Typing tool
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Typing tool
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Complete norovirus genomes
| PQ195948 | GII.4 Sydney | |
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| GII.P4 New Orleans |
ORF1: 1..5100
ORF2: 5081..6703
ORF3: 6703..7506
LOCUS PQ195948 7521 bp RNA linear VRL 01-JAN-2025
DEFINITION Norovirus GII isolate Hu/GII.4 Sydney[P4]/Summit0070/2022/USA
nonstructural polyprotein (ORF1), VP1 (ORF2), and VP2 (ORF3) genes,
complete cds.
ACCESSION PQ195948
VERSION PQ195948.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norovirus norwalkense.
REFERENCE 1 (bases 1 to 7521)
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JOURNAL Unpublished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 7521)
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..7521
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="Hu/GII.4 Sydney[P4]/Summit0070/2022/USA"
/isolation_source="stool"
/host="Homo sapiens"
/db_xref="taxon:122929"
/geo_loc_name="USA"
/collection_date="09-Mar-2022"
/note="genotype: GII.4 Sydney[P4]"
gene 1..5100
/gene="ORF1"
CDS 1..5100
/gene="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="XEJ39156.1"
/translation="MKMASNDASAAAVANSNNDTAKSSSDGVLSSMAVTFKRALGARP
KQPPPREKPQRPPRPPTPELVKNIPPPPPNGEDEIVVTYSVKDGVSGLPDLSTVRQPE
ESNTAFSVPPLNQRENRDAKEPLTGTILEMWDGEIYHYGLYVERGLVLGVHKPPAAIS
LAKVELVPLSLYWRPVYTPQYLISPDTLKKLSGEMFPYTAFDNNCYAFCCWVLELNDS
WLSRRMIQRTTGFFRPYQDWNKKPLPTMDDSKIKKVANIFLCVLSSLFTRPIKDIIGK
IRPLNILNILASCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPED
LAVELVPVVMGGVGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFP
KKEEANELAMVRSIEDAVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARKLST
KSASPDIVGTINALLARIAAARSLVHRAKEELSSRPRPVVLMISGRPGIGKTHLAREV
AKRIAASLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTC
PLTLNCDRIENKGKVFDSDVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPDVEK
AKRDFPGQPDMWKNAFSSDFSHIKLALAPQGGFDKNGNTPHGKGVMKTLTTGSLIARA
SGLLHERLDEFELQGPALTTFNFDRNKVLAFRQLAAENKYGLMDTMRVGKQLKDVKTM
PELKQALKNVSIKKCQIVYNGCTYMLESDGKGNVKVDRIQSAAVQTNNELAGALHHLR
CARIRYYVKCVQEALYSIIQIAGAAFVTTRIAKRMNIQDLWSKPQVENTEETTSKDGC
PKPKDDEEFVISSDDIKAEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNG
KYSIEEYLQDRDKYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERVSLGLV
TGSEIRKRNPDDFKPKGKLWADDDRSVDYNEKLSFEAPPSIWSRIVNFGSGWGFWVSP
SLFITSTHVIPQGAKEFFGVPIKQIQVHKSGEFCRLRFPKPIRTDVTGMILEEGAPEG
TVVTLLIKRSTGELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGD
CGCPYIYKRGNDYVVIGVHTAAARGGNTVICATQGSEGEATLEGGDNKGTYCGAPILG
PGSAPTLSTKTKFWRSSTASLPPGTYEPAYLGGKDPRIKGGPSLQQVMREQLKPFTEP
