Typing tool
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Typing tool
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Complete norovirus genomes
| PQ195925 | GII.4 Sydney | |
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| GII.P4 New Orleans |
ORF1: 1..5100
ORF2: 5081..6703
ORF3: 6703..7509
LOCUS PQ195925 7524 bp RNA linear VRL 01-JAN-2025
DEFINITION Norovirus GII isolate Hu/GII.4 Sydney[P4]/Medina0067/2023/USA
nonstructural polyprotein (ORF1), VP1 (ORF2), and VP2 (ORF3) genes,
complete cds.
ACCESSION PQ195925
VERSION PQ195925.1
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JOURNAL Unpublished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[P4]/Medina0067/2023/USA"
/isolation_source="stool"
/host="Homo sapiens"
/db_xref="taxon:122929"
/geo_loc_name="USA"
/collection_date="25-May-2023"
/note="genotype: GII.4 Sydney[P4]"
gene 1..5100
/gene="ORF1"
CDS 1..5100
/gene="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="XEJ39087.1"
/translation="MKMASNDASAAAVANSNNDIAKSSSDGVLSSMAVTFKRALGARP
KQPPPREKQQKPPRPSTPELVKCIPPPPPNGEDEVVVSYSVKDGVSGLPDLTTVRQPE
ESNTAFSVPPLNLRENKDAKEPLTGTILEMWDGEIYHYGLYVDRGLVLGVHKPPAAVS
LAKIELAPLSLYWRPVYTPQYLISPDTLKKLSGETFPYTAFDNNCYAFCCWVLDLNDS
WLSRRMIQRTTGFFRPYQDWNRKPLPTMDDSKIKKVANIFLCALSSLFTRPIKDIIGK
IRPLNILNILASCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPED
LAVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFP
KKEEKNELAMVRAIEDAVLDLEAIENNHLTTLLKDKDSLATYMRTLDLEEEKARKLST
KSASPDIVGTINALLARIAAARSLVHRAKEELSSRPRPVVLMISGRPGIGKTHLAREV
AKKIASSLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTC
PLTLNCDRIENKGKVFDSDVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEK
AKRDFPGQPDMWKNAFSPDFSHIKLALAPQGGFDKNGNTPHGKGVMKTLTTGSLIARA
SGLLHERLDEFELQGPALTTFNFDRNKVLAFRQLAAENKYGLVDTMKVGRQLKDVKTM
PELKQALKNVSIKKCQIVYSGNTYILESDGKGNVKVDKVQSAAVQINNELAGALHHLR
SARIRYYVKCVQEALYSIIQIAGAAFVTTRIAKRMNIQNLWSKPQVEDTEETANKDGC
PKPKDDEEFVVSSDDIKTEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNG
KYSIEEYLQDRDKYYEELAIARATEEDFCEEEEARIRQRIFRPTRKQRKEERASLGLV
TGSEIRKRNPEDFKPKGKLWADDDRSVDYNEKLSFEAPPSIWSRIVNFGSGWGFWVSP
SLFITTTHVIPQGAKEFFGVSIKQIQIHKSGEFCRLRFPKPIRTDVTGMILEEGAPEG
TVVSLLIKRPTGELMPLAVRMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGD
CGCPYIYKRGNDYVAIGVHTAAARGGNTVICATQGSEGEATLEGGDNKGTYCGAPILG
PGNAPTLSTKTKFWRSSTASLPPGTYEPAYLGGKDPRVKGGPSLQQVMREQLKPFTEP
RGKPPKPSVLEAAKKTIINVLEQTIDPPEKWSFAQACASLDKTTSSGHPHHVRKNDYW
NGESFTSKLADQASKANLMFEEGKNMTPVYTAALKDELVKTDKIYGRIKKRLLWGSDL
ATMVRCARAFGGLMDELKAHCITLPIRVGMNMNEDGPIIFEKHSRYAYHYDADYSRWD
STQQRAVLAAALEIMVKFSSEPHLAQVVAEDLLSPSVVDVGDFTISINEGLPSGVPCT
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="XEJ39088.1"
/translation="MKMASSDANPSDGSAANLVPEVNSEVMALEPVVGAAIAAPVAGQ
QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
FEVQVILAGNAFTAGKIIFAAVPPNFPTEGLSPSQVTMFPHIIVDVRQLEPVLIPLPD
VRNNFYHYNQSNDSTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFSVPILTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT
QLSPVNICAFRGDVTHIAGSRNFTMNLASQNWNNYDPTEEIPAPLGTPDFVGKIQGML
TQTTRTDGSTRGHKATVYTGSADFAPKLGRVQFETDTDHDFEANQNTKFTPVGVIQDG
STTHRNEPQQWVLPSYSGRNTHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD
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="XEJ39089.1"
/translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA
SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQEMMRVKQAMLLEGGFSETDAARGAIN
APMTKALDWSGTRYWAPDARITTYNAGHFSTPQPSGALPGRANLRDAAPARGSSTKPS
NSSTATSVYSNQTISTRLGSTAGSGTSVSSLPSTARTRGWVEDQNRNLSPFMRGAHNI
SFVTPPSSRSSSQGTVSTVPKEVLDSWTGAFNTRRQPLFAHIRKRGESRV"
ORIGIN
1 atgaagatgg cgtctaacga cgcttccgct gccgctgttg ctaacagcaa caacgacatc
61 gcaaaatctt caagtgacgg agtgctttct agcatggctg tcacttttaa acgagccctc
121 ggggcgaggc ccaaacagcc tcccccgagg gaaaaacaac aaaaaccccc acgaccatcc
181 actccagaat tggtcaaatg tatcccccct cccccaccca acggggagga tgaagtggtg
241 gtttcctaca gtgtcaaaga tggtgtttct ggcttgcctg accttaccac cgtcaggcaa
301 ccggaagagt ctaacacggc ctttagtgtc cctccactca acctgaggga gaacaaagat
361 gccaaggagc cactcactgg aacgattctg gaaatgtggg atggggaaat ctaccattat
421 ggcctgtatg tggaccgggg cctcgtacta ggtgtgcaca aaccaccagc tgccgttagc
481 ctcgctaaga ttgagctagc accactctcc ttgtactgga gacccgtgta cacccctcag
541 tacctcatct caccggacac tctcaaaaag ttgtccggag agacgttccc ctatacagcc
601 tttgacaaca actgttatgc cttttgctgc tgggtcctgg acctaaatga ctcgtggctg
661 agcaggagaa tgatccagag aacaactggt ttcttcaggc cctaccaaga ttggaatagg
721 aagccccttc ccaccatgga tgactccaaa ataaagaagg tagccaacat tttcctgtgt
781 gctctgtcct cactgttcac cagacccata aaggatataa tagggaagat aaggccactc
841 aacatcctca acatcttagc ctcatgtgat tggacttttg caggcatagt agagtccctg
901 attctcttgg cagaactctt tggagttttc tggacacccc cagatgtgtc tgcgatgatc
961 gcccccttac tcggtgacta cgagctgcaa ggacctgaag accttgcggt ggagcttgtc
1021 cccgtggtga tgggggggat tggtttggtg ctaggattca ccaaagagaa gattgggaaa
1081 atgttgtcat cagctgcatc tacattgaga gcttgtaaag accttggcgc atatgggctg
1141 gagatcctaa agttggtcat gaaatggttc ttcccaaaga aggaggagaa aaatgaactg
1201 gctatggtga gggctatcga ggatgcagtc ctagatctcg aggcaattga aaacaaccac
1261 ttgaccacct tgctcaaaga caaagacagt ctggcaacct atatgagaac acttgacctt
1321 gaggaggaga aagccaggaa actctcaacc aagtctgcct cgcctgatat cgtgggcaca
1381 atcaacgccc tcttggcgag aatcgccgct gcacgctcgc tggtgcatcg agcgaaggag
1441 gagctttcca gcagaccaag gcctgtagtg ttgatgatat caggtagacc gggaataggg
1501 aagacccacc tcgctaggga agtggctaag aaaatcgcat cctccctcac aggggaccag
1561 cgtgtgggcc tcatcccacg caatggtgtc gaccattggg atgcgtacaa gggggagagg
1621 gtcgtcctat gggacgatta tggaatgagc aaccccatcc acgacgccct caggctgcaa
1681 gaactcgctg acacctgccc cctcacatta aactgtgata gaattgagaa taaaggaaag
1741 gtctttgaca gtgatgtcat tatcatcacc accaatctag ccaacccagc accactggac
1801 tatgtcaact ttgaagcgtg ctcgagacgc atcgatttcc tcgtgtatgc agaagcccct
1861 gaggtcgaaa aggcgaagcg tgacttccca ggccaacctg acatgtggaa aaacgccttc
1921 agtcctgatt tctcacacat aaaactagca ctggccccac agggcggttt cgacaagaac
1981 gggaacaccc cacacgggaa gggcgtcatg aagactctca ccactggctc cctcattgcc
2041 cgggcatcag ggctactcca tgaaaggtta gatgaatttg aactacaggg cccagctctc
2101 accaccttca atttcgaccg caacaaggtg ctcgccttca gacagcttgc tgcagaaaac
2161 aaatatggat tggtggacac aatgaaagtt gggagacaac tcaaggatgt caaaaccatg
2221 ccagaactca aacaagcact caagaatgtc tcgatcaaga aatgccaaat agtgtatagt
