Typing tool
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Typing tool
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Complete norovirus genomes
| MW305546 | GII.4 Den Haag | |
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| GII.P4 Den Haag |
ORF1: 1..5069
ORF2: 5050..6672
ORF3: 6672..7478
LOCUS MW305546 7520 bp RNA linear VRL 18-JUL-2024
DEFINITION Norovirus GII isolate PNV007866 nonstructural polyprotein (ORF1)
gene, partial cds; and VP1 (ORF2) and VP2 (ORF3) genes, complete
cds.
ACCESSION MW305546
VERSION MW305546.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norovirus norwalkense.
REFERENCE 1 (bases 1 to 7520)
AUTHORS Tohma,K., Lepore,C.J., Martinez,M., Degiuseppe,J.I., Khamrin,P.,
Saito,M., Mayta,H., Nwaba,A.U.A., Ford-Siltz,L.A., Green,K.Y.,
Galeano,M.E., Zimic,M., Stupka,J.A., Gilman,R.H., Maneekarn,N.,
Ushijima,H. and Parra,G.I.
TITLE Genome-wide analyses of human noroviruses provide insights on
evolutionary dynamics and evidence of coexisting viral populations
evolving under recombination constraints
JOURNAL PLoS Pathog 17 (7), e1009744 (2021)
PUBMED 34255807
REMARK Publication Status: Online-Only
REFERENCE 2 (bases 1 to 7520)
AUTHORS Tohma,K., Lepore,C.J., Martinez,M., Degiuseppe,J.I., Khamrin,P.,
Saito,M., Mayta,H., Nwaba,A., Ford-Siltz,L.A., Galeano,M.E.,
Zimic,M., Stupka,J.A., Gilman,R.H., Maneekarn,N., Ushijima,H.,
Green,K.Y. and Parra,G.I.
TITLE Direct Submission
JOURNAL Submitted (23-NOV-2020) CBER/OVRR/DVP/LHV, U.S. Food and Drug
Administration, 10903 New Hampshire Avenue, Silver Spring, MD
20993, USA
COMMENT ##Assembly-Data-START##
Assembly Method :: High-performance Integrated Virtual
Environment (HIVE) v. 2
Sequencing Technology :: Illumina
##Assembly-Data-END##
FEATURES Location/Qualifiers
source 1..7520
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="PNV007866"
/isolation_source="feces"
/host="Homo sapiens"
/db_xref="taxon:122929"
/geo_loc_name="Peru"
/collection_date="25-Jun-2008"
/note="genotype: GII.4[GII.P4]"
gene <1..5069
/gene="ORF1"
CDS <1..5069
/gene="ORF1"
/codon_start=3
/product="nonstructural polyprotein"
/protein_id="QPJ58974.1"
/translation="AVANSNNDTAKSSSDNMFSNMAVTFKRALGARPKQPPPRETPQR
PPRPPTPELVKKIPPPPPNGEDEVVVSYSAKDGVSGLPELSTVRQPEETNTAFSVPPL
NQRENRDAKEPLTGTILEMWDGEIYHYGLYVDRGLVLGVHKPPAAISLAKVELTPLSL
FWRPVYTPQYLISPDTLKKLHGETFPYTAFDNNCYAFCCWVLDLNDSWLSRRMIQRTT
GFFRPYQDWNRKPLPTMDDSKLKKVANIFLCTLSSLFTRPIKDIIGKLRPLNIINILA
SCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDFELQGPEDLVVELVPVVMG
GIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFPKKEEANELAMV
RSIEDAVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARKLSTKSASPDIVGTI
NALLARIAAARSLVHRAKEELSSRPRPVVLMISGRPGIGKTHLAREVAKRIAASLTGD
QRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTCPLTLNCDRIEN
KGKVFDSDVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEKAKRDFPGQPDM
WKNAFRSDFSHIKLALAPQGGFDKNGNTPHGKGVMKTLTTGSLIARASGLLHERLDEF
ELQGPALTTFNFDRNKVLAFRQLAAENKYGLMDTMKVGRQLKDVKTMPELKQALKNIS
IKKCQIVYSGCTYTLESDGKGNVKVDRVQSTSVQTNNELAGALHHLRCARIRYYVKCV
QEALYSIIQIAGAAFVTTRIIKRVNIQDLWSKPQVENTEEATNKDGCPKPKDDEEFVI
SSDDIKTEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKYSIEEYLQDR
DKYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGLVTGSEIRKRNPE
DFKPKGKLWADDDRSVDYNEKLSFEAPPSIWSRIVNFGSGWGFWVSPSLFITSTHVIP
QGAKEFFGVPIKQIQIHKSGEFCRLRFPKPIRTDVTGMILEEGAPEGTVVTLLIKRST
GELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGDCGCPYIYKRGN
DYVVIGVHTAAARGGNTVICATQGGEGEATLEGGDSKGTYCGAPILGPGSAPKLSTKT
KFWRSSTAPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKPFTEPRGKPPKPSVLE
AAKKTIINVLEQTIDPPEKWSFSQACASLDKTTSSGHPHHMRKNDCWNGESFTGKLAD
QASRANLMFEEGKNMTPVYTGALKDELVKTDKIYGKIKKRLLWGSDLATMIRCARAFG
GLMDELKAHCVTLPIRVGMNMNEDGPIIFEKHSRYRYHYDADYSRWDSTQQRAVLAAA
LEIMVKFSSEPHLAQVVAEDLLSPSVVDVGDFTISINEGLPSGVPCTSQWNSIAHWLL
TLCALSEITNLSPDIIQANSLFSFYGDDEIVSTDIKLDPEKLTAKLKEYGLKPTRPDK
TEGPLVISEDLDGLTFLRRTVTRDPAGWFGKLEQSSILRQMYWTRGPNHEDPSESMIP
HSQRPIQLMSLLGEAALHGPTFYSKISKLVIAELKEGGMDFYVPRQEPMFRWMRFSDL
STWEGDRNLAPSFVNEDGVE"
mat_peptide <1..959
/gene="ORF1"
/product="p48"
mat_peptide 960..2057
/gene="ORF1"
/product="NTPase"
mat_peptide 2058..2594
/gene="ORF1"
/product="p22"
mat_peptide 2595..2993
/gene="ORF1"
/product="VPg"
mat_peptide 2994..3536
/gene="ORF1"
/product="Pro"
mat_peptide 3537..5066
/gene="ORF1"
/product="RdRp"
gene 5050..6672
/gene="ORF2"
CDS 5050..6672
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="QPJ58975.1"
/translation="MKMASNDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ
QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
FEVQVILAGNAFTAGKIIFAAVPPNFPTEGLSPSQVTMFPHIIVDVRQLEPVLIPLPD
VRNNFYHYNQSNDSTIKLIAMLYTPLRANNAGEDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFTVPILTVEEMTNSRFPIPLEKLFTGPSGAFVVQPQNGRCTTDGVLLGTT
QLSPVNICTFRGDVTHIAGSRNYTMNLASLNWNNYDPTEEIPAPLGTPDFVGKIQGVL
TQTTKGNGSTRGHKATVYTGSAPFTPKLGSVQFETDTDNDFETHQNTKFTPVGVVQDG
STTHRNEPQQWVLPSYSGRDVHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD
CLLPQEWVLHFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV
IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRAL"
gene 6672..7478
/gene="ORF3"
CDS 6672..7478
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="QPJ58976.1"
/translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKIDFENNRKLQQA
SFQFSSNLQQASFQHDKEMLLAQIEATKKLQQEMMKVKQAMLLEGGFSETDAARGAIN
APMTKALDWSGTRYWAPDARTTTYNAGRFSTPQPSGTLPGRINPRTPTPARGSSSISS
NASTATSIYSNQTASTRLGSTAGSGTNVSSLPSTARTRSWVEDQNRNLSPFMRGAHNI
SFVTPPSSRSSSQGTVSTVPKEVLDSWTGAFNTRRQPLFAHIRRRGESRV"
ORIGIN
1 ccgctgttgc taacagcaac aacgacaccg caaaatcttc aagtgacaac atgttttcta
61 acatggctgt cacttttaaa cgagccctcg gggcgcggcc taaacagccc cccccgaggg
121 aaacaccaca aagaccccca cgaccaccta ctccagaact ggttaaaaag atcccccccc
181 ccccgcccaa cggagaggat gaagtagtgg tttcttatag cgccaaagat ggcgtttccg