RGKPPKPSVLEAAKKTIINVLEQTIDPPEKWSFAQACASLDKTTSSGHPHHMRKNDCW
NGESFTGKLADQASKANLMFEEGKNMTPVYTAALKDELVKTDKIYGKIKKRLLWGSDL
ATMIRCARAFGGLMDELKAHCVTLPVRVGMSMNEDGPIIFERHSRYTYHYDADYSRWD
STQQRAVLAAALEIMVKFSPEPHLAQVVAEDLLSPSVVDVGDFTISINEGLPSGVPCT
SQWNSIAHWLLTLCALSEVTNLSPDTIQANSLFSFYGDDEIVSTDIKLDPEKLTAKLR
EYGLKPTRPDKTEGPLVISEDLNGLTFLRRTVTRDPAGWFGKLEQSSILRQMYWTRGP
NHGDPSETMIPHSQRPIQLMSLLGEAALHGPAFYSKISKLVIAELKEGGMDFYVPRQE
PMFRWMRFSDLSTWEGDRNLAPSFVNEDGVE"
mat_peptide 1..990
/gene="ORF1"
/product="p48"
mat_peptide 991..2088
/gene="ORF1"
/product="NTPase"
mat_peptide 2089..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="XEJ39157.1"
/translation="MKMASSDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ
QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
FEVQVILAGNAFTAGKVIFAAVPPNFPTEGLSPSQVTMFPHIVVDVRQLEPVLIPLPD
VRNNFYHYNQSNDPTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT
QLSPVNICTFRGDVTHIAGSRNYTMNLASQNWNNYDPTEETPAPLGAPDFVGKIQGML
TQTTRADGSTRGHKATVYTGSADFAPKLGRVQFETDTDHDFEANQNTKFTPVGVIQDG
STTHRNEPQQWVLPSYSGRNTHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD
CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV
IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRVV"
gene 6703..7506
/gene="ORF3"
CDS 6703..7506
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="XEJ39158.1"
/translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA
SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQEMMKVKQAMLLEGGFSETDAARGAIN
APMTKALDWSGTRYWAPDARITTYNAGRFSTPQPSGVLPGRANLRDAVPARGSSKSSN
SSTATSVYSNQTTSTRLGSTAGSGASVSSLPSTARTRSWVEDQSRNLSPFMRGAHNIS
FVTPPSSRSSSQGTVSTVPKEVLDSWTGAFNTRRQPLFAHIRKRGESRA"
ORIGIN
1 atgaagatgg cgtctaacga cgcttccgct gccgctgttg ctaacagtaa caacgacacc
61 gcaaaatctt caagtgacgg agtgctttct agcatggctg tcacttttaa acgggccctc
121 ggggcgcggc ctaaacagcc ccccccgagg gaaaaaccac aaagaccccc acgaccaccc
181 acaccagaac tggttaaaaa cattcccccc cccccaccca acggagagga tgaaatagtg
241 gttacttata gtgtcaaaga tggtgtttcc ggcttgcctg acctttccac cgtcagacag
301 ccggaagaat ccaacacggc tttcagtgtc cctccactca atcagaggga gaacagagat
361 gctaaggaac cactcactgg aacaattctg gaaatgtggg acggggaaat ctaccattat
421 ggcctgtacg tggagcgagg tcttgtatta ggcgtacaca aaccgccagc tgccatcagc
481 ctcgctaagg ttgagttggt gccactctcc ttatattgga ggcctgtgta cactcctcag
541 tacctcatct ctccagacac tctcaagaaa ttgtccgggg aaatgttccc ctacacagca
601 tttgacaaca actgctatgc cttttgttgc tgggttctgg aactaaatga ctcgtggctg
661 agcaggagaa tgatccagag gacaactggt ttcttcaggc cctaccaaga ctggaataag
721 aaaccccttc ccactatgga tgactccaaa ataaagaaag tggccaatat atttctgtgt
781 gtcctgtcct cgctattcac caggcccata aaagatataa tagggaaaat aaggcctctt