2281 ggtaacacct acatacttga gtctgatggc aagggcaatg tgaaagttga caaagtccaa
2341 agcgccgctg tacaaatcaa caatgagttg gccggtgccc tgcaccactt gaggagcgcc
2401 agaatcaggt actatgtcaa atgtgtccag gaggccctgt actccatcat tcaaattgct
2461 ggagctgcat ttgtcactac gcgcattgcc aagcgcatga acatacaaaa cctatggtcc
2521 aaaccacaag tggaagacac agaggagact gccaacaagg acgggtgccc aaaacctaag
2581 gatgatgagg agttcgtcgt ttcatccgac gacatcaaga ctgagggcaa gaaggggaag
2641 aacaagactg gccgtggcaa gaaacacaca gcattttcaa gcaaaggtct cagtgatgaa
2701 gagtacgatg agtacaagag gatcagagaa gaaaggaatg gtaagtactc catagaagag
2761 taccttcagg acagagacaa atactatgag gagttggcta ttgccagggc gactgaggaa
2821 gacttctgcg aagaagagga ggccaggatc cggcaaagga tttttagacc aacaaggaaa
2881 caacgcaagg aggaaagagc ttctctcggt ctggtcacag gctctgaaat tagaaagagg
2941 aaccctgaag acttcaaacc caaggggaaa ctgtgggctg acgatgacag gagtgtggac
3001 tacaatgaaa agctcagctt tgaggcccca ccaagcatct ggtcaagaat agttaacttt
3061 ggttcaggtt ggggattctg ggtctccccc agcctgttca taacaacaac tcatgtcata
3121 ccccagggtg caaaagagtt ctttggagtc tccatcaaac aaatacagat acacaaatca
3181 ggcgagttct gtcgcttgag attcccaaaa ccaatcagga ctgatgtgac gggcatgatc
3241 ttagaagaag gagctcctga gggcaccgtg gtctcactgc tcatcaagag gcccactgga
3301 gaactcatgc ccctagcagt taggatgggg acccacgcga ccatgaagat tcaagggcgc
3361 accgttggag gccagatggg catgctccta acaggatcca acgccaaaag catggacctg
3421 ggtaccacac caggtgattg tggctgtccc tacatctaca agagaggtaa tgactatgtg
3481 gccattggag ttcacacagc tgccgcacgg gggggaaaca ccgtcatatg tgccacccag
3541 gggagtgaag gagaggccac acttgaaggt ggtgacaaca aagggacata ctgtggtgca
3601 ccaatcttgg gcccagggaa tgctccaaca cttagcacta aaaccaaatt ctggaggtca
3661 tccacagcat cactaccacc tggcacatat gaaccagcgt accttggtgg caaggatccc
3721 agagtcaagg gtggcccttc actacaacag gttatgagag agcagttgaa accatttaca
3781 gagccaagag gcaagccacc aaaaccaagt gtattagaag ctgccaagaa gaccatcatt
3841 aatgtccttg agcaaacaat tgatccacct gagaaatggt cgttcgcaca agcctgcgcg
3901 tccctcgaca agaccacttc cagtggtcat ccgcaccacg tgcggaagaa cgactactgg
3961 aacggggagt cattcacaag caagctagca gaccaagcat ccaaggccaa tcttatgttt
4021 gaagaaggga agaacatgac cccagtctat acagctgcac tcaaggatga gttggttaaa
4081 actgacaaaa tctatggtag gatcaagaag aggctgctct ggggctcgga cctggcaacc
4141 atggtccggt gcgctcgagc attcgggggc ttaatggatg aactcaaagc acactgcatc
4201 acgcttccta tcagagttgg tatgaacatg aacgaggatg gtcccatcat cttcgagaag
4261 cattccaggt acgcatacca ttatgatgct gattactctc gatgggattc aacacaacaa
4321 agggccgtgt tggcagcagc tctagaaatc atggtcaaat tctcctcaga accgcatctg
4381 gcacaagtag ttgcagaaga cctcctttcc cctagtgtgg tggacgtggg cgatttcaca
4441 atatcaatca acgagggtct tccctctggg gtgccctgca cctcccaatg gaactccatc
4501 gcccactggc tactcactct ctgtgcactc tctgaagtta caaacctgtc ccctgatacc
4561 atacaggcca actccctctt ctctttctat ggtgatgatg aaattgtcag cacagacata
4621 aaattggacc cggagaaatt gacagcaaaa ctcagagagt atgggttaaa accaacccgc
4681 cctgacaaaa ctgaaggacc ccttgtcatt tctgaagacc tgaatggcct aaccttcctg
4741 cggagaactg tgacccgcga cccagctggt tggtttggaa aactggagca gagttcaata
4801 ctcaggcaaa tgtactggac taggggccct aaccacggag atccatctga aacaatgatt
4861 ccacactccc aaagacccat acaattgatg tccctactgg gtgaggccgc tcttcacggc
