Typing tool
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Typing tool
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Complete norovirus genomes
| MW305515 | GII.4 Den Haag | |
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| GII.P4 Den Haag |
ORF1: 1..5069
ORF2: 5050..6672
ORF3: 6672..7478
LOCUS MW305515 7525 bp RNA linear VRL 06-JUL-2021
DEFINITION Norovirus GII isolate PNV005297 nonstructural polyprotein (ORF1)
gene, partial cds; and VP1 (ORF2) and VP2 (ORF3) genes, complete
cds.
ACCESSION MW305515
VERSION MW305515.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7525)
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 Genome-wide analyses of human noroviruses reveal coexistence of
viral populations evolving under recombination constraints
JOURNAL Unpublished
REFERENCE 2 (bases 1 to 7525)
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..7525
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="PNV005297"
/isolation_source="feces"
/host="Homo sapiens"
/db_xref="taxon:122929"
/country="Peru"
/collection_date="02-Apr-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="QPJ58881.1"
/translation="AVANSNNDTAKSSSDKMFSNMAVTFKRALGARPKQPPPREIPQR
PPRPPTPELVKKIPPPPPNGEDEVVVSYSAKDGVSGLPELSTVRQPEETNTAFSVPPL
NQRENRDAKEPLTGTILEMWDGEIYHYGLYVERGLVLGVHKPPAAISFAKVELTPLSL
FWRPVYTPQYLISPDTLKKLHGETFPYTAFDNNCYAFCCWVLDLNDSWLSRRMIQRTT
GFFRPYQDWNRKPLPTMDDSKLKKVANIFLCTLSSLFTRPIKDIIGKLRPLNIINILA
SCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDFELQGPEDLVVELVPVVMG
GIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFPKKEEANELAMV
RSIEDAVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARKLSTKSASPDIVGTI
NALLARIAAARSLVHRAKEELSSRPRPVVLMISGRPGIGKTHLAREVAKRIAASLTGD
QRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTCPLTLNCDRIEN
KGKVFDSDVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEKAKRDFPGQPDM
WKNAFRSDFSHIKLALAPQGGFDKNGNTPHGKGVMKTLTTGSLIARASGLLHERLDEF
ELQGPALTTFNFDRNKVLAFRQLAAENKYGLMDTMKVGRQLKDVKTMPELKQALKNIS
IKKCQIVYSGCTYTLESDGKGNVEVDRVQSTSVQTNNELAGALHHLRCARIRYYVKCV
QEALYSIIQIAGAAFVTTRIIKRVNIQDLWSKPQVENTEEATSKDGCPKPKDDEEFVI
SSDDIKTEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKYSIEEYLQDR
DKYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGLVTGSEIRKRNPE
DFKPKGKLWADDDRSVDYNEKLSFEAPPSIWSRIVNFGSGWGFWVSPSLFITSTHVIP
QGAKEFFGVPIKQIQIHKSGEFCRLRFPKPIRTDVTGMILEEGAPEGTVATLLIKRPT
GELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGDCGCPYIYKRGN
DYVVIGVHTAAARGGNTVICATQGGEGEATLEGGDSKGTYCGAPILGPGSAPKLSTKT
KFWRSSTAPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKPFTEPRGKPPKPSVLE
AAKKTIINVLEQTIDPPEKWSFSQACASLDKTTSSGHPHHMRKNDCWNGESFTGKLAD
QASKANLMFEEGKNMTPVYTGALKDELVKTDKIYGKIKKRLLWGSDLATMIRCARAFG
GLMDELKAHCVTLPIRVGMNMNEDGPIIFEKHSRYRYHYDADYSRWDSTQQRAVLATA
LEIMVKFSSEPHLAQVVAEDLLSPSVVDVGDFTISINEGLPSGVPCTSQWNSIAHWLL
TLCALSETTNLSPDIIQANSLFSFYGDDEIVSTDIKLDPEKLTAKLKEYGLRPTRPDK
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="QPJ58882.1"
/translation="MKMASNDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ
QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
