Typing tool
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Typing tool
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Complete norovirus genomes
| MW305566 | GII.16 | |
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| GII.P16 |
ORF1: 1..5063
ORF2: 5044..6666
ORF3: 6666..7460
LOCUS MW305566 7519 bp RNA linear VRL 18-JUL-2024
DEFINITION Norovirus GII isolate 899SR nonstructural polyprotein (ORF1) gene,
partial cds; and VP1 (ORF2) and VP2 (ORF3) genes, complete cds.
ACCESSION MW305566
VERSION MW305566.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norovirus norwalkense.
REFERENCE 1 (bases 1 to 7519)
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 7519)
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..7519
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="899SR"
/isolation_source="feces"
/host="Homo sapiens"
/db_xref="taxon:122929"
/geo_loc_name="Paraguay"
/collection_date="2005"
/note="genotype: GII.16[GII.P16]"
gene <1..5063
/gene="ORF1"
CDS <1..5063
/gene="ORF1"
/codon_start=3
/product="nonstructural polyprotein"
/protein_id="QPJ59034.1"
/translation="VACNNNNDKEKSSGEGLFTNMSSTLKKALGARPKQPAPRDNSQK
PPRPPTPELVKRIPPPPPNGEEEPVIRYEVKSGISGLPELTTVPQPNVTNTAFSVPPL
SLRENREAKEPLTGAILEMWDGEIYHYGLYVEKGLVLGVHKPPAAISMAKVEMTPLSL
YWRVVYTPQYLISPDTLKRLNGEAFPYTAFDNNCYAFCCWVLDLNDSWLSRRMVQRTT
GFFRPYQEWNRKPLPTMDDSKIKKVANIFLCSLSTLFTRPIKDIIGKIKPLNILNILA
TCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGEYELQGPEDIAVELVPVVMG
GIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFPKKEEVNELAMV
RAIEDAVLDLEAIENNHMTALLKDKDSLATYMKTLDLEEEKARRLSTKSASPDIVGTI
NALLARIAAARSLVHRAKEELSSRIRPVVVMISGKPGIGKTHLAREVARKVASTLTGD
QRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRIQELADTCPLTLNCDRIEN
KGKVFDSEVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEKAKRDFPGQPDM
WKDAFKADFSHIKLQLAPQGGFDKNGNTPHGKGVMKTLTTGSLIARASGLLHERMDEF
ELQGPTITTFNFDRNRITAFRQLAAENKYGLVDTMRVGNQLKGVKTMEELKQAIKNVS
IKRCQIIYNGSTFDLESDGKGKVLVEKVKSTSVQTNNELAGALHHLKSARIRYYVKCV
QEAVYSILQIAGAAFVTTRIARRMNIQELWSKPPLDQSEPEAKEEAPKLEDDEFIISS
KDIKEEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKYSIEEYLQDRDR
YYEELAIAKATEEDFCEEEEIKIRQRIFRPTRKQRKEERATLGLVTGSEIRKRNPDDF
KPKGKLWADDNRSVDYNEKLDFEAPPSIWSRIVSFGSGWGFWVSPSLFITSTHVIPAG
IAEAFGVPIKQVQVHKSGEFCRFRFPKPIRPDVTGMILEEGAPEGTVATVLIKRPTGE
LMPLAARMGTHATMKIQGRMVGGQMGMLLTGSNAKGMDLGTTPGDCGCPYIYKRGNDY
IVIGVHTAAARGGNTVICATQGSEGEATLEGGDDKGTYCGAPILGPGGAPKLSTKTKF
WRSSNTPLPPGTYEPAYLGGRDPRVKGGPSLQQVMRDQLKPFTEPRGRPPRPSVLEAA
KQTIINVLEQTLDPPQKWTYAQACASLDKTTSSGHPHHARKNEFWNGETFIGKLADQA
SKANLMYEEGKHMTPVYTAALKDELVKTDKIYSKIKKRLLWGSDLSTMVRCARAFGGL
MDEMKAHCISLPVRVGMNMNEDGPIVFEKHSRYKYHYDADYSRWDSTQQRAVLAAALE
IMVRFSAEPQLAQTVAEDLLAPSVVDVGDFKISINEGLPSGVPCTSQWNSITHWLLTL
CALSEVTNLSPDIVQANSMFSFYGDDEIVSTDIKLDPEKLTTKLREYGLKPTRPDKTE
GPLIISEDLDGLTFLRRTVSRDPAGWFGKLDQSSILRQMYWTRGPNHEDPNETMIPHS
QRPIQLMALLGEASLHGPSFYSKISKLVITELKEGGMDFYVPRQEPMFRWMRFSDLST
WEGDRNLAPSFVNEDGVE"
mat_peptide <1..959
/gene="ORF1"
/product="p48"
mat_peptide 960..2057
/gene="ORF1"
/product="NTPase"
mat_peptide 2058..2588
/gene="ORF1"
/product="p22"
mat_peptide 2589..2987
/gene="ORF1"
/product="VPg"
mat_peptide 2988..3530
/gene="ORF1"
/product="Pro"
mat_peptide 3531..5060
/gene="ORF1"
/product="RdRp"
gene 5044..6666
/gene="ORF2"
CDS 5044..6666
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="QPJ59035.1"
/translation="MKMASNDAAPSNDGAAGLVPEVNNETMALEPVAGASIAAPLTGQ
NNVIDPWIRLNFVQAPNGEFTVSPRNSPGEILLNLELGPELNPYLAHLARMYNGYAGG
VEVQVLLAGNAFTAGKLVFAAIPPHFPVDNLSPGQITMFPHVIIDVRTLEPVLLPLPD
VRNNFFHYNQQSDQRMRLIAMLYTPLRSNGSGDDVFTVSCRVLTRPSPDFDFNYLVPP
TVESKTKPFSVPVLTLNELTNSRFPVPIDAMYTSPNDSIVVQPQNGRATIDGELLGTT
QLIPSGICSFRGKITTHLSDDRHLWNIQVSNLNGTPFDPTDDVPAPLGMPDFSGQIFG
VVSQRDTGTNPANRAHDAVLATYSAKYTPKLGSVQIGTWDTEDLLERQPVKFTPVGLN
EIGQDKHFDQWVLPNYSGALGLNMHLAPAVSPLFPGERLLFFRSYIPLKGGHGDPFID
CLVPQEWIQHFYQESAPAQSSVALLRYVNPDTGRTLFEAKLHKEGFITVSSTENRPVI
VPPNGYFRFDSWVNQFYSLAPMGTGNGRRRMQ"
gene 6666..7460
/gene="ORF3"
CDS 6666..7460
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="QPJ59036.1"
/translation="MAGAFIAGLAGDIVTNGIGSLVNAGANAINQKVDFENNKQLQQA
SFNHDREMLQAQIQATKQLQADMISIRQGVLTAGGFSPTDAARGAVNAPMTQVLDWNG
TRHWAPGASRTTSFSGGFTNSTRARTVEPPKSSPPVQNTLISDSRPSSTVSSSSTRST
VVTSSSTAPSKSSATRNSPRSVTQSVSSVSSRTGDWVQNQNRMLEPYLRGSSQTAFVS
PPSSKASSSGTVSTVPKEVLDSWTSAFNTRRQPLFAHLRRRGESQA"
ORIGIN
1 ccgttgcttg caacaacaac aacgacaagg aaaaatcttc gggtgaaggc ttatttacaa
61 atatgtcttc caccctaaag aaagccctcg gggcccggcc taaacagcct gccccgaggg
121 acaactcaca aaagccccca agaccaccta cgcccgagtt ggttaagaga ataccccctc
181 ccccgcctaa tggcgaagaa gaaccagtca ttaggtatga ggttaagagt ggaatctctg
241 gcctgcctga gctcacgaca gttccccaac cgaatgtgac caacacggca ttcagtgtcc
301 caccgctgag cttgagagaa aacagggagg ccaaggaacc gttgactggg gcaatactag
361 agatgtggga tggagagata taccactatg gtttgtacgt ggagaaaggc ttagtgttgg
421 gtgtgcacaa accacctgca gctataagta tggcaaaggt ggaaatgacg ccgctgtcat
481 tgtactggcg tgtggtgtac acccctcaat atctcatctc ccctgacact ctcaagagac
541 tcaacgggga ggcattccct tacactgcct ttgacaacaa ctgttatgcc ttttgttgct
601 gggtgttaga tcttaatgac tcatggctca gcagaaggat ggtgcaaaga acaacgggct
661 tcttcagacc ctaccaagag tggaacagga aacccctacc caccatggat gactcaaaga
721 ttaagaaggt ggcaaacatt ttcttatgtt cactgtccac gctgttcacc agacctataa
781 aagacatcat agggaaaatc aaaccactaa atatcttgaa cattctggca acgtgtgact
841 ggacgttcgc cggaatcgta gagtctctaa tattgcttgc tgaactcttt ggagttttct
901 ggacaccccc agatgtgtct gctatgattg ctcccttact tggcgaatac gagctgcaag
961 ggccagaaga tatcgccgtt gagctcgtac ctgtagtgat gggagggatt ggtttggtgc
1021 taggattcac caaagagaaa attggcaaaa tgctgtcatc agcagcatca accctcaggg
1081 cttgcaaaga ccttggtgct tatggtttag agatactcaa actggtcatg aaatggttct
1141 tcccaaagaa agaagaggtc aatgaactag ccatggtgag agcaatagag gatgctgtac
1201 tagatcttga agcgatagaa aacaatcaca tgacagctct gctgaaagat aaggacagcc
1261 ttgcaaccta catgaaaaca ctggatctag aggaagagaa agccagaaga ttgtccacaa
1321 aatctgcatc ccctgacata gttggaacaa tcaatgccct gctggctcga atagcggcgg
1381 ctagatcact agtccatagg gccaaggagg agctatccag caggatcaga ccagttgttg
1441 ttatgatttc tggcaagcca gggataggca agacccacct agccagggag gtggcgagaa
1501 aggtggcatc cactctcacg ggagatcaaa gagtcggact cataccgaga aacggtgtgg
1561 accactggga tgcatacaaa ggtgagaggg tcgtgttgtg ggacgactac ggcatgagca
1621 accccatcca tgatgctctg cgcatacagg agttggccga cacgtgtccc ctcaccctaa
1681 attgtgacag aattgaaaat aagggaaaag tttttgatag tgaagtcata ataatcacaa
1741 caaaccttgc caatccagct cccctcgatt atgtcaactt tgaggcctgt tccaggagaa
1801 ttgacttcct ggtgtacgcc gaagcaccag aagtggaaaa agcaaaacga gacttccctg
1861 gtcaaccaga tatgtggaag gacgccttca aagcggactt ttcgcatatc aagctacaac
1921 ttgcgcctca gggcggtttt gacaagaacg gcaatacccc acatggtaaa ggagtgatga
1981 agaccctcac tactggttct ctgattgccc gcgcgtcagg tttactacat gagaggatgg
2041 atgaatttga actccagggc cccacaatca ccactttcaa tttcgaccga aacagaatca
2101 ccgcctttag acaattggct gcagaaaaca agtatgggtt ggtggacacc atgagggttg
2161 gcaatcaatt gaaaggggtg aaaaccatgg aagaactcaa gcaagcaatc aagaatgtgt
2221 ccatcaagag gtgccagatt atctataatg gctccacgtt cgaccttgag tctgatggta
2281 agggcaaagt tttagtggaa aaggtcaaaa gcacctctgt tcagaccaac aacgagctgg
2341 ccggagccct gcatcacctc aaaagtgctc gaattaggta ttatgtcaag tgtgtgcaag
2401 aagcagtcta ctccatcctg caaattgccg gcgctgcgtt cgttaccaca cgcattgcac
2461 gccgcatgaa catacaagaa ctttggtcaa agccaccatt agaccaaagt gaaccagagg
2521 ctaaagaaga ggctcccaag ttagaagatg atgagttcat catatcctcc aaagacatca
2581 aggaggaagg aaagaagggc aaaaacaaga ctggccgtgg caagaaacac acagcattct
2641 ctagcaaggg cttgagtgat gaggagtatg acgagtacaa gagaataaga gaagagagaa
2701 atgggaagta ctctatagag gaatatcttc aagacagaga caggtactat gaggagctcg
2761 ccatcgccaa ggccacggaa gaagactttt gcgaggaaga agaaatcaaa atccgccaga
2821 gaatctttcg ccccactaga aaacaaagga aggaagaaag ggccacgcta ggactagtga
2881 ctggttcaga aatcagaaaa agaaaccctg atgacttcaa acctaaaggg aaattgtggg
2941 ccgacgacaa cagaagtgtt gactacaatg aaaaattgga ctttgaggcc cccccaagca
3001 tatggtctag aattgtgagc tttggttccg gttggggctt ctgggtgtca ccaagtctgt
3061 tcataacatc aactcatgta atccctgcgg gcatagcaga ggcatttgga gtccccatca
3121 aacaagtcca agttcacaaa tcaggtgagt tttgccggtt caggttccca aaaccaatta
3181 gaccagatgt gacaggaatg attctggaag agggcgcgcc agagggcact gtggcaaccg
3241 tgctaatcaa acgccccacc ggggaactca tgccactcgc agccagaatg ggaacacacg
3301 cgaccatgaa aattcagggc cgcatggttg gcgggcagat gggtatgttg ctcactggtt
3361 caaatgctaa gggtatggat ttgggaacaa ctcctggtga ttgtggttgc ccgtacatct
3421 acaaaagggg caatgattat atagtcattg gagtgcacac agcagcagcc cgtggtggaa
3481 atactgtcat ttgcgccacg caggggagtg agggtgaggc gactctcgag ggtggagacg
3541 acaaaggaac atactgtggg gcacccattc tgggccctgg aggagcacca aaattgagta
3601 ccaaaaccaa attctggagg tcatcaaaca cgcccctccc accagggaca tatgagcccg
3661 cttaccttgg tggtcgtgac ccgcgtgtaa agggtgggcc ctctttgcag caagtcatga
3721 gagatcagtt gaagcccttc actgagccca ggggtagacc tccaagacct agtgtactgg
3781 aggcagctaa acaaaccatc atcaacgtcc tcgagcaaac cttggatccc ccacaaaagt
3841 ggacatacgc acaggcgtgt gcttcgcttg ataagaccac ctctagtggg cacccccatc
3901 acgcccgaaa gaatgaattc tggaatggtg agacctttat tggtaagttg gcagaccaag
3961 catcaaaagc aaatttgatg tatgaggaag ggaaacacat gacaccagtg tacacagcag
4021 ccctcaagga cgagttggtc aagactgaca aaatttatag taagatcaag aagagactgc
4081 tttggggctc tgacttgtcc accatggtcc gatgtgctag ggcctttggt ggactcatgg
4141 atgaaatgaa ggcacactgc atatcactcc cagttcgagt tggtatgaac atgaatgagg
4201 atggcccaat agtatttgag aagcattcca gatataagta ccattatgat gctgattact
4261 cccgctggga ctcaacacaa caaagggctg ttctagcagc ggccttggag ataatggtca
4321 gattctctgc agaaccacaa ctggcgcaaa cagtcgctga agatctgctg gcccctagtg
4381 tggtagatgt aggggacttc aaaatctcaa taaatgaggg gctcccttct ggtgtaccat
4441 gcacttccca gtggaactcc atcacacatt ggctgctgac tctctgtgct ttgtctgaag
4501 tcaccaacct gtcccctgac atcgtgcagg caaattccat gttctcgttt tacggtgatg
4561 acgagattgt cagcaccgat ataaaattag accctgaaaa gttaaccacc aaattgagag
4621 aatatggtct gaaaccaacc cgcccagata aaactgaggg acccctgatc atcagcgagg
4681 atctggacgg actcactttc ctccggagga cagtttctcg tgacccagct ggctggtttg
4741 gaaagctaga tcaaagttca atactaagac agatgtattg gaccagagga ccaaaccatg
4801 aagatcccaa tgaaacaatg ataccccact ctcaaagacc catacagctc atggcactgc
4861 ttggcgaggc ttccctccat ggaccctctt tctatagtaa gattagtaaa ttggtcataa
4921 ctgaactcaa agaaggtggg atggactttt acgtgccaag gcaggaaccc atgttcaggt
4981 ggatgaggtt ttctgacttg agcacgtggg agggcgatcg caatctggct cccagttttg
5041 tgaatgaaga tggcgtcgaa tgacgccgct ccatctaatg atggtgcagc cggtctcgta
5101 ccagaggtca acaacgagac aatggcacta gaaccagttg caggagcttc aattgctgcc
5161 cctttaactg gtcaaaacaa tgtaatagac ccctggatta gattaaattt tgtacaagcc
5221 cccaatggtg agttcacggt ttccccccga aactcgcctg gtgaaatttt gctaaatttg
5281 gagttagggc ctgaattgaa tccatactta gcccatttag caaggatgta taatggttat
5341 gcaggtgggg tcgaggtgca ggtactgctg gctggaaatg cgtttacagc aggcaaactt
5401 gtatttgcag caatcccccc tcattttcca gtagataatt tgagccctgg ccagattact
5461 atgttccccc acgtgatcat tgatgttaga acacttgaac ctgtcttgtt accattacct
5521 gatgttagaa ataatttctt tcattataat caacagagtg atcagcgcat gagacttatt
5581 gctatgcttt atacccctct tagatctaat ggttcaggtg atgatgtctt tactgtgtca
5641 tgcagggtcc taaccaggcc atcccccgat tttgatttta attatttggt tcctccaaca
5701 gttgaatcca aaactaaacc cttctcagtc ccagtgctga cccttaatga gctgaccaac
5761 tctcgttttc ctgttccgat tgatgccatg tacaccagcc ctaatgattc aattgtggtc
5821 caaccccaaa atggaagggc aaccatagac ggtgagttgc ttggcaccac tcaactcata
5881 cccagtggta tctgttcatt taggggaaaa atcacaacac atttgtcaga tgataggcac
5941 ttgtggaaca tccaagtctc caatttgaat ggtactccgt ttgacccaac agacgacgtg
6001 cccgcaccat tgggtatgcc agacttttct gggcaaatat ttggggtggt tagtcaaagg
6061 gacacaggca ccaaccccgc aaacagagct catgatgctg ttcttgcaac ctacagcgcc
6121 aaatacacac ctaaactcgg ctcagtccaa attggaacat gggacaccga ggatttgctt
6181 gaaagacagc ctgtcaaatt cacgcccgtt ggtctcaatg aaattgggca agacaagcat
6241 ttcgaccaat gggtgttgcc aaattattct ggtgccctgg gactcaacat gcacctggct
6301 cctgctgtgt ccccactctt tcccggagag agattattgt tctttaggtc atatatacct
6361 ctaaaaggtg gccatgggga cccatttatt gattgtcttg tgccacaaga gtggattcaa
6421 cacttttacc aagaatcagc cccagcacaa tcctcggtgg ctctactgag gtatgtgaat
6481 ccagacacag gtcgcactct atttgaggcc aaattacaca aggaagggtt tatcaccgtc
6541 tctagcacgg aaaataggcc tgtgattgtc cccccaaatg gttactttag gtttgactct
6601 tgggttaacc aattctactc attagccccc atgggaactg gcaatgggcg cagaaggatg
6661 cagtaatggc tggagctttt atagcaggac ttgctggtga cattgtcact aacggcattg
6721 gttcgcttgt gaacgctgga gccaatgcta taaaccaaaa agttgatttt gaaaataaca
6781 aacagctaca acaggcctct tttaaccatg acagagagat gctgcaagcc caaattcaag
6841 ccaccaaaca gctacaggct gacatgattt caatcagaca aggggttttg accgcgggcg
6901 gcttctcccc tactgatgct gcaaggggtg cagtcaacgc accgatgacc caagtgctgg
6961 actggaatgg aactagacat tgggctcctg gagcctcaag gactaccagc ttctctggtg
7021 ggttcaccaa ttctacccgt gccagaacag ttgagccacc taagagttcc ccccccgttc
7081 aaaatacttt gatctctgat tccagaccta gctctactgt ctcatcttcc tctacccgat
7141 cgactgtggt cactagctct tctactgccc catctaagtc ttctgcaact agaaattcac
7201 cccgcagtgt tactcaatct gtttcttctg tttcttctcg cactggtgat tgggtgcaaa
7261 atcaaaatag aatgctggag ccatacctga gggggtcgtc gcaaacagcc ttcgtgtcgc
7321 cgccctccag taaggcctct agtagtggca ctgtctcaac tgtgccaaaa gaagttttgg
7381 actcctggac atctgcgttt aatacccgca gacagccgct cttcgctcac ctccgtcgga
7441 ggggggagtc acaagcttag tgaaaagaat tagattttct ttttctttct ttccttttgt
7501 tgaaaatctt atgtctttt
//