841 aacatcctca acatcttggc ctcatgtgat tggacctttg cgggcatagt agagtccctg
901 atactcttag cagagctctt tggagttttc tggacacccc cagatgtgtc tgcaatgatt
961 gcccccttac ttggtgacta cgagctacaa ggacctgagg accttgcagt agagctcgtc
1021 cccgtggtga tggggggagt tggtttggtg ctaggattca ccaaagagaa aattgggaaa
1081 atgttgtcat cagctgcgtc caccttaaga gcttgcaaag accttggtgc atatgggcta
1141 gagatcctaa agctagtcat gaagtggttc ttcccgaaga aggaggaggc aaatgagctg
1201 gctatggtga ggtccatcga ggatgcagtc ctggatctcg aagcaattga aaacaaccac
1261 atgaccacct tgcttaaaga taaagacagt ctggcaacct acatgagaac actcgacctt
1321 gaagaggaga aagccaggaa actctcaacc aagtctgcct cacctgacat cgtgggcaca
1381 atcaacgccc tcctggcgag aatcgctgcc gcacgttctt tggtgcatcg agcgaaggag
1441 gagctttcca gcagaccaag acctgtggtg ttgatgatat caggcagacc aggaataggg
1501 aagacccatc tcgctaggga agtggctaag agaatcgcag cctccctcac aggagaccag
1561 cgtgttggtc tcatcccacg caatggcgtc gatcattggg atgcgtacaa gggggaaagg
1621 gtcgtcctat gggacgatta tggaatgagc aaccctattc acgatgccct caggctgcaa
1681 gaactcgctg acacttgccc ccttaccctg aactgtgaca ggattgaaaa taaaggaaaa
1741 gtctttgaca gcgatgtcat cattatcacc actaatctgg ccaacccagc cccactggac
1801 tacgtcaact ttgaagcatg ctcgaggcgt attgacttcc tcgtatatgc agaagcccct
1861 gatgtcgaaa aggcgaagcg cgacttccca ggccagcctg acatgtggaa gaacgctttc
1921 agttccgatt tctcacacat aaaactagca ctggctccac agggtggttt cgacaagaac
1981 gggaacaccc cacacggaaa gggcgtcatg aagactctca ccactggctc ccttattgcc
2041 cgggcatcag ggctactcca tgagaggtta gatgaatttg aactgcaggg cccagctctc
2101 accaccttca atttcgatcg caataaagtg cttgccttta gacagcttgc tgctgaaaat
2161 aaatatggac tgatggacac aatgagggtt gggaaacagc tcaaggatgt caaaaccatg
2221 ccagaactca aacaagcact caagaatgta tcaatcaaaa agtgccaaat agtgtataat
2281 ggttgcacct acatgcttga gtctgacggc aagggcaatg tgaaagttga caggatccag
2341 agcgccgccg tgcagaccaa caatgagctg gctggtgccc tgcaccactt gagatgcgcc
2401 agaatcagat actatgtcaa gtgtgtccag gaagccctgt attccatcat tcaaattgct
2461 ggggctgcat ttgtcaccac gcgcattgcc aagcgcatga acatacagga tctgtggtcc
2521 aagccacaag tggaaaacac agaggaaact accagcaagg acgggtgccc aaaacccaag
2581 gatgatgagg agtttgtcat ttcatccgac gacatcaaag ctgagggcaa gaaagggaag
2641 aacaagactg gccgtggcaa gaagcacaca gcattttcaa gcaaaggtct cagtgatgaa
2701 gagtacgatg aatacaagag gatcagagaa gaaaggaatg gcaagtactc tatagaagag
2761 tacctccagg acagggacaa atattatgag gaggtggcca ttgccagagc gactgaggaa
2821 gacttctgtg aagaggagga agccaagatc cgacaaagga tctttaggcc aacaaggaaa
2881 caacgcaagg aggaaagagt ctctctcggt ttagtcacgg gctctgaaat taggaaaaga
2941 aacccagatg acttcaaacc caaagggaaa ttgtgggctg acgatgacag gagtgtggac
3001 tacaatgaga aactcagttt tgaggccccg ccaagcattt ggtcaagaat agtcaacttt
