Typing tool
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Typing tool
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Complete norovirus genomes
| MW305639 | GII.4 Sydney | |
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| GII.P16 |
ORF1: 1..5069
ORF2: 5050..6672
ORF3: 6672..7478
LOCUS MW305639 7521 bp RNA linear VRL 06-JUL-2021
DEFINITION Norovirus GII isolate Arg14774 nonstructural polyprotein (ORF1)
gene, partial cds; and VP1 (ORF2) and VP2 (ORF3) genes, complete
cds.
ACCESSION MW305639
VERSION MW305639.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7521)
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JOURNAL Unpublished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 7521)
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..7521
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="Arg14774"
/isolation_source="feces"
/host="Homo sapiens"
/db_xref="taxon:122929"
/country="Argentina"
/collection_date="2016"
/note="genotype: GII.4[GII.P16]"
gene <1..5069
/gene="ORF1"
CDS <1..5069
/gene="ORF1"
/codon_start=3
/product="nonstructural polyprotein"
/protein_id="QPJ59253.1"
/translation="VACNNNNDKEKSSGEGLFTNMSSTLKKALGARPKQPAPRDEPQK
PPRPPTPELVRRIPPPPPNGEEEEEPVIRYEVKSGISGLPELTTVPQPDVANTAFSVP
PLSLRENREAKEPLTGAILEMWDGEIYHYGLYVEKGLVLGVHKPPAAISMARVELTPL
SLYWRVVYTPQYLISPETLRRLNGEAFPYTAFDNNCYAFCCWVLDLNDSWLSRRMVQR
TTGFFRPYQEWNRKPLPTMDDSKIKKVANIFLCSLSTLFTRPIKDLIGKIKPLNILNI
LATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPEDLAVELVPVV
MGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFPKKEEANELA
MVRAIEDAVLDLEAIENNHMTTLLKDKDSLATYMKTLDMEEEKARRLSTKSASPDIVG
TINALLARIAAARSLVHRAKEELSSRIRPVVVMISGKPGIGKTHLAREVARKVASTLT
GDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRIQELADTCPLTLNCDRI
ENKGKVFDSEVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEKAKRDFPGQP
DMWKDAFKPDFSHIKLQLAPQGGFDKNGNTPHGKGVMKTLTTGSLIARASGLLHERMD
EFELQGPTTTTFNFDRNRITAFRQLAAENKYGLVDTMKVGNQLKGVKTMEELKQAIRN
VTIKRCRIIYGGSTYDLESDGKGKVLVEKVKNTSVQTNNELAGALHHLKHARIRYYVK
CVQEAVYSIIQIAGAAFVTTRIARRMNIQELWSKPQLDQNESETKEEAPKSEDDEFII
SSKDIKEEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKYSIEEYLQDR
DRYYEELAIAKATEEDFCEEEEIKIRQRIFRPTRKQRKEERATLGLVTGSEIRKRNPD
DFKPKGKLWADDNRSVDYNEKLDFEAPPSIWSRIVSFGSGWGFWVSPSLFITSTHVIP
AGITEAFGVPIKQIQIHKSGEFCRFRFPKPIRPDVTGMILEEGAPEGTVATVLIKRPT
GELMPLAARMGTHATMKIQGRMVGGQMGMLLTGSNAKGMDLGTTPGDCGCPYIYKRGN
DYIAIGVHTAAARGGNTVICATQGSEGEATLEGGDDKGTYCGAPILGPGGAPKLSTKT
KFWRSSNTPLPPGTYEPAYLGGRDPRVKGGPSLQQVMRDQLKPFTEPRGKPPRPSVLE
AAKQTIINVLEQTLDPPQKWTYAQACASLDKTTSSGHPHHVRKNEFWNGETFTGKLAD
QASKANLMFEEGKHMTPVYTAALKDELVKTEKIYGKIKKRLLWGSDLSTMIRCARSFG
GLMDEMKAHCISLPVRVGMNMNEDGPIIFEKHSRYKYHYDADYSRWDSTQQRAVLAAA
LEIMVRFSAEPQLAQIVAEDLLAPSVVDVGDFKITINEGLPSGVPCTSQWNSIAHWLL
TLCALSEVTKLSPDIIQANSMFSFYGDDEIVSTDIKLDPEQLTAKLKEYGLKPTRPDK
TEGPLIISEDLNGLTFLRRTVTRDPAGWFGKLDQSSILRQMYWTRGPNHEDPNETMIP
HSQRPIQLMALLGEASLHGPSFYSKISKLVITELKEGGMDFYVPRQEPMFRWMRFSDL
STWEGDRNLAPNFVNEDGVE"
mat_peptide <1..965
/gene="ORF1"
/product="p48"
mat_peptide 966..2063
/gene="ORF1"
/product="NTPase"
mat_peptide 2064..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="QPJ59254.1"
/translation="MKMASNDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ
QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
FEVQVILAGNAFTAGKIIFAAVPPNFPTEGLSPSQVTMFPHIIVDVRQLEPVLIPLPD
VRNNFYHYNQSNDSTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT
QLSPVNICTFRGDVTHITGSRNYTMNLASQNWNNYDPTEEIPAPLGTPDFVGKIQGML
TQTTRTDGSTRGHKATVYTGSADFAPKLGRVQFETDTDHDFEANQNTKFTPVGVIQDG
STTHRNEPQQWVLPSYSGRNSHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD
CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV
IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRAV"
gene 6672..7478
/gene="ORF3"
CDS 6672..7478
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="QPJ59255.1"
/translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA
SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQEMMKVKQAMLLEGGFSETDAARGAIN
APMTKALDWSGTRYWAPDARTTTYNAGRFSTPQPSGTLPGRANLRDAVPARGPSNKSS
NSSTATSVYSNQTISTRLGSTAGSGTSVSSLPSNARTRSWVEDQSRNLSPFMRGAHNI
SFVTPPSSRSSSQGTVSTVPKEILDSWTGAFNTRRQPLFAHIRRRGESRV"
ORIGIN
1 ccgttgcttg caacaacaac aacgacaagg aaaaatcttc aggtgaaggc ttattcacaa
61 atatgtcttc caccttaaag aaagccctcg gggctaggcc caaacagcct gccccgagag
121 acgaaccaca aaagcccccg agaccaccaa ctcccgagtt ggtcaggagg ataccccctc
181 ccccacctaa tggcgaagaa gaagaagaac cagtcattag gtatgaggtt aagagtggga
241 tctctggcct gcccgagctc acaacagtcc cccaaccgga cgtggccaac acagcattca
301 gtgttccacc actgagcttg agagaaaaca gggaggccaa agaaccgtta acaggggcaa
361 tattggagat gtgggatgga gagatatacc actatggcct gtacgtggag aaaggcttag
421 tgttgggtgt gcacaaacca cctgcagcca taagcatggc aagagtggag ttgacgccgc
481 tgtcattgta ctggcgtgtg gtgtacactc cccaatacct catctcccct gaaactctca
541 ggaggctcaa cggagaggcg ttcccttaca ccgcctttga caacaactgc tatgcctttt
601 gctgctgggt gttagacctc aatgactcat ggcttagcag gaggatggtg caaagaacga
661 cgggcttctt cagaccttac caagagtgga acagaaaacc cctgcctacc atggatgact
721 ccaaaattaa gaaggtagca aatatattcc tatgttcatt gtccacgtta ttcaccagac
781 ccataaaaga cctcatagga aagattaagc cattaaacat attgaacatc ctggcaacgt
841 gtgactggac gtttgccgga atagtggagt ctctgatatt acttgctgaa ctcttcggag
901 ttttctggac acccccagat gtgtctgcta tgatcgctcc cttactcggg gactacgaat
961 tgcaagggcc agaagacctc gccgttgaac tcgtacctgt ggtaatgggg gggattggtt
1021 tggtgttggg attcaccaaa gagaaaattg gcaaaatgtt gtcctcagca gcatcaacac
1081 tcagggcttg caaagatctt ggtgcctatg gcttagagat actcaaattg gtcatgaagt
1141 ggttcttccc aaagaaagag gaggccaatg agctagccat ggtgagggcc atagaggacg
1201 ccgtactaga tcttgaggca atagaaaata accatatgac aaccctgttg aaagacaaag
1261 acagcttagc aacatacatg aaaacactgg acatggagga ggagaaagcc agaaggttgt
1321 ccacaaaatc tgcatcccct gacatagttg ggacaatcaa cgccctgctg gctcgaatag
1381 cagcggccag gtcattagtc cacagggcca aggaagagct gtctagcagg ataagaccag
1441 tagttgttat gatatctggc aaaccaggaa taggcaaaac tcatctggcc agggaggtgg
1501 caagaaaggt ggcatccact ctcacagggg atcaaagagt cggactcata ccaagaaacg
1561 gtgtggacca ttgggatgca tacaaaggtg agagagtcgt gctatgggac gactatggca
1621 tgagtaaccc cattcatgat gctcttcgca tacaagaatt ggctgacacg tgtcccctta
1681 ccttaaattg tgacagaatc gaaaataagg gaaaagtttt tgacagtgag gtcataataa
1741 tcacaacaaa ccttgccaat ccagccccac ttgattatgt caactttgag gcctgttcca
1801 ggagaattga ttttctggtg tacgctgagg caccagaagt agaaaaggca aaacgggact
1861 ttcctggtca gccagatatg tggaaggatg ccttcaagcc ggacttctca cacatcaagc
1921 tacagcttgc acctcagggc ggctttgaca agaatggcaa caccccacat gggaagggag
1981 tgatgaagac cctcactacc ggttctctga ttgcccgcgc atcaggccta ctgcatgaga
2041 ggatggatga atttgaactc caaggtccca caaccaccac cttcaatttc gaccggaaca
2101 gaatcacagc attcagacaa ttggctgcgg aaaacaagta tggattggtg gataccatga
2161 aagttggcaa tcaactaaaa ggagtgaaaa ccatggaaga actcaaacaa gcaatcagaa
2221 atgtgaccat caagaggtgc cggatcatct acggtggctc cacgtatgac cttgaatctg
2281 atggcaaggg caaagttttg gtggaaaagg tcaagaacac ctctgtacag accaacaatg
2341 agctggctgg ggccctgcac catctcaaac acgcccgaat caggtactat gtcaaatgtg
2401 tgcaagaagc agtctattcc atcatacaaa ttgccggcgc tgcgtttgtc accacgcgca
2461 ttgcacgccg catgaacata caagaactct ggtcgaagcc acaattagat caaaatgaat
2521 cagagactaa ggaagaggcc cccaagtcag aagatgacga gttcatcata tcttctaagg
2581 acatcaagga ggaaggaaag aagggcaaaa acaagactgg ccgtggcaag aaacacactg
2641 cattctccag caagggcttg agcgatgagg agtatgacga gtacaagagg ataagagaag
2701 agagaaatgg gaagtactct atagaggagt atcttcaaga cagagacagg tactatgagg
2761 agctcgccat tgccaaggcc acggaagaag acttctgtga agaggaggag atcaaaatcc
2821 gtcagagaat tttccgtccc accaggaaac aaagaaagga agagagggcc acattagggc
2881 tagtaacagg ttcagaaatc agaaaaagaa accctgatga cttcaaaccc aaagggaagc
2941 tgtgggccga tgacaacaga agtgttgact acaatgagaa actggacttt gaggcccccc
3001 caagcatatg gtctaggatt gtgagctttg gttctggctg gggcttctgg gtatcaccaa
3061 gcctgttcat aacatcaact catgtaatcc ccgcaggcat aacagaagca tttggagtcc
3121 ccatcaaaca aattcagatt cacaaatcag gtgaattttg ccgattcaga ttcccaaaac
3181 caattagacc agatgtgaca ggaatgatct tagaagaagg tgcgcctgaa ggcaccgtag
3241 caactgtgct tatcaaacgc cccaccggag agctcatgcc tcttgcagcc agaatgggaa
3301 cacacgcaac catgaaaatt caaggccgca tggttggcgg acagatgggt atgttgctca
3361 ctggatcaaa tgctaaagga atggatttgg gaacgactcc tggtgactgt ggctgtcctt
3421 acatctataa aaggggcaat gactatatag ccattggggt acacactgca gcagcccgtg
3481 gtggaaacac cgtcatctgt gccacacagg gaagtgaggg tgaggcaact cttgagggtg
3541 gagacgacaa agggacatac tgtggggcac ctattttagg ccctgggggt gcaccaaaat
3601 tgagcaccaa aaccaaattt tggaggtcat cgaacacgcc ccttccacca gggacatatg
3661 agcctgccta cctcggtggc cgtgatccgc gtgttaaggg tgggccctcc ttgcagcagg
3721 taatgagaga ccagttgaag ccattcactg aacccagggg caaacctcca agaccaagtg
3781 tattggaagc agccaaacaa accattatca acgtcctcga acaaaccctg gaccctccac
3841 aaaaatggac atacgcacag gcgtgtgcat cacttgacaa aaccacctcc agcgggcatc
3901 cccatcacgt ccgaaagaat gaattctgga atggtgagac cttcactggc aaactggcag
3961 accaagcatc aaaagcaaac ctaatgtttg aggaagggaa acacatgaca ccagtgtata
4021 cagcagcact caaggacgag ctagtcaaga ctgagaaaat ctatggaaag atcaagaaga
4081 gactgctctg gggctctgac ttgtccacca tgatccggtg cgctaggtca tttggtgggc
4141 ttatggacga gatgaaggca cactgcatat cactcccagt acgagttggc atgaatatga
4201 atgaagatgg cccaataata tttgagaaac attccagata caaataccac tatgatgcag
4261 actactctcg ttgggattca acacaacaga gggcagtgct agcagcagcc ttggaaatca
4321 tggtcaggtt ttctgcagaa ccacaattgg cacaaatagt cgctgaggat ctgctggccc
4381 ctagtgtagt agatgtagga gactttaaaa tcacaataaa cgaagggctc ccatctggtg
4441 tgccatgcac ttctcaatgg aactccatcg cacactggct gctaactctc tgtgccttgt
4501 ctgaagtcac caaactgtcc cctgacatta tacaagcaaa ctccatgttc tcgttttacg
4561 gtgatgacga gattgtcagc accgatataa aattggaccc tgaacagtta accgccaaat
4621 tgaaggagta cggcctgaaa ccaacccgcc cagacaagac cgagggaccc ctgattatca
4681 gtgaagattt gaacggactc actttcctcc gaaggacggt gactcgtgac ccagctggct
4741 ggtttggaaa attggatcaa agctcaattt tgaggcagat gtactggact agaggaccaa
4801 atcatgaaga ccccaatgag acaatgatac cccattctca aagacccata cagctcatgg
4861 cactgcttgg tgaagcctct cttcacggac cctctttcta cagtaaaatc agtaaattgg
4921 tcataactga actcaaagaa ggtgggatgg acttttacgt gccaaggcag gaacccatgt
4981 ttagatggat gaggttttct gacttgagca cgtgggaggg cgatcgcaat ctggctccca
5041 attttgtgaa tgaagatggc gtcgaatgac gccaacccat ctgatgggtc cgcagccaac
5101 ctcgtaccag aggtcaacaa tgaggttatg gctttggagc ccgttgttgg tgccgctatt
5161 gcggcacctg tagcgggcca acaaaatgta attgacccct ggattagaaa taattttgta
5221 caagcccctg gtggggagtt cacagtgtcc cctagaaacg ctccaggtga aatactatgg
5281 agcgcgcccc taggccctga cctaaatccc tacctatccc atttggccag aatgtacaat
5341 ggttatgcag gtggttttga agtgcaggta attctcgcgg ggaacgcgtt caccgccggg
5401 aagatcatat ttgcagcagt cccaccaaat tttccaactg aaggcttaag tcctagccag
5461 gtcactatgt tcccccatat aatagtggat gttagacaat tagaacctgt gctgattccc
5521 ttacccgatg tcaggaataa tttctatcat tacaaccagt caaatgattc cactattaag
5581 ttgatagcaa tgttgtatac accacttagg gctaataatg ctggggatga tgttttcaca
5641 gtttcgtgcc gagttctcac gagaccatcc cccgattttg atttcatatt tttagtgcca
5701 cccacagttg agtcaagaac taaaccattc tctgtcccag tcttaactgt tgaggagatg
5761 accaattcaa gattccccat tcctttggaa aagttgttca cgggccccag cagtgccttt
5821 gttgttcaac cacaaaacgg taggtgtaca actgatggcg tgctcctagg caccacccaa
5881 ttgtctcctg tcaacatctg caccttcaga ggggatgtca cccacatcac aggtagtcgc
5941 aactacacaa tgaatttggc ttctcaaaat tggaacaact atgacccaac agaagaaatc
6001 ccagcccctc taggaactcc agattttgtg gggaagattc aaggcatgct cacccaaacc
6061 acaaggacag atggttcaac acgcggccac aaagctacag tgtacactgg gagcgctgac
6121 tttgctccaa aactgggtag agttcaattt gaaactgaca cagaccatga ttttgaagct
6181 aatcaaaaca caaagttcac cccagtcggt gtcatccaag atggtagcac cacccaccga
6241 aacgaacccc aacagtgggt gctcccaagt tactcaggca gaaatagtca caatgtacac
6301 ctagcccccg ctgtagcccc caccttcccg ggtgagcaac ttctcttctt cagatccacc
6361 atgcccggat gcagcgggta ccccaacatg gatttggact gtctgctccc ccaggaatgg
6421 gtgcagtact tctaccaaga ggcagcccca gcacaatctg atgtggctct actaagattt
6481 gtgaatccag acacaggtag ggttttgttt gagtgcaagc ttcacaaatc aggctatgtt
6541 acagtggctc acactggcca acatgatttg gttatccccc ccaatggtta ctttaggttt
6601 gattcctggg tcaaccagtt ctacacgctt gcccccatgg gaaatggaac ggggcgtagg
6661 cgtgcagtat aatggctggt gctttctttg ctggattggc atccgatgtc cttggctctg
6721 gactcggttc ccttatcaat gctggggctg gggccatcaa ccaaaaagtt gagtttgaaa
6781 ataacagaaa attgcaacaa gcatccttcc aatttagcag caatctgcaa caggcttcct
6841 ttcaacatga taaagagatg ctccaagcac aaattgaggc caccaaaaag ctacaacagg
6901 aaatgatgaa agttaagcag gcaatgctcc tagagggtgg gttctctgag acagatgcag
6961 cccgcggggc aattaacgcc cccatgacaa aagctttgga ctggagcggg acaaggtact
7021 gggctcccga tgctaggact acaacataca atgcaggccg cttttccacc cctcaaccat
7081 cggggacact gccaggaaga gctaatctta gggatgctgt ccctgctcgg ggaccctcca
7141 acaagtcttc taactcttct actgccacct ctgtgtactc aaatcaaact atctcaacga
7201 gacttggttc tacagctggt tctggaacca gtgtctcgag cctcccgtca aatgcaagga
7261 ctaggagctg ggttgaggat caaagtagga atttgtcacc tttcatgagg ggggcccaca
7321 acatatcatt tgtcacccca ccatctagca gatcctctag ccaaggcaca gtctcaaccg
7381 tgcctaaaga gattttggac tcctggactg gcgctttcaa cacgcgcagg cagcctctct
7441 tcgctcacat tcgtaggcga ggggagtcac gggtgtaatg tgaaaagaca aaattgatta
7501 tccttctttt tctttattgt t
//