FEVQVILAGNAFTAGKIIFAAVPPNFPTEGLSPSQVTMFPHLIVDVRQLEPVLIPLPD
VRNNFYHYNQSNDSTIKLIAMLYTPLRANNAGEDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFTVPILTVEEMTNSRFPIPLEKLFTGPSGAFVVQPQNGRCTTDGVLLGTT
QLSPVNICTFRGDVTHIAGSRNYTMNLASLNWNNYDPTEEIPAPLGTPDFVGKIQGVL
TQTTKGDGSTRGHKATVYTGSAPFTPKLGSVQFETDTESDFETHQNTKFTPVGVIQDG
STTHRNEPQQWVLPSYSGRDVHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD
CLLPQEWVKHFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV
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="QPJ58883.1"
/translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKIDFENNRKLQQA
SFQFSSNLQQASFQHDKEMLLAQIEATKKLQQEMMKVKQAMLLEGGFSETDAARGAIN
APMTKALDWSGTRYWAPDARTTTYNAGRFSTPQPSGTLPGRINPRTPTPARGSSSTFS
SASTATSIYSNQTVSTRLGSTAGSGTNVSSLPSTARTRSWVEDQNRNLSPFMRGAHNI
SFVTPPSSRSSSQGTVSTVPKEVLDSWTGAFNTRRQPLFAHIRRRGESRV"
ORIGIN
1 ccgctgttgc taacagcaac aacgacaccg caaaatcttc aagtgacaaa atgttttcta
61 acatggctgt cacttttaaa cgagccctcg gggcgcggcc taaacagccc cccccgaggg
121 aaataccaca aagaccccca cgaccaccca ctccagaact ggtcaaaaag atccctcccc
181 ccccgcccaa cggagaggat gaagtagtgg tttcttatag cgccaaagat ggcgtttccg
241 gtttgcctga gctttccacc gtcaggcaac cggaagaaac caacacggcc ttcagtgtcc
301 ctccactcaa tcagagggag aatagagatg ctaaggaacc actgactgga acaattctgg
361 aaatgtggga tggagaaatc taccattatg gcctgtatgt tgagcgaggt cttgtgctgg
421 gtgtgcacaa accaccagct gccattagct tcgccaaggt cgaactaaca ccactctcct
481 tattctggag acctgtgtac actcctcagt acctcatctc tccagacact ctcaagaaat
541 tacacggaga aacatttccc tacacagcct ttgacaacaa ttgctatgcc ttttgttgct
601 gggtactgga tctaaacgac tcgtggctga gtaggagaat gatccagaga acaactggct
661 tcttcagacc ctaccaagac tggaatagga aacccctccc cactatggat gattccaaat
721 taaagaaggt agctaacata ttcctgtgca ccctgtcttc gctattcacc aggcccataa
781 aagacataat aggaaagtta aggcctctca acatcatcaa catcctggcc tcatgtgatt
841 ggactttcgc aggcatagtg gagtccttga tactcttggc agagctcttt ggagtcttct
901 ggacaccccc agatgtgtct gcgatgattg cccccttact cggtgatttc gagttacaag
961 gacctgagga ccttgtagtg gagctcgtcc ccgtagtaat ggggggaatt ggtttggtgc
1021 taggattcac caaagagaag attggaaaaa tgttgtcatc tgctgcatcc accttgaggg
1081 cttgtaaaga tcttggtgca tatgggctag agatcctaaa gttagtcatg aagtggttct
1141 tcccgaagaa agaggaggca aacgaactgg ctatggtgag atccatcgag gatgcagtac
1201 tggaccttga ggcaattgaa aacaaccaca tgaccacctt gctcaaagac aaagacagcc
1261 tggcaaccta catgagaacc cttgacctcg aggaagagaa ggccagaaaa ctctcaacca
1321 agtctgcttc acctgacatc gtgggcacaa tcaacgccct tctggcgaga atcgccgctg
1381 cacgctccct ggtgcaccga gcaaaggagg agctttccag cagaccaaga cctgtagtct
1441 tgatgatatc aggcagacca gggataggaa agacccatct tgctagggaa gtggctaaga
1501 gaatcgcagc ctccctcaca ggagaccagc gtgtaggcct catcccacgc aatggcgtcg
1561 atcactggga tgcgtacaag ggggagaggg tcgtcctatg ggacgactat ggaatgagca
1621 atcccatcca cgacgccctc aggctgcaag aactcgctga cacttgcccc ctcactctaa
1681 attgtgacag gattgagaat aaaggaaagg tctttgacag cgatgtcatc attatcacta
1741 ctaatctggc caacccagca ccactggact atgtcaactt tgaagcgtgc tcgaggcgca
1801 tcgactttct cgtgtatgca gaagcccccg aggtcgaaaa ggcgaagcgt gacttcccgg
1861 gccaacctga catgtggaaa aacgctttta ggtctgattt ctcacacata aaattggcgc