3061 ggttcaggct ggggattctg ggtctccccc agcttgttca taacatcaac ccatgttata
3121 ccccaaggcg caaaggagtt ctttggagtc cccatcaaac aaatacaggt acacaagtca
3181 ggcgagttct gtcgcttgag attccctaaa ccaatcagga ctgatgtgac gggcatgatc
3241 ttagaagaag gcgcacctga gggcaccgtg gttacactac tcatcaaaag gtccaccggg
3301 gaacttatgc ccctagcagc taggatggga acccatgcga ccatgaagat ccaagggcgc
3361 actgttgggg gccagatggg catgcttctg acaggatcca acgccaagag tatggacctg
3421 ggtactacac caggtgactg tggctgcccc tacatctata agagaggtaa tgactatgtg
3481 gtcattggag tccacacggc tgccgcacgt ggggggaaca ctgtcatatg tgccacccag
3541 gggagtgaag gagaggctac acttgagggt ggtgacaaca aggggactta ctgtggtgca
3601 ccaatcctag gtccagggag tgccccaaca cttagcacca agaccaagtt ctggagatcg
3661 tccacagcat cactcccacc tggcacctat gaaccagcct accttggtgg caaggaccct
3721 agaatcaagg gtggcccttc actacagcag gtcatgaggg aacagttgaa gccattcaca
3781 gagcccagag gtaagccacc aaaaccaagt gtgttagaag ctgccaagaa aaccatcatc
3841 aatgttcttg agcaaacaat tgatccacct gagaaatggt cgttcgcaca agcttgcgcg
3901 tctcttgaca agaccacttc cagtggtcat ccgcatcaca tgcggaaaaa cgactgctgg
3961 aacggggagt ccttcacagg caagctggca gaccaagctt ctaaggccaa cctgatgttt
4021 gaagaaggaa agaacatgac cccagtctac acagctgcgc tcaaggatga gctagttaaa
4081 actgacaaaa tttatggtaa gattaagaag aggcttcttt ggggctcgga cttggcgacc
4141 atgatccggt gtgctcgggc attcgggggc ctaatggatg aactcaaagc acactgtgtc
4201 acacttcccg ttagagttgg catgagtatg aatgaggatg gccccatcat cttcgagagg
4261 cattccaggt acacgtacca ctacgatgct gattactctc gatgggattc aacacaacag
4321 agagccgtgt tggcggcagc tctagaaatc atggtaaaat tctccccaga accacatttg
4381 gcccaggtag tcgctgaaga ccttctttct cctagcgtgg tggacgtggg cgacttcaca
4441 atatcaatca acgagggtct tccctctggg gtgccctgca cctcccaatg gaactccatc
4501 gcccactggc ttctcactct ctgcgcgctc tccgaagtca caaacctgtc tcctgatacc
4561 atacaggcta attctctctt ttctttttat ggtgatgatg aaattgttag cacagacata
4621 aaattggacc cagagaaatt gacagcaaaa ctcagagaat acgggttaaa accaacccgc
4681 cctgacaaaa ctgaaggacc ccttgtcatc tctgaagacc tgaatggcct aactttcctg
4741 cggagaactg tgacccgcga cccagctggt tggtttggaa aactggagca gagttcaata
4801 ctcaggcaaa tgtactggac taggggtccc aaccatggag acccatctga gacaatgatt
4861 ccacattccc aaagacccat acaattgatg tccctactgg gggaggccgc tctccacggc
4921 ccagcatttt acagtaaaat tagcaaattg gtcattgcag agctaaaaga aggtggtatg
4981 gacttttacg tgcccagaca agagccaatg ttcagatgga tgaggttctc agatctgagc
5041 acgtgggagg gcgatcgcaa tctggctccc agttttgtga atgaagatgg cgtcgagtga
5101 cgccaaccca tctgatgggt ccgcagccaa cctcgtccca gaggtcaaca atgaggttat
5161 ggctctggag cccgttgttg gtgccgctat tgcggcacct gtagcgggcc aacaaaatgt
5221 aattgacccc tggattagaa acaattttgt acaagcccct ggtggagagt ttacagtgtc
