Typing tool
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Typing tool
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Complete norovirus genomes
| MN782359 | GII.4 Sydney | |
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| GII.P16 |
ORF1: 1..5066
ORF2: 5047..6669
ORF3: 6669..7475
LOCUS MN782359 7517 bp RNA linear VRL 31-MAR-2020
DEFINITION Norovirus GII isolate 011617 nonstructural polyprotein (ORF1) gene,
partial cds; and VP1 (ORF2) and VP2 (ORF3) genes, complete cds.
ACCESSION MN782359
VERSION MN782359.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norovirus norwalkense.
REFERENCE 1 (bases 1 to 7517)
AUTHORS Ford-Siltz,L.A., Wales,S., Tohma,K., Gao,Y. and Parra,G.I.
TITLE Genotype-Specific Neutralization of Norovirus is Mediated by
Antibodies Against the Protruding Domain of the Major Capsid
Protein
JOURNAL J. Infect. Dis. (2020) In press
PUBMED 32179892
REMARK Publication Status: Available-Online prior to print
REFERENCE 2 (bases 1 to 7517)
AUTHORS Ford-Siltz,L.A., Wales,S., Tohma,K., Gao,Y. and Parra,G.I.
TITLE Direct Submission
JOURNAL Submitted (04-DEC-2019) 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. 2.3
Sequencing Technology :: Illumina
##Assembly-Data-END##
FEATURES Location/Qualifiers
source 1..7517
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="011617"
/isolation_source="stool"
/host="Homo sapiens"
/db_xref="taxon:122929"
/geo_loc_name="USA"
/collection_date="06-Nov-2017"
/note="genotype: GII.4 Sydney[P16]"
gene <1..5066
/gene="ORF1"
CDS <1..5066
/gene="ORF1"
/codon_start=3
/product="nonstructural polyprotein"
/protein_id="QGR25083.1"
/translation="VACNNNNDKEKSSGEGLFTNMSSTLKKALGARPKQPAPRDEPQK
PPRPPTPELVKRIPPPPPNGEEEEPVIRYEVKSGISGLPELTTVPQSDVANTAFSVPP
LSLRENREAKEPLTGAILEMWDGEIYHYGLYVEKGLVLGVHKPPAAISMARVELTPLS
LYWRVVYTPQYLISPETLRRLNGEAFPYTAFDNNCYAFCCWVLDLNDSWLSRRTVQRT
TGFFRPYQEWNRKPLPTMDDSKIKKVANIFLCSLSTLFTRPIKDLIGKIKPLNILNIL
ATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPEDLAVELVPVVM
GGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFPKKEEANELAM
VRAIEDAVLDLEAIENNHMTTLLKDKDSLATYMKTLDMEEEKARRLSTKSASPDIVGT
INALLARIAAARSLVHRAKEELSSRIRPVVVMISGKPGIGKTHLAREVARKVASTLTG
DQRVGLVPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRIQELADTCPLTLNCDRIE
NKGKVFDSEVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEKAKRDFPGQPD
MWKDAFKPDFSHIKLQLAPQGGFDKNGNTPHGKGVMKTLTTGSLIARASGLLHERMDE
FELQGPAITTFNFDRNRITAFRQLAAENKYGLVDTMKVGNQLKGVKTMEELKQAIRNV
TIKRCRIIYGGSTYDLESDGKGKVLVEKVKNTSVQTNNELAGALHHLKHARIRYYVKC
VQEAVYSIIQIAGAAFVTTRIARRMNIQELWSRPQLDQNESEAKEEAPKSEDDEFIIS
SKDIKEEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKYSIEEYLQDRD
RYYEELAIAKATEEDFCEEEEIKIRQRIFRPTRKQRKEERATLGLVTGSEIRKRNPDD
FKPKGKLWADDNRSVDYNEKLDFEAPPSIWSRIVSFGSGWGFWVSSSLFITSTHVIPA
GITEAFGVPIKQIQIHKSGEFCRFRFPKPIRPDVTGMILEEGAPEGTVATVLIKRPTG
ELMPLAARMGTHATMKIQGRMVGGQMGMLLTGSNAKGMDLGTTPGDCGCPYIYKRGND
YIVIGVHTAAARGGNTVICATQGSEGEATLEGGDDKGTYCGAPILGPGGAPKLSTKTK
FWRSSNTPLPPGTYEPAYLGGRDPRVKGGPSLQQVMRDQLKPFTEPRGKPPRPSVLEA
AKQTIINVLEQTLDPPQKWTYAQACASLDKTTSSGHPHHIRKNEFWNGETFTGKLADQ
ASKANLMFEEGKHMTPVYTAALKDELVKTEKIYGKIKKRLLWGSDLSTMIRCARSFGG
LMDEMKAHCISLPVRVGMNMNEDGPIIFEKHSRYKYHYDADYSRWDSTQQRAVLAAAL
EIMVRFSAEPQLAQIVAEDLLAPSVVDVGDFKITINEGLPSGVPCTSQWNSIAHWLLT
LCALSEVTKLSPDIIQANSMFSFYGDDEIVSTDIKLDPEQLTAKLKEYGLKPTRPDKT
EGPLIISEDLNGLTFLRRTVTRDPAGWFGKLDQSSILRQMYWTRGPNHEDPNETMIPH
SQRPIQLMALLGEASLHGPSFYSRISKLVITELKEGGMDFYVPRQEPMFRWMRFSDLS
TWEGDRNLAPNFVNEDGVE"
mat_peptide <1..962
/gene="ORF1"
/product="p48"
mat_peptide 963..2060
/gene="ORF1"
/product="NTPase"
mat_peptide 2061..2591
/gene="ORF1"
/product="p22"
mat_peptide 2592..2990
/gene="ORF1"
/product="VPg"
mat_peptide 2991..3533
/gene="ORF1"
/product="Pro"
mat_peptide 3534..5063
/gene="ORF1"
/product="RdRp"
gene 5047..6669
/gene="ORF2"
CDS 5047..6669
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="QGR25084.1"
/translation="MKMASNDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ
QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
FEVQVILAGNAFTAGKIIFAAVPPNFPTEGLSPSQVTMFPHIIVDVRQLEPVLIPLPD
VRNNFYHYNQSNDSTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT
QLSPVNICTFRGDVTHITGSRNYTMNLASQNWNNYDPTEEIPAPLGTPDFVGKIQGML
TQTTRTDGSTRGHKATVYTGSADFAPKLGRVQFETDTDHDFEANQNTKFTPVGVIQDG
STTHRNEPQQWVLPSYSGRNTHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD
CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV
IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRVV"
gene 6669..7475
/gene="ORF3"
CDS 6669..7475
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="QGR25085.1"
/translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA
SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQEMMKVKQAMLLEGGFSETDAARGAIN
APMTKALDWSGTRYWAPDARITTYNAGHFSTPQPSRALPGRANLRDAVPARGPSNQSS
NSSTATSVYSNQTISTRLGSTAGSGTSVSSLPSTARTRSWVEDQNRNLSPFMRGAHNI
SFVTPPSSRSSSQGTVSTVPKEILDSWTGAFNTRRQPLFAHIRKRGESRV"
ORIGIN
1 ccgttgcttg caacaacaac aacgacaagg aaaaatcttc aggtgaaggc ttattcacaa
61 atatgtcttc caccttaaag aaagccctcg gggctaggcc caaacagcct gccccgagag
121 acgaaccaca aaagccccca agaccaccaa ctcccgagtt ggtcaagagg ataccccctc
181 ctccacctaa tggcgaagaa gaagaaccag tcattaggta tgaggttaag agtgggatct
241 ctggcctgcc cgagctcaca acagtccccc aatcggacgt ggccaacaca gcattcagcg
301 ttccaccact gagcttgaga gaaaacaggg aggccaagga accgctaaca ggggcaatat
361 tagagatgtg ggacggagag atataccact atggcctgta cgtggagaaa ggcttagtgt
421 tgggtgtgca caaaccacct gcagccataa gcatggcaag agtggagctg acgccgttgt
481 cattgtactg gcgtgtggtg tacactcccc aatacctcat ctcccctgaa actctcagga
541 ggctcaacgg agaggcgttc ccttacactg ccttcgacaa caactgctat gccttttgct
601 gctgggtgtt agacctcaat gactcatggc ttagcaggag gacggtgcaa agaacaacgg
661 gcttcttcag accttaccaa gagtggaaca gaaaacccct gcccaccatg gatgactcca
721 aaataaagaa ggtagcaaat atattcctat gttcattgtc cacattattc accagaccca
781 taaaagacct cataggaaaa attaaaccat taaacatatt gaacatcctg gcaacgtgtg
841 actggacgtt tgccggaata gtggagtctc tgatattact tgctgaactc ttcggagttt
901 tctggacacc cccagatgtg tctgctatga tcgctccctt actcggggac tacgagttgc
961 aagggccaga agacctcgcc gttgaactcg tacctgtggt aatgggaggg attggtttgg
1021 tgttgggatt caccaaagag aaaattggca aaatgttgtc ctcagcagca tcaacactca
1081 gggcttgcaa agatcttggt gcctatggct tagagatact caaattggtc atgaagtggt
1141 tcttcccaaa gaaagaggag gccaatgagc tagccatggt gagggccata gaggatgccg
1201 tactagatct tgaggcaata gaaaataacc acatgacaac cctgttgaaa gacaaagaca
1261 gcttagcaac atacatgaaa acactggaca tggaggagga gaaagccaga aggttgtcca
1321 caaaatctgc atcccctgac atagttggga caatcaacgc cctgctggct cgaatagcag
1381 cagccaggtc attagtccac agggccaagg aagagctatc tagcaggata agaccagtag
1441 ttgttatgat atctggcaaa ccaggaatag gcaaaactca tctggccagg gaggtggcaa
1501 gaaaggtggc atccactctc acaggggatc aaagagtcgg actcgtacca agaaacggtg
1561 tggaccattg ggatgcatac aaaggtgaga gagtcgtgct gtgggacgac tatggcatga
1621 gtaaccccat tcatgatgct cttcgcatac aagaattggc tgatacgtgt ccccttacct
1681 taaattgtga cagaattgaa aataagggaa aagtttttga cagtgaagtc ataataatta
1741 caacaaacct tgccaaccca gccccacttg attatgtcaa ctttgaggcc tgttccagga
1801 gaattgattt cctggtgtac gctgaggcac cagaagtaga aaaggcaaaa cgggattttc
1861 ctggtcagcc agatatgtgg aaggacgcct tcaagccgga cttttcacac atcaagctac
1921 agcttgcacc tcagggcggc tttgacaaga atggcaacac cccacatggg aaaggggtga
1981 tgaagaccct cactaccggt tctctgattg cccgtgcatc aggcctgctg catgagagga
2041 tggatgaatt tgaactccaa ggtcccgcaa tcaccacctt taatttcgac cggaacagaa
2101 tcacagcatt cagacaattg gctgcagaaa acaagtatgg attggtggat accatgaaag
2161 ttggcaatca actaaaagga gtgaaaacca tggaagaact caaacaagca atcaggaatg
2221 tgaccatcaa gaggtgccgg atcatctacg gtggctccac gtacgacctt gaatctgatg
2281 gcaagggcaa agttttggtg gaaaaggtca agaacacctc tgtacagacc aacaacgagt
2341 tggccggggc cctgcaccat ctcaaacacg cccgaatcag gtactatgtc aaatgtgtgc
2401 aagaagcagt ctattccatc atacaaattg ccggcgctgc gtttgtcacc acgcgcattg
2461 cacgccgcat gaacatacaa gaactctggt cgaggccaca attagatcaa aatgaatcag
2521 aggctaagga agaggccccc aagtcagaag atgacgagtt catcatatct tctaaggaca
2581 tcaaggagga aggaaagaag ggcaaaaaca aaactggccg tggcaagaaa cacactgcat
2641 tctccagcaa gggcttgagc gatgaggagt atgacgagta caagaggata agagaagaga
2701 gaaatgggaa gtactctata gaggagtatc ttcaagacag agacaggtac tatgaggagc
2761 tcgccattgc caaggccacg gaagaagact tctgtgaaga ggaggagatc aaaatccgtc
2821 agagaatttt ccgtcccacc aggaaacaaa gaaaggaaga gagggccaca ttagggctgg
2881 taacaggttc agaaatcaga aaaagaaacc ctgatgactt caaacccaaa gggaagctgt
2941 gggccgatga caacagaagt gttgactaca atgagaaact ggattttgag gcccccccaa
3001 gcatatggtc taggattgtg agctttggtt ctggctgggg cttctgggta tcatcaagcc
3061 tgttcataac atcaactcat gtaatccccg caggcataac agaagcattt ggagtcccca
3121 tcaaacaaat tcagatccac aaatcaggtg aattttgccg attcagattc ccaaagccga
3181 ttagaccaga tgtgacagga atgatcttgg aagagggtgc gcctgaaggc accgtggcaa
3241 ctgtgctcat caaacgcccc accggagagc tcatgcctct tgcagccaga atgggaacac
3301 atgcaaccat gaaaattcaa ggccgcatgg ttggcgggca gatgggtatg ttgctcactg
3361 gatcaaatgc taaaggaatg gatttgggaa caactcctgg tgactgtggc tgtccttaca
3421 tctataaaag gggcaatgac tatatagtca ttggggtgca cactgcagcg gcccgtggtg
3481 gaaacaccgt catctgtgcc acacagggaa gtgagggtga ggcaactctt gagggtggag
3541 atgacaaagg aacatactgt ggggcaccca ttttaggccc tgggggtgca ccaaaattga
3601 gtaccaaaac caaattttgg aggtcatcga acacgcccct tccaccaggg acatatgaac
3661 ctgcctacct cggtggccgt gatccgcgtg ttaagggtgg gccctccttg cagcaggtaa
3721 tgagagacca gttgaagcca ttcactgaac ccaggggcaa acctccaaga ccaagtgtat
3781 tggaagcagc caaacaaacc attatcaatg ttctcgaaca aaccctggac cctccacaaa
3841 aatggacata cgcacaggcg tgtgcctcac ttgacaaaac cacctccagc gggcatcccc
3901 atcacatccg aaagaatgaa ttctggaatg gtgagacctt cactggtaaa ttggcagacc
3961 aagcatcaaa agcaaaccta atgtttgagg aagggaaaca catgacgcca gtgtatacag
4021 cagcactcaa ggacgagcta gtcaagactg agaaaatcta tggaaagatc aagaaaagac
4081 tgctctgggg ctctgacttg tccaccatga tccggtgcgc taggtcattt ggtgggctca
4141 tggacgagat gaaggcacat tgcatatcac tcccagtacg agttggcatg aatatgaatg
4201 aagatggccc aataatattt gagaaacatt ccagatacaa ataccactat gatgcagact
4261 actctcgttg ggattcaaca caacagaggg cagtactagc agcagccttg gaaatcatgg
4321 tcagattctc tgcagaacca caattggcac aaatagtcgc tgaggatcta ctggccccta
4381 gtgtagtaga tgtaggagac tttaaaatca caataaatga aggactccca tctggtgtgc
4441 catgcacttc tcaatggaac tccatcgcac actggctgct aactctctgt gccttgtctg
4501 aagtcaccaa actgtcccct gacattatac aagcaaactc catgttctca ttttacggtg
4561 atgacgagat tgtcagcacc gacataaaat tggatcctga acagttaacc gccaagttga
4621 aggagtacgg cctgaaacca acccgcccag acaagaccga gggacctctg atcatcagtg
4681 aagatttgaa cggactcact ttcctccgaa ggacggtgac tcgtgaccca gctggctggt
4741 ttggaaaact ggaccaaagt tcaattttga ggcagatgta ctggactaga ggaccaaatc
4801 atgaagatcc caatgagacg atgatacccc attctcaaag acccatacag ctcatggcac
4861 tgcttggtga agcctctctt cacggaccct ctttctacag tagaatcagc aaattggtca
4921 taactgaact caaagagggt gggatggact tttacgtgcc aaggcaggaa cccatgttca
4981 ggtggatgag gttttctgac ttgagcacgt gggagggcga tcgcaatctg gctcccaatt
5041 ttgtgaatga agatggcgtc gaatgacgcc aacccatctg atgggtccgc agccaacctc
5101 gtaccagagg tcaacaatga ggttatggct ttggagcccg ttgttggtgc cgctattgcg
5161 gcacctgtag cgggccaaca aaatgtaatt gacccctgga ttagaaataa ttttgtacaa
5221 gcccctggtg gggagttcac agtgtcccct agaaacgctc caggtgaaat actatggagc
5281 gcgcccctag gccctgacct aaatccctac ctatcccatt tggccagaat gtacaatggt
5341 tatgcaggtg gttttgaagt gcaggtaatt ctcgcgggga acgcgttcac cgccggaaag
5401 attatatttg cagcagtccc accaaatttt ccaactgaag gcttaagtcc tagccaggtc
5461 actatgttcc cccatataat agtagatgtt agacaattag aacctgtgct gattccctta
5521 cccgatgtta ggaataattt ctatcattat aatcagtcaa atgactccac tattaagttg
5581 atagcaatgt tgtatacacc acttagggct aataatgctg gagatgatgt tttcacggtt
5641 tcgtgccgag ttctcacgag accatccccc gattttgatt tcatattttt agtgccaccc
5701 acagttgagt caagaactaa accattctct gtcccagttt taactgttga ggagatgacc
5761 aattcaagat tccccatccc tttggaaaag ttgttcacag gccccagcag tgcctttgtt
5821 gttcaaccac aaaacggcag gtgcacaact gatggcgtgc tcctaggcac cacccaactt
5881 tctcctgtca acatctgcac cttcagaggg gatgtcaccc acatcacagg cagtcgcaac
5941 tacacaatga atttggcttc tcaaaattgg aataactatg acccaacaga agaaatccca
6001 gcccctctag gaactccaga ttttgtgggg aagattcaag gcatgctcac ccaaaccaca
6061 aggacagatg gttcaacacg cggccacaaa gctacagtgt acactgggag cgccgacttt
6121 gctccaaaac tgggtagagt tcaatttgaa actgacacag accatgattt tgaagctaat
6181 caaaacacaa agttcacccc agtcggtgtc atccaagatg gtagcaccac ccaccgaaac
6241 gaaccccaac agtgggtgct cccaagttac tcaggcagaa atactcacaa tgtacatttg
6301 gcccccgctg tggcccccac ctttccgggt gagcaacttc tcttcttcag atccaccatg
6361 cccggatgca gcgggtaccc caacatggat ttggactgtc tgctccccca ggaatgggtg
6421 cagtacttct accaagaggc agccccagca caatctgatg tggctctgct aagatttgtg
6481 aatccagaca caggtagggt tttgtttgag tgcaagcttc acaaatcagg ctatgttaca
6541 gtggctcaca ctggccaaca tgatttggtt atccccccca atggttactt taggtttgat
6601 tcctgggtca accagttcta cacgcttgcc cccatgggaa atggaacggg gcgtagacgt
6661 gtagtataat ggctggagct ttctttgctg gattggcatc tgatgtcctt ggctctggac
6721 ttggttccct tatcaatgct ggggctgggg ccatcaacca aaaagttgaa tttgaaaata
6781 acagaaaatt gcaacaagca tccttccaat ttagcagcaa tctgcaacag gcttcctttc
6841 aacatgataa agagatgctc caagcacaaa ttgaggccac caaaaagcta caacaggaaa
6901 tgatgaaagt taagcaggca atgctcctag agggtgggtt ctctgagaca gatgcagccc
6961 gcggggcaat taacgccccc atgacaaaag ctttggactg gagcgggaca aggtactggg
7021 ctccagatgc taggattaca acatacaatg caggccactt ttccacccct caaccatcga
7081 gggcactgcc aggaagagct aatcttaggg atgctgtccc tgctcgggga ccctccaacc
7141 aatcttctaa ctcttctact gccacctctg tgtactcaaa tcaaactatt tcaacgagac
7201 ttggttctac agctggttct ggaaccagtg tctcgagcct cccgtcaact gcaaggacta
7261 ggagctgggt tgaggatcaa aataggaatt tgtcaccttt catgaggggg gcccacaaca
7321 tatcatttgt caccccacca tctagcagat cctctagcca aggcacagtc tcaaccgtgc
7381 ctaaagagat tttggactcc tggactggcg ctttcaacac gcgcaggcag cctctcttcg
7441 ctcacattcg taagcgaggg gagtcacggg tgtaatgtga aaagacaaaa ctgattattt
7501 ttctttttct tttcttt
//