Typing tool
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Typing tool
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Complete norovirus genomes
| PQ195916 | GII.4 Sydney | |
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| GII.P4 New Orleans |
ORF1: 1..5100
ORF2: 5081..6703
ORF3: 6703..7506
LOCUS PQ195916 7521 bp RNA linear VRL 01-JAN-2025
DEFINITION Norovirus GII isolate Hu/GII.4 Sydney[P4]/Lorain0066/2022/USA
nonstructural polyprotein (ORF1), VP1 (ORF2), and VP2 (ORF3) genes,
complete cds.
ACCESSION PQ195916
VERSION PQ195916.1
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JOURNAL Unpublished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]/Lorain0066/2022/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[P4]"
gene 1..5100
/gene="ORF1"
CDS 1..5100
/gene="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="XEJ39060.1"
/translation="MKMASNDASAAAVANSNNDTAKSSSDGVLSSMAVTFKRALGARP
KQPPPREKPQRPLRPPTPELVKNIPPPPPNGEDEIVVTYSVKDGVSGLPDLSTVRQPE
ESNTAFSVPPLNQRENRDAKEPLTGTILEMWDGEIYHYGLYVERGLVLGVHKPPAAIS
LAKVELAPLSLYWRPVYTPQYLISPDTLKKLSGETFPYTAFDNNCYAFCCWVLDLNDS
WLSRRMIQRTTGFFRPYQDWNRKPLPTMDDSKIKKVANIFLCALSSLFTRPIKDIIGK
IRPLNILNILASCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPED
LAVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFP
KKEEANELAMVRSIEDAVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARKLST
KSASPDIVGTINALLARIAAARSLVHRAKEELSSRPRPVVLMISGRPGIGKTHLAREV
AKRIAASLTGDQRVGLVPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTC
PLTLNCDRIENKGKVFDSDVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPDVEK
AKRDFPGQPDMWKNAFSSDFSHIKLALAPQGGFDKIGNTPHGKGVMKTLTTGSLIARA
SGLLHERLDEFELQGPALTTFNFDRNKVLAFRQLAAENKYGLMDTMRVGKQLKDVRTM
PELKQALKNVSIKKCQIVYNGCTYMLESDGKSNVKVDRIQSAAVQTNNELAGALHHLR
CARIRYYVRCVQEALYSIIQIAGAAFVTTRIAKRMNIQDLWSKPQVENTEETTSKDGC
PKPKDDEEFVISSDDIKTEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNG
KYSIEEYLQDRDKYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERVSLGLV
TGSEIRKRNPDDFKPKGKLWADDDRSVDYNEKLSFEAPPSIWSRIVNFGSGWGFWVSS
SLFITSTHVIPQGAKEFFGVPIKQIQVHKSGEFCRLRFPKPIRTDVTGMILEEGAPEG
TVVTLLIKRSTGELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGD
CGCPYIYKRGNDYVVIGVHTAAARGGNTVICATQGSEGEATLEGGDNKGTYCGAPILG
PGSAPTLSTKTKFWRSSTASLPPGTYEPAYLGGKDPRVKGGPSLQQVMREQLKPFTEP
RGKPPRPSVLEAAKKTIINALEQTIDPPEKWSFAQACASLDKTTSSGHPHHMRKNDCW
NGESFTGKLADQASKANLMFEEGKSMTPVYTAALKDELVKTDKIYGKIKKRLLWGSDL
ATMIRCARAFGGLMDELKAHCVTLPVRVGMNMNEDGPIIFERHSRYTYHYDADYSRWD
STQQRAVLAAALEIMVKFSPEPHLAQVVAEDLLSPSVVDVGDFTISINEGLPSGVPCT
SQWNSIAHWLLTLCALSEVTNLAPDIIQANSLFSFYGDDEIVSTDIKLDPEKLTAKLR
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="XEJ39061.1"
/translation="MKMASSDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ
QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
FEVQVILAGNAFTAGKVIFAAVPPNFPTEGLSPSQVTMFPHIVVDVRQLEPVLIPLPD
VRNNFYHYNQSNDPTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT
QLSPVNICTFRGDVTHIAGSRNYTMNLASQNWNNYDPTEEIPAPLGAPDFVGKIQGML
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="XEJ39062.1"
/translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA
SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQEMMKVKQAMLLEGGFSETDAARGAIN
APMTKALDWSGTRYWAPDARTTTYNAGRFSTPQPSGVPPGRANLKDAVPARGSSKSSN
SSTATSLYSNQTTSTRLGSTAGSGTSVSSLPSTARTRSWVEDQNRNLSPFMRGAHNIS
FVTPPSSRSSSQGTVSTVPKEVLDSWTGAFNTRRQPLFAHIRKRGESRA"
ORIGIN
1 atgaagatgg cgtctaacga cgcttccgct gccgctgttg ctaacagcaa caacgacacc
61 gcaaaatctt caagtgacgg agtgctttct agcatggctg tcacttttaa acgagccctc
121 ggggcgcggc ctaaacaacc ccccccgagg gagaaaccac aaagacccct acgaccaccc
181 acaccagaac tggttaaaaa catccccccc cccccaccca acggagagga cgaaatagtg
241 gttacttata gtgtcaaaga tggtgtttcc ggcttgcctg acctttccac cgtcagacag
301 ccggaagaat ccaacacggc cttcagtgtc cccccactca atcagaggga aaacagagat
361 gctaaggaac cactcactgg aacaattctg gaaatgtggg acggggaaat ctaccattat
421 ggcctgtatg tggagcgagg tcttgtatta ggcgtacaca agccgccagc tgccatcagc
481 ctcgctaagg ttgagttggc gccactctcc ttatactgga ggcctgtgta cacccctcag
541 tacctcatct ctccagacac tctcaagaaa ctgtccgggg aaacgttccc ctacacagca
601 tttgacaaca actgctatgc cttttgttgc tgggttctgg acctaaatga ctcgtggctg
661 agcaggagaa tgatccagag gacaactggt ttcttcaggc cctatcaaga ctggaatagg
721 aaacccctac ccactatgga tgactccaaa ataaaaaagg tggccaatat atttttgtgt
781 gccctgtcct cgctattcac caggcccata aaagatataa tagggaaaat aaggcctctt
841 aacatcctca acatcttggc ctcatgtgat tggacctttg cgggcatagt agagtccctg
901 atactcttag cagagctctt tggagttttc tggacacccc cagatgtgtc tgcaatgatt
961 gcccccttac ttggtgacta cgagctacaa ggacctgagg accttgcggt ggagctcgtc
1021 cccgtggtaa tggggggaat tggtttggtg ctaggattca ccaaagagaa aattgggaaa
1081 atgttgtcat cagctgcgtc caccttaaga gcttgcaaag accttggtgc atatgggcta
1141 gagatcctaa agctagtcat gaaatggttc ttcccgaaga aggaggaggc aaatgagctg
1201 gctatggtga ggtccatcga ggatgcagtc ctggatctcg aagcaattga aaacaatcat
1261 atgaccacct tgcttaaaga taaagacagc ctggcaacct acatgagaac actcgacctt
1321 gaagaggaga aagccaggaa actctcaacc aagtctgcct cacctgacat cgtgggcaca
1381 atcaacgccc tcctggcgag aatcgctgcc gcacgttccc tggtgcaccg agcgaaggag
1441 gagctttcca gcagaccaag acctgtggtg ttgatgatat caggcaggcc aggaataggg
1501 aagacccacc tcgctaggga agtggctaag agaatcgcag cctcccttac aggagaccag
1561 cgtgttggtc tcgtcccacg caatggcgtc gatcactggg atgcgtacaa gggggagagg
1621 gtcgtcctat gggacgatta tggaatgagc aaccctattc acgatgccct cagactgcaa
1681 gaactcgctg atacttgccc ccttacccta aactgtgaca ggattgaaaa caaaggaaaa
1741 gtctttgaca gcgatgtcat cattattacc actaatctgg ccaatccagc cccactggac
1801 tatgtcaact ttgaagcatg ctcgaggcgc attgacttcc tcgtatatgc agaagcccct
1861 gacgtcgaaa aggcgaagcg tgacttccca ggccagcctg atatgtggaa gaacgctttc
1921 agttccgatt tctcacacat aaaactagca ctggccccac agggtggttt cgacaagatc
1981 gggaacaccc cacacggaaa gggcgtcatg aagactctca ccaccggctc ccttattgcc
2041 cgggcatcag ggctactcca tgagaggtta gatgaatttg aactgcaggg cccagctctc
2101 accaccttca atttcgatcg caataaagtg cttgccttta gacagcttgc tgctgaaaac
2161 aaatatggac tgatggacac aatgagggtt gggaaacagc tcaaggatgt cagaaccatg
2221 ccagaactca aacaagcact caagaatgtc tcaatcaaga agtgtcaaat agtgtataat
2281 ggttgcacct acatgcttga gtctgatggc aagagcaatg tgaaagttga caggatccag
2341 agcgccgccg tgcagaccaa caatgagctg gctggtgccc tgcaccactt gaggtgcgcc
2401 agaatcagat actatgtcag gtgtgtccag gaagccctgt attccatcat tcaaattgct
2461 ggggctgcat ttgtcaccac gcgcattgcc aagcgcatga acatacagga tctatggtcc
2521 aagccacaag tggaaaatac agaggaaact accagcaagg acgggtgccc aaaacccaag
2581 gatgatgagg agtttgtcat ttcatccgac gatatcaaaa ctgagggcaa gaaagggaag
2641 aacaagactg gccgtggcaa gaagcacaca gcattttcaa gcaaaggcct cagtgatgag
2701 gagtacgatg aatacaagag gatcagagaa gaaaggaatg gcaagtactc tatagaagag
2761 tacctccagg acagggataa atattatgag gaggtggcca ttgccagagc gactgaggaa
2821 gacttctgtg aagaggagga agccaagatc cgacaaagga tctttaggcc aacaaggaaa
2881 caacgcaagg aggaaagagt ctctctcggt ttagtcacgg gctctgaaat taggaaaaga
2941 aacccagatg acttcaaacc caaggggaaa ttgtgggctg acgatgacag gagtgtggac
3001 tacaatgaaa aactcagttt tgaggccccg ccaagcattt ggtcgagaat agtcaacttt
3061 ggttcaggct ggggattctg ggtctcctcc agcttgttca taacatcaac ccatgttata
3121 ccccagggcg caaaggagtt ctttggagtc cccatcaaac aaatacaggt acacaagtca
3181 ggcgagtttt gccgcttgag attccctaaa ccaatcagga ctgatgtgac gggcatgatc
3241 ttagaagaag gcgcacctga gggcaccgtg gttacactac tcatcaaaag atccaccggg
3301 gaacttatgc ccctagcagc taggatgggg actcatgcga ccatgaagat ccaagggcgc
3361 actgttgggg gccagatggg catgcttcta acaggatcca acgccaagag tatggacctg
3421 ggtactacac caggtgattg tggctgtccc tacatctaca agagaggtaa tgactatgtg
3481 gtcattggag tccatacggc tgccgcacgt ggggggaaca ctgtcatatg tgccacccag
3541 gggagtgaag gagaggctac acttgagggt ggtgacaaca aggggactta ctgtggtgca
3601 ccaatcctag gcccagggag tgccccaaca cttagcacca agaccaaatt ctggagatcg
3661 tccacagcat cactcccacc tggcacctat gaaccagcct atcttggtgg caaggaccct
3721 agagtcaagg gtggcccttc gctacagcaa gtcatgaggg aacagttgaa gccattcaca
3781 gagcccagag gtaagccacc aagaccaagt gtgttagaag ctgccaagaa aaccatcatc
3841 aatgctcttg agcaaacaat cgatccacct gagaaatggt cgttcgcaca agcttgtgcg
3901 tctcttgaca agaccacttc cagtggtcat ccgcatcaca tgcggaaaaa cgactgctgg
3961 aacggggagt ccttcacagg caagctggca gaccaggctt ctaaggccaa cctgatgttt
4021 gaagaaggaa agagcatgac cccagtctac acagctgcgc tcaaggatga gctagttaaa
4081 actgacaaaa tttatggtaa gattaagaag aggcttcttt ggggctcgga cttggcgacc
4141 atgatccggt gtgcacgggc attcggaggc ctaatggatg aactcaaagc acactgtgtc
4201 acacttcccg ttagagttgg catgaatatg aatgaggatg gccccatcat cttcgagagg
4261 cattccaggt acacgtacca ctatgatgct gattactctc gatgggattc aacacaacag
4321 agagccgtat tggcggcagc tctagaaatc atggtaaaat tctccccaga accacacttg
4381 gcccaggtag tcgctgaaga ccttctttct cctagcgtgg tagacgtggg cgacttcaca
4441 atatcaatca acgagggcct tccctctggg gtgccttgca cctcccaatg gaactccatc
4501 gcccactggc ttctcactct ctgcgcgctc tccgaagtca caaacctggc tcctgatatc
4561 atacaggcta attctctctt ttctttttat ggtgatgatg aaattgttag cacagacata
4621 aaattggacc cggagaaatt gacagcaaaa ctcagagaat acgggttaaa accaacccgc
4681 cctgacaaaa ctgaaggacc ccttgtcatc tctgaagacc ttaatggcct aactttcctg
4741 cggagaactg tgacccgcga cccagctggt tggtttggaa aactggagca gagttcaata
4801 ctcaggcaaa tgtactggac cagaggtccc aaccatggag acccatctga aacaatgatt
4861 ccgcattccc aaagacccat acaattgatg tccctgctgg gggaggccgc tctccacggc
4921 ccagcatttt atagtaaaat tagcaaattg gtcattgcag agctaaaaga aggtggtatg
4981 gatttttacg tgcccagaca agagccaatg ttcagatgga tgagattctc 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 ttaggtcctg atttaaaccc
5341 ctacctatcc cacttggcca gaatgtataa tggttatgca ggtggttttg aagtgcaggt
5401 gattctcgcg gggaacgcgt tcaccgccgg gaaggtcata tttgcagcag tcccaccaaa
5461 ttttccaact gaaggcttga gccccagcca ggtcactatg ttcccccata tagtagtgga
5521 tgttaggcaa ctagaacctg tgttgattcc cttacccgat gttaggaata atttctacca
5581 ttacaatcaa tcaaatgatc ccaccattaa gttgatagca atgttgtata caccacttag
5641 ggctaataat gctggggatg atgttttcac agtttcttgc cgagttctca caaggccatc
5701 ccccgatttt gatttcatat ttctagtgcc acccacagtt gagtctagaa ccaaaccatt
5761 ttctgtccca gttttaactg ttgaggagat gactaattca agattcccca ttcctttgga
5821 aaagttgttc acgggtccca gcagtgcctt tgttgttcaa ccacagaacg gtaggtgtac
5881 gactgatggt gtgctcctag gcaccaccca gttgtcccct gtcaacatct gcaccttcag
5941 aggggatgtc acccacattg cgggtagtcg taactacaca atgaacttgg cttctcaaaa
6001 ttggaacaat tatgacccaa cagaagaaat cccagcccct ctaggagctc cagattttgt
6061 ggggaagatt caaggcatgc tcacccaaac cacaagggca gatggctcaa cccgcggcca
6121 caaggctacg gtgtacactg ggagcgccga cttcgctcca aaactgggca gagtccaatt
6181 tgaaactgac acagaccatg attttgaagc taaccaaaac acaaagttca ccccagtcgg
6241 tgtcatccaa gatggtagca ccacccaccg aaatgaaccc caacagtggg tgctcccaag
6301 ttactcaggc agaaatactc ataatgttca tcttgccccc gctgtggccc ccacttttcc
6361 gggtgaacaa cttctcttct ttagatccac catgcccgga tgtagcgggt atcccaacat
6421 ggatttggac tgtttgctcc cccaggaatg ggtgcagtac ttctaccaag aggcagcccc
6481 agcacaatct gatgtggccc tgctaagatt tgtgaatcca gacacaggta gggttttgtt
6541 tgagtgtaaa cttcataagt caggctatgt cacagtggcc cacactggcc aacatgattt
6601 ggtcatcccc cccaatggtt attttaggtt tgattcctgg gtcaatcagt tctacacgct
6661 tgcccccatg ggaaatggaa cggggcgtag acgcgtagta taatggctgg agctttcttt
6721 gctgggttag catctgatgt cctcggctct ggacttggtt cccttatcaa tgctggggct
6781 ggggccatca accaaaaagt tgagtttgaa aataacagaa aattgcaaca ggcatccttc
6841 caatttagca gcaatttaca acaggcttcc tttcaacatg acaaagaaat gctccaagca
6901 caaattgagg ctaccaagaa gctacaacag gaaatgatga aagttaagca ggcaatgctc
6961 ctagagggtg ggttctctga aacagatgca gcccgcgggg caatcaacgc ccccatgaca
7021 aaagctttgg actggagcgg gacaaggtac tgggctcctg atgctaggac tacaacttat
7081 aatgcaggcc gcttttccac ccctcaacca tcgggggtac caccaggaag agctaatctt
7141 aaggatgctg tccctgctcg gggttcctct aaatcttcta attcttctac tgctacttct
7201 ttgtattcaa atcaaaccac ttcaacgaga cttggttcta cagctggttc tggtaccagt
7261 gtctcgagtc tcccgtcaac tgcaaggacc aggagctggg ttgaggatca gaataggaat
7321 ttgtctcctt ttatgagggg ggcccacaac atatcgtttg tcaccccacc atctagcaga
7381 tcctctagcc aaggcacagt ctcaaccgtg cctaaagagg ttttggactc ctggactggc
7441 gctttcaaca cgcgcaggca gcctctcttc gctcacattc gtaaacgagg ggagtcacgg
7501 gcgtaatgtg aaaagacaaa a
//