5281 ccccagaaac gctccaggtg aaatactatg gagcgcaccc ttaggccctg atttaaatcc
5341 ctacctatcc cacttggcca gaatgtataa tggttatgca ggtggttttg aagtgcaggt
5401 gattctcgcg gggaacgcgt tcaccgccgg gaaggtcata ttcgcagcag tcccaccaaa
5461 ttttccaact gaaggcttga gccccagcca ggtcactatg ttcccccata tagtagtgga
5521 tgttaggcaa ctagaacctg tgttgattcc cttacccgat gttaggaata atttctacca
5581 ttacaaccaa tcaaatgatc ccaccattaa gttgatagca atgttatata caccacttag
5641 ggctaataat gctggggatg atgtcttcac agtttcttgc cgagtcctca cgaggccatc
5701 ccccgatttt gatttcatat ttctagtgcc acccacagtt gagtctagaa ccaaaccatt
5761 ttctgtccca gttttaactg ttgaggagat gaccaattca agattcccca ttcctttgga
5821 aaagttgttc acgggtccca gcagtgcctt tgttgttcaa ccacaaaacg gtaggtgcac
5881 gactgatggc gtgctcctag gcaccaccca attgtctcct gtcaacatct gtaccttcag
5941 aggggatgtc acccacattg caggtagtcg taactacaca atgaatttgg cttctcaaaa
6001 ttggaacaac tatgacccaa cagaagaaac cccagcccct ctaggagctc cagattttgt
6061 ggggaagatt caaggcatgc tcacccaaac cacaagggca gatggctcaa cacgcggcca
6121 caaggctacg gtgtacactg ggagcgccga cttcgctcca aaactgggca gagttcaatt
6181 tgaaactgac acagatcatg attttgaagc taaccaaaac acaaagttca ccccagtcgg
6241 tgtcatccaa gatggtagca ccacccaccg aaatgaaccc caacagtggg tgctcccaag
6301 ttactcaggc agaaataccc ataatgttca tctggccccc gctgtggccc ccacttttcc
6361 gggtgaacaa cttctcttct ttagatccac catgcccgga tgtagcgggt atcccaacat
6421 ggacttggac tgcttgctcc cccaggaatg ggtgcagtac ttctaccaag aggcagcccc
6481 agcacaatct gatgtggccc tgctaagatt tgtgaatcca gacacaggta gggttttgtt
6541 tgaatgtaag cttcataaat caggctatgt tacagtggct cacactggcc agcatgattt
6601 ggtcatcccc cccaatggtt attttaggtt tgattcctgg gtcaaccagt tctacacgct
6661 tgcccccatg ggaaatggaa cggggcgtag acgcgtagta taatggctgg agctttcttt
6721 gctgggttag cctctgatgt cctcggctct ggacttggtt cccttatcaa tgctggggct
6781 ggggccatca accaaaaagt tgagtttgaa aataacagaa aattacaaca agcatccttc
6841 caatttagca gtaatttaca acaggcttcc tttcaacatg acaaagaaat gctccaagca
6901 caaattgagg ccaccaaaaa gctgcaacag gaaatgatga aagttaagca ggcaatgctc
6961 ctagagggtg ggttctctga aacagatgca gcccgcgggg caatcaacgc ccctatgaca
7021 aaagctttgg actggagcgg gacaaggtac tgggctcctg atgctaggat tacaacttat
7081 aatgcaggcc gcttttccac ccctcaacca tcgggggtac taccaggaag agctaatctt
7141 agggatgctg tccctgctcg gggttcctct aaatcctcta actcttctac tgctacttct
7201 gtgtactcaa atcaaaccac ttcaacgaga cttggttcta cagccggttc tggtgccagt
7261 gtctcgagtc tcccgtcaac tgcaagaacc aggagctggg ttgaggatca aagtaggaat
7321 ttgtctcctt tcatgagggg ggcccacaac atatcgtttg tcaccccacc atctagcaga
7381 tcctctagcc aaggcacagt ctcaaccgtg cctaaagagg ttttggactc ctggactggc
7441 gctttcaaca cgcgcaggca gcctctcttc gctcacattc gtaaacgagg ggagtcacgg
7501 gcgtaatgtg aaaagacaaa a
//