241 gtttgcctga gctttccacc gtcaggcaac cggaagaaac caacacggcc ttcagtgtcc
301 ccccactcaa tcagagggag aatagagatg ctaaggaacc actgactgga acaattctgg
361 aaatgtggga tggagaaatc taccattatg gcctgtatgt tgatcgaggt cttgtgctgg
421 gtgtgcacaa accaccagct gccattagcc tcgccaaggt cgaactaaca ccactctcct
481 tgttctggag acctgtgtac actcctcagt accttatctc tccagacact ctcaagaaat
541 tacacggaga aacatttccc tacacagcct ttgacaacaa ttgctatgcc ttttgttgct
601 gggtcctgga tctaaacgac tcgtggctga gtaggagaat gatccagaga acaactggct
661 tcttcagacc ttaccaagac tggaatagga aacccctccc cactatggat gattccaaat
721 taaagaaggt agctaatata ttcctgtgca ccctgtcttc gctattcacc aggcccataa
781 aagacataat aggaaagtta aggcctctca acatcatcaa catcctggct tcatgtgatt
841 ggactttcgc aggcatagtg gagtccttga tactcttggc agagctcttt ggagtcttct
901 ggacaccccc agatgtgtct gcgatgattg cccccttact cggtgatttc gagttacaag
961 gacctgagga ccttgtagtg gagctcgtcc ctgtagtaat ggggggaatt ggtttggtgc
1021 tagggttcac caaagagaag attggaaaga tgttgtcatc tgctgcatcc accttgagag
1081 cttgtaaaga tcttggtgca tatgggctag agatcctaaa gttagtcatg aagtggttct
1141 tcccgaagaa agaggaggca aacgaactgg ctatggtgag atccatcgag gatgcagtac
1201 tggaccttga ggcaattgaa aacaaccaca tgaccacctt gctcaaagac aaagacagcc
1261 tggcaactta catgagaacc cttgacctcg aggaagagaa ggccagaaaa ctctcaacca
1321 agtctgcttc acctgacatc gtgggcacaa tcaacgccct tctggcgaga atcgccgctg
1381 cacgctccct ggtgcaccgg gcaaaggagg aactttccag cagaccaaga cctgtagtct
1441 tgatgatatc aggcagacca gggataggga agacccacct tgctagggaa gtggctaaga
1501 gaattgcggc ctccctcaca ggagaccagc gtgtaggcct catcccacgc aatggcgtcg
1561 atcactggga tgcgtacaag ggggagaggg tcgtcctatg ggacgactat ggaatgagca
1621 atcccatcca cgacgccctc aggctgcaag aactcgctga cacttgcccc ctcactctaa
1681 attgtgacag gattgagaat aaaggaaagg tctttgacag cgatgttatc attatcacta
1741 ctaatttggc caacccagca ccactggact atgtcaactt tgaagcgtgc tcgaggcgca
1801 tcgattttct cgtgtatgca gaagcccccg aggtcgaaaa ggcgaagcgt gacttcccgg
1861 gccaacctga catgtggaaa aacgctttta ggtctgattt ctcacacata aaattggcac
1921 tggctccaca aggtggcttt gataagaacg ggaacacccc acacgggaag ggtgtcatga
1981 agactctcac cactggctcc ctcattgccc gggcatcagg gctgctccac gagagattgg
2041 atgagtttga gttacagggc ccggctctca ccaccttcaa ctttgaccgc aacaaagtgc
2101 ttgccttcag gcagcttgct gctgaaaaca aatatgggtt gatggacaca atgaaagttg
2161 ggaggcagct caaggatgtt aaaaccatgc cagaactcaa acaagcactc aagaatatct
2221 caatcaagaa gtgtcagatt gtgtatagtg gttgtaccta cacactagag tctgatggca
2281 agggcaatgt gaaagttgac agagttcaga gcacctccgt gcagaccaac aatgagctgg
2341 ctggcgccct gcatcatcta aggtgcgcca gaatcaggta ttatgttaag tgtgtccagg
2401 aggccctgta ttctatcatc cagattgctg gggctgcatt tgtcaccacg cgcatcatca
2461 agcgtgtgaa catccaagac ctatggtcta agccacaagt ggaaaacaca gaggaggcta
2521 ccaacaagga cgggtgccca aaacccaaag atgatgagga gttcgtcatt tcatctgacg
2581 acattaaaac tgagggtaag aaagggaaga acaagactgg ccgtggcaag aagcacacag
2641 ccttctcaag taaaggtctc agtgatgaag agtatgatga gtacaagaga attagagagg
2701 aaaggaatgg caagtactcc atagaggagt acctacagga cagggacaaa tactatgagg
2761 aggtggccat tgccagggcg accgaggaag acttctgtga agaggaggag gccaagatcc
2821 ggcaaaggat cttcagacca acaaggaaac aacgcaagga agaaagagct tctctcggtt
2881 tagtcacagg ttctgaaatc aggaaaagaa acccagaaga cttcaagccc aaggggaagc
2941 tatgggctga cgatgacagg agcgtggact acaatgagaa actcagtttt gaggccccac
3001 caagcatctg gtcaaggata gtcaactttg gctcaggttg gggcttctgg gtctccccta
3061 gcctgttcat aacatcaacc cacgtcatac cccagggcgc aaaggagttc tttggagtcc
3121 ccatcaaaca aattcagata cacaaatcag gcgaattctg tcgcttgagg ttcccaaaac
3181 caatcagaac tgatgtgact ggcatgatct tggaagaagg tgcgcccgaa ggcaccgtgg
3241 tcacactact catcaaaagg tctactggag aactcatgcc cctagcagct agaatgggga
3301 cccatgcaac catgaaaatt caagggcgca ctgttggagg tcagatgggc atgcttctga
3361 cagggtccaa cgccaaaagc atggatctag gcaccacacc aggtgactgc ggctgtccct
3421 acatctacaa gagaggaaat gactatgtgg tcattggagt ccacacggct gccgctcgtg
3481 ggggaaacac tgtcatatgt gccacccagg ggggtgaggg ggaagctaca cttgaaggtg
3541 gtgacagtaa gggaacatac tgtggtgcac caatcctagg cccagggagt gccccaaaac
3601 ttagcacaaa aaccaaattc tggagatcat ccacagcacc actcccacct ggcacctacg
3661 aaccagccta ccttggtggt aaggacccca gagtcaaggg tggcccctcg ttgcagcaag
3721 tcatgaggga ccagctgaaa ccatttacag agcccagggg taagccacca aagccaagtg
3781 tgttagaagc tgccaagaaa accatcatca atgtccttga acaaacaatt gacccacctg
3841 agaagtggtc gttctcacaa gcttgcgcgt cccttgacaa gaccacttct agcggccatc
3901 cgcaccacat gcggaaaaac gactgctgga acggggagtc cttcacaggc aagctggcag
3961 accaggcttc cagggccaac ctgatgtttg aagaagggaa gaacatgacc ccagtttaca
4021 caggtgcact taaggatgaa ttagtcaaaa ctgacaaaat ttatggtaag atcaagaaga
4081 ggcttctctg gggctcggat ttagcaacca tgatccggtg tgcccgagca ttcggaggcc
4141 taatggatga actcaaagca cactgtgtca cacttcctat cagagttggt atgaatatga
4201 atgaggatgg ccccatcatc ttcgagaagc attccagata cagataccac tatgatgctg
4261 attactctcg gtgggattca acacaacaga gagccgtgct ggcagctgct ctagaaatca
4321 tggttaaatt ctcctcagaa ccacatttgg ctcaggtagt cgcagaagat cttctttctc
4381 ctagcgtggt ggatgtgggc gacttcacaa tatcaatcaa cgagggtctt ccctctgggg
4441 tgccctgcac ctctcaatgg aactccatcg cccactggct tctcactctc tgtgcactct
4501 ccgagatcac aaatttatcc ccagacatca tacaggctaa ttctctcttc tccttctatg
4561 gtgatgatga aattgttagt acagacataa aattagaccc agagaagttg acagcaaagc
4621 ttaaggagta tgggttgaaa ccgacccgcc ctgataaaac tgaaggacct cttgttattt
4681 ctgaagattt agatggtttg actttcctgc ggagaactgt gacccgcgac ccagctggtt
4741 ggtttggaaa actggagcag agttcgatac tcaggcaaat gtactggact aggggcccca
4801 accatgaaga tccatctgaa tcaatgattc cacactctca aagacccata caattgatgt
4861 ccttactggg agaggccgca cttcacggcc caacattcta cagcaaaatc agcaaattag
4921 tcattgcaga gcttaaagaa ggtggtatgg atttttacgt gcccaggcaa gagccaatgt
4981 tcagatggat gagattttcg gatctgagca cgtgggaggg cgatcgcaat ctggctccca
5041 gttttgtgaa tgaagatggc gtcgaatgac gccaacccat ctgatgggtc cgcagccaac
5101 ctcgtcccag aggtcaacaa tgaggttatg gctttggagc ccgttgtcgg tgccgctatt
5161 gcggcgcctg tagcgggcca acaaaatgta attgacccct ggattagaaa taattttgtg
5221 caagcccctg gtggagagtt cacagtgtcc cctagaaacg ctccaggtga aatactatgg
5281 agcgcgccct taggccctga tttgaatccc tacctatccc atttggctag aatgtataat
5341 ggttatgcag gtggttttga agtgcaggtg atccttgcgg ggaatgcgtt caccgccgga
5401 aaaattatat ttgcagcagt cccaccaaat ttcccaactg aaggcttgag tcccagccaa
5461 gtcaccatgt tcccccacat aatagtggat gttaggcaat tggaacctgt gttgatcccc
5521 ttacctgatg ttaggaataa cttctatcat tataatcagt caaatgattc taccattaaa
5581 ttgatagcaa tgctgtatac accacttagg gctaacaatg ctggggaaga tgtcttcaca
5641 gtctcttgcc gagtcctcac aaggccatcc cctgattttg attttatatt tttggtgcca
5701 cctacagttg agtcaagaac taaaccattt actgtcccaa tcctaactgt tgaagaaatg
5761 accaattcaa gattccccat tcctttggaa aagttgttca cgggtcccag cggtgccttt
5821 gttgttcaac cacaaaatgg caggtgcacg actgatggcg tgctcttagg caccacccaa
5881 ctgtctcctg tcaacatctg caccttcaga ggggatgtca cccacattgc aggttctcgt
5941 aattacacaa tgaatttggc ttctctaaat tggaacaatt atgacccaac agaagaaatt
6001 ccagcccctc taggaactcc agattttgtg ggaaagatcc aaggtgtgct cactcaaacc
6061 acaaagggaa atggctcgac ccgtggccat aaagctacag tttacaccgg gagtgccccc
6121 tttactccaa agctgggcag tgttcaattc gaaactgaca cagacaatga ttttgaaact
6181 caccaaaaca caaaattcac cccagtcggt gtcgtccagg atggtagcac cacccaccga
6241 aatgaacccc aacaatgggt gctcccaagt tattcaggta gagatgttca taatgtacac
6301 ctagcccctg ctgtagctcc cacttttccg ggtgaacaac ttcttttctt caggtccact
6361 atgcccggat gcagcgggta tcccaacatg gatttggatt gcctactccc ccaggagtgg
6421 gtgctgcact tctaccaaga ggcagcccca gcacaatctg atgtggctct attgagattt
6481 gtgaatccag acacgggtag ggtcctgttt gagtgcaaac ttcataaatc aggttatgtc
6541 acagtggctc acaccggcca gcatgatttg gtcatccccc ccaatggcta ctttaggttt
6601 gattcctggg ttaaccaatt ctacactctt gcccccatgg gaaatggaac ggggcgtaga
6661 cgtgctttat aatggctgga gctttctttg ctggattggc atctgatgtt cttggctctg
6721 gacttggttc cctaatcaat gccggggctg gggctatcaa ccaaaagatt gattttgaaa
6781 acaacagaaa attgcaacaa gcttcctttc agtttagcag caatctacaa caggcttcct
6841 ttcaacatga taaagagatg ctcctagcac aaattgaggc cactaaaaag ttgcaacagg
6901 aaatgatgaa agtcaaacag gcaatgctct tagaaggtgg gttctctgaa acagatgcag
6961 cccgtggggc aatcaacgcc cccatgacaa aggctttaga ttggagcgga acaaggtact
7021 gggcccctga tgctaggact acgacataca atgcaggccg cttttccacc cctcaacctt
7081 cggggacact gccaggaagg atcaatccca ggactcccac ccccgctcgg ggctcctcca
7141 gtatatcttc taatgcttct actgctactt ctatatattc aaatcaaact gcttcaacga
7201 gacttggttc tacagctggt tctggcacca atgtctcgag cctcccgtca actgcaagaa
7261 ctaggagttg ggttgaggat caaaacagga atttgtcacc tttcatgagg ggggctcaca
7321 acatatcgtt tgtcacccca ccatctagca gatcctctag ccaaggcaca gtctcaaccg
7381 tgcctaaaga agttttggac tcctggactg gcgctttcaa cacgcgcagg cagcctctct
7441 tcgctcacat tcgtaggcga ggggagtcac gggtgtagtg tgaaaagaca aaattgatta
7501 tctttctttt ctttttcttt
//