1921 tggctccaca aggtggcttt gataagaacg ggaacacccc acacgggaag ggcgtcatga
1981 agactctcac cactggctcc ctcattgccc gggcatcagg gctgctccat gagagattgg
2041 atgagtttga actacagggt ccagctctta ccaccttcaa ctttgaccgc aacaaagtgc
2101 ttgccttcag gcagcttgct gctgaaaaca aatatgggtt gatggacaca atgaaagttg
2161 ggaggcagct caaggatgtc aaaaccatgc cagaactcaa acaagcactc aagaatatct
2221 caatcaaaaa gtgtcagatt gtgtatagtg gttgcaccta cacacttgag tctgatggca
2281 agggcaatgt ggaagttgac agagttcaga gcacctccgt acagaccaac aatgagctgg
2341 ctggcgccct gcatcatcta aggtgcgcca gaatcaggta ctatgtcaag tgcgtccagg
2401 aggccctgta ttctatcatt cagattgctg gggctgcatt tgtcaccacg cgcatcatca
2461 agcgtgtgaa cattcaagac ctatggtcca agccacaagt ggaaaacaca gaggaggcta
2521 ccagcaagga cgggtgccca aaacccaaag atgatgagga gttcgtcatt tcgtctgacg
2581 acattaaaac tgagggtaag aaagggaaga acaagactgg ccgtggcaag aagcacacag
2641 ccttctcaag taaaggtctc agtgatgaag agtatgatga gtacaagaga attagagagg
2701 aaaggaatgg caagtactcc atagaagagt acctacagga cagggacaaa tactatgagg
2761 aggtggccat tgccagggcg accgaggaag acttctgtga agaggaggag gccaagatcc
2821 ggcaaaggat cttcagacca acaaggaaac aacgcaagga agaaagagct tctctcggtt
2881 tagtcacagg ttctgaaatt aggaaaagaa acccagaaga cttcaagccc aaggggaagc
2941 tatgggctga cgatgacaga agcgtggact acaatgagaa actcagtttt gaggccccac
3001 cgagcatctg gtcaaggata gtcaactttg gctcaggttg gggcttctgg gtctccccta
3061 gcctgttcat aacatcaacc cacgtcatac cccagggcgc aaaggagttc tttggagtcc
3121 ccatcaagca aattcagata cacaaatcag gcgaattctg tcgcttgagg ttcccaaaac
3181 caatcagaac tgatgtgact ggcatgatct tggaagaagg tgcgcccgaa ggcaccgtgg
3241 ccacactact catcaaaagg cctactggag aactcatgcc cctagcagct agaatgggga
3301 cccatgcaac catgaaaatt caagggcgca ctgttggggg tcagatgggc atgcttctga
3361 caggatccaa cgccaaaagc atggatctgg gcaccacacc aggtgactgc ggctgtccct
3421 acatctacaa gagaggaaat gactatgtgg tcattggagt ccacacggct gccgctcgtg
3481 ggggaaacac tgtcatatgt gccacccagg ggggtgaggg ggaagctaca cttgaaggtg
3541 gtgacagtaa gggaacatac tgtggtgcac caatcctagg cccaggaagt gccccaaaac
3601 ttagcaccaa aaccaaattc tggagatcat ccacagcacc actcccacct ggcacctacg
3661 aaccagccta ccttggtggc 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 acggggaatc cttcacaggc aagctggcag
3961 accaggcttc caaggccaac ctgatgtttg aagaagggaa aaacatgacc ccagtttaca
4021 caggtgcact taaggatgaa ttagtcaaaa ctgacaaaat ctatggtaag atcaagaaga
4081 gacttctctg gggctcggat ttagcaacca tgatccggtg tgctcgagca ttcggaggcc
4141 taatggatga actcaaagca cactgtgtca cacttcctat cagagttggt atgaatatga
4201 atgaggatgg ccccatcatc ttcgagaagc attccaggta tagataccac tatgatgctg
4261 attactctcg atgggattca acacaacaga gagccgtgct ggcaactgct ctagaaatca
4321 tggttaaatt ctcctcagaa ccacatttgg ctcaggtagt cgcagaagac cttctttctc
4381 ctagcgtggt ggatgtgggt gacttcacaa tatcaatcaa cgagggcctt ccctctgggg
4441 tgccctgcac ctcccaatgg aactccatcg cccactggct tctcactctc tgtgcactct
4501 ccgaaaccac aaatttgtcc ccagacatca tacaggctaa ttctctcttc tccttctatg
4561 gtgatgatga aattgttagt acagacataa aattagaccc agagaagttg acagcaaagc
4621 ttaaggaata tgggttgaga ccaacccgcc ctgataaaac tgaaggacct cttgttattt
4681 ctgaagactt agatggtttg actttcctgc ggagaactgt gacccgcgac ccagctggtt
4741 ggtttggaaa actggagcag agttcaatac tcaggcaaat gtactggact aggggcccca
4801 accatgaaga tccatctgaa tcaatgattc cacactctca aagacccata caattgatgt
4861 ccttactggg agaggccgca cttcacggcc caacattcta cagtaaaatc agcaaattag
4921 tcattgcaga gctaaaagaa ggtggtatgg atttttacgt gcccaggcag gagccaatgt
4981 tcagatggat gagattctcg gatctgagca cgtgggaggg cgatcgcaat ctggctccca
5041 gttttgtgaa tgaagatggc gtcgaatgac gccaacccat ctgatgggtc cgcagccaac
5101 ctcgtcccag aggtcaacaa tgaggttatg gctttggagc ccgttgtcgg tgccgctatt
5161 gcggcgcctg tagcgggcca acaaaatgta attgacccct ggattagaaa taattttgta
5221 caagcccctg gtggagagtt cacagtatcc cctagaaacg ctccaggtga aatactatgg
5281 agcgcgccct taggccctga tctgaatccc tacctatccc atttggctag aatgtataat
5341 ggttacgcag gtggttttga agtgcaggtg atcctcgcgg ggaacgcgtt caccgccgga
5401 aaaattatat ttgcagcagt cccaccaaat ttcccaactg aaggcttgag tcctagccag
5461 gtcactatgt tcccccactt aatagtagat gttaggcaat tggaacctgt gttgatccct
5521 ttacctgatg ttaggaataa cttctatcat tataatcagt caaatgattc taccatcaaa
5581 ttgatagcaa tgctgtatac accacttagg gctaataatg ctggggaaga tgtcttcaca
5641 gtctcttgtc gagtcctcac gaggccatcc cctgattttg attttatatt tttggtgcca
5701 cctacagttg agtcaagaac caaaccattt actgtcccaa tcctaactgt tgaagaaatg
5761 accaattcaa gattccccat tcctttggaa aagttgttca cgggtcccag cggtgccttt
5821 gtcgttcaac cacaaaatgg caggtgcacg actgatggcg tgctcttagg caccacccaa
5881 ctgtctcctg tcaacatctg caccttcaga ggggatgtca cccacattgc aggttctcgt
5941 aattacacaa tgaatttggc ttctctaaat tggaacaatt atgacccaac agaagaaatt
6001 ccagcccctc taggaactcc agatttcgtg ggaaagatcc aaggtgtgct tactcaaacc
6061 acaaagggag atggctcgac ccgtggccat aaagctacag tttacactgg gagtgccccc
6121 tttactccaa agctgggcag tgttcaattc gaaactgata cagaaagtga ttttgaaact
6181 caccaaaaca caaaattcac cccagtcggt gtcatccagg atggtagcac cacccaccga
6241 aatgaacccc aacaatgggt gctcccaagt tattcaggta gagatgtcca taatgtacac
6301 ctagcccctg ctgtagcccc cacttttccg ggtgaacaac ttcttttctt taggtccact
6361 atgcccggat gcagcgggta tcccaacatg gatttggatt gcctactccc ccaggagtgg
6421 gtgaagcact tctaccaaga ggcagctcca gcacaatctg atgtggctct attgagattt
6481 gtgaatccag acacgggtag ggtcctgttt gagtgcaaac ttcataaatc aggctatgtc
6541 acagtggctc acaccggcca gcatgatttg gttatccccc ccaatggcta ctttaggttt
6601 gattcctggg ttaatcaatt ctacacactt gcccccatgg gaaatggaac ggggcgtaga
6661 cgtgctttat aatggctgga gctttctttg ctggattggc atctgatgtt cttggctctg
6721 gacttggttc cctaatcaat gctggggctg gggctatcaa ccaaaagatt gattttgaaa
6781 ataacagaaa attgcaacaa gcttccttcc agtttagcag taatctacaa caggcttcct
6841 ttcaacatga taaagaaatg ctcctagcac aaattgaggc cactaaaaag ttgcaacaag
6901 aaatgatgaa agtcaaacag gcaatgctct tagaaggtgg attctctgaa acagatgcag
6961 cccgtggggc aatcaacgcc cccatgacaa aggctttgga ctggagcgga acaaggtact
7021 gggcccctga tgctaggact acgacataca atgcaggccg cttttccacc cctcaacctt
7081 cgggtacact gccaggaaga atcaatccca ggactcccac ccccgctcgg ggctcctcta
7141 gcacattttc tagtgcttct actgctactt ctatatattc aaatcaaact gtttcaacga
7201 gacttggttc tacagctggt tctggcacca atgtctcgag tctcccgtca 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 gggtgtaatg tgaaaagaca aaattgatta
7501 tctttctttt tctttagtgt ctttt
//