4921 ccagccttct atagcaaaat cagtaaattg gtcattgcag aactaaaaga gggtggcatg
4981 gatttttacg tgcccagaca agagccaatg ttcagatgga tgagattctc agatctgagc
5041 acgtgggagg gcgatcgcaa tctggctccc agttttgtga atgaagatgg cgtcgagtga
5101 cgccaaccca tctgatgggt ccgcagccaa cctcgtacca gaggtcaaca gtgaggttat
5161 ggctttggag cccgttgttg gtgccgctat tgcggcacct gtagcgggcc aacaaaatgt
5221 aattgacccc tggattagaa ataattttgt acaagcccct ggtggggagt ttacagtatc
5281 ccctagaaat gctccaggtg aaatactatg gagcgcgccc ctaggtcctg acctaaatcc
5341 ctacctatca catttggcca gaatgtacaa tggttatgca ggtggttttg aagtgcaggt
5401 aattctcgcg gggaacgcgt tcaccgccgg gaagattata tttgcagcag tcccaccaaa
5461 ttttccaact gaaggcttaa gtcctagcca ggtcactatg tttccccata taatagtaga
5521 tgttagacaa ttggaacctg tgctgatccc cttacccgat gttaggaata acttctatca
5581 ttacaatcag tcaaatgatt ccactattaa gttgatagca atgttgtaca caccacttag
5641 ggctaataat gctggggatg atgttttcac agtctcgtgc cgagttctca cgagaccatc
5701 ccccgatttt gattttatat tcttagtacc acccacagtt gagtcaagaa ctaaaccatt
5761 ctctgtccca attttaactg ttgaggagat gaccaattca agattcccca ttcctttgga
5821 aaaattgttc acaggcccca gcagtgcgtt tgttgttcaa ccacaaaacg gcaggtgcac
5881 aactgatggc gtgctcctag gcaccaccca actttctcct gtcaacatct gcgccttcag
5941 aggggatgtc acccacatcg caggtagtcg caacttcact atgaacttgg cttctcaaaa
6001 ttggaacaac tatgacccaa cagaagaaat cccagccccc ctaggaactc cagattttgt
6061 ggggaagatc caaggcatgc tcacccaaac cacaaggaca gatggttcaa cacgcggcca
6121 caaagccaca gtgtacactg ggagcgccga ctttgctcca aaactgggta gagtccaatt
6181 tgaaactgac acagaccatg actttgaagc taatcaaaac acaaagttca ccccagtcgg
6241 tgtcatccaa gatggtagca ccacccaccg aaacgaaccc caacagtggg tgctcccaag
6301 ttactcaggc agaaataccc acaatgtaca tttggccccc gctgtagccc ccacctttcc
6361 gggtgagcaa ctcctcttct tcagatccac catgcccggg tgcagcgggt accccaacat
6421 ggatttggac tgtctgctcc cccaggaatg ggtgcagtac ttctaccaag aggcagcccc
6481 agcacaatct gatgtggctc tgctaagatt tgtgaatcca gacacaggta gggttctgtt
6541 tgagtgcaag ctccacaaat caggctatgt tacagtggct cacactggtc aacatgattt
6601 ggttatcccc cccaatggtt actttaggtt tgattcctgg gtcaatcagt tctacacgct
6661 tgcccccatg ggaaatggaa cggggcgtag acgtgcagta taatggctgg agctttcttt
6721 gctggattgg catctgatgt ccttggctct ggacttggtt cccttatcaa tgctggggct
6781 ggggccatca accaaaaggt tgagtttgaa aataacagaa aattgcaaca agcatccttc
6841 caatttagca gcaatttgca acaggcttcc tttcaacatg acaaagagat gctccaagca
6901 caaattgagg ccaccaaaaa gctacagcag gaaatgatga gagttaagca ggcaatgctc
6961 ctagagggtg ggttctctga gacagatgca gcccgcgggg caattaacgc ccccatgaca
7021 aaggctttgg actggagcgg gacaaggtac tgggctccag atgctagaat tacaacatac
7081 aatgcaggcc acttttccac ccctcaacca tcgggggcac tgccaggaag ggctaatctt
7141 agggatgctg cccctgctcg tggatcctcc accaaacctt ctaactcttc tactgctacc
7201 tctgtgtatt caaatcaaac tatttcaacg agacttggtt ctacagctgg ttctggaacc
7261 agtgtctcga gcctcccgtc aactgcaaga actaggggct gggttgagga tcagaatagg
7321 aatttgtcac ctttcatgag gggggcccac aacatatcat tcgtcacccc accatctagc
7381 agatcctcta gccaaggcac agtctcaacc gtgcctaaag aagttttgga ctcctggact
7441 ggcgctttca acacgcgcag gcagcctctt ttcgctcaca ttcgtaagcg aggggagtca
7501 cgggtataat gtgaaaagac aaaa
//