Typing tool
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Typing tool
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Complete norovirus genomes
| MW305682 | GII.4 Sydney | |
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| GII.P31 |
ORF1: 1..4997
ORF2: 4978..6600
ORF3: 6600..7406
LOCUS MW305682 7440 bp RNA linear VRL 06-JUL-2021
DEFINITION Norovirus GII isolate 11704-c2 nonstructural polyprotein (ORF1)
gene, partial cds; and VP1 (ORF2) and VP2 (ORF3) genes, complete
cds.
ACCESSION MW305682
VERSION MW305682.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7440)
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JOURNAL Unpublished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 7440)
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..7440
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="11704-c2"
/isolation_source="feces"
/host="Homo sapiens"
/db_xref="taxon:122929"
/country="Japan"
/collection_date="10-May-2013"
/note="genotype: GII.4[GII.P31]"
gene <1..4997
/gene="ORF1"
CDS <1..4997
/gene="ORF1"
/codon_start=3
/product="nonstructural polyprotein"
/protein_id="QPJ59382.1"
/translation="FKRALGARPKQPPPKETPPRPPRPPTPELVKKIPPPPPNGEDEL
VVSYSAKDGVSGLPELTTVRQPEETNTAFSVPPLNQRESRDAKEPLTGTIIEMWDGEI
YHYGLYVERGLILGVHKPPAAISLAKVELAPLSLFWRPVYTPQYLISPDTLRRLHGES
FPYTAFDNNCYAFCCWVLDLNDSWLSRRMIQRTTGFFRPYQDWNRKPLPTMDDSKLKK
VANIFLCTLSSLFTRPIKDIIGKLKPLNILNILATCDWTFAGIVESLILLAELFGVFW
TPPDVSAMIAPLLGDYELQGPEDLAVELVPIVMGGIGLVLGFTKEKIGKMLSSAASTL
RACKDLGAYGLEILKLVMKWFFPKKEEANELAMVRSIEDAVLDLEAIENNHMTTLLKD
KDSLATYMRTLDLEEEKARKLSTKSASPDIVGTINSLLARIAAARSLVHRAKEELSSR
PRPVVVMISGRPGIGKTHLARELAKKIAASLTGDQRVGLIPRNGVDHWDAYKGERVVL
WDDYGMSNPIHDALRLQELADