctcaaaa
6001 ttggaacaac 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 tgctcccaag
6301 ttactcaggc agaaatgctc acaatgtaca cttggccccc gctgtagccc ccacctttcc
6361 gggtgagcaa cttctcttct ttagatccac tatgcccgga tgcagcgggt accccaacat
6421 ggatttggac tgtctgctcc cccaggaatg ggtgcagtat ttctaccaag aggcagcccc
6481 agcacaatct gatgtggctc tgctaagatt tgtgaatcca gacacaggta gggttttgtt
6541 tgagtgcaag cttcataaat caggctatgt tacagtggct cacactggcc aacatgattt
6601 ggttatcccc cccaatggtt actttagatt 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 gctacaacag gaaatgatga gagttaagca ggcaatgctc
6961 ctagagggtg ggttttctga gacagatgcg gctcgcgggg caattaatgc ccccatgaca
7021 aaggctttgg actggagcgg gacaaggtac tgggctccag atgctagaat tacaacatac
7081 aatgcaggcc acttttccac ccctcaacca tcgagggcac tgccaggaag agctaatttt
7141 agggatgctg tccctgctcg gggaccctcc accagacctt ctaactcttc tactgccacc
7201 tctgtgtatt caaatcaaac tatttcaacg agacttggtt ctacagctgg ttctggaacc
7261 agtgtctcga gcctcccgtc aactgcaagg actaggagct gggttgagga tcaaaatagg
7321 aatttgtctc ctttcatgag gggggcccac aacatatcat ttgtcacccc accatctagc
7381 agatcctcta gccaaggcac agtctcaacc gtgcctaaag aaattttgga ctcctggact
7441 ggcgctttca acacgcgcag gcagcctctc ttcgctcaca ttcgtaagcg aggggagtca
7501 cgggtgtaat gtgaaaagac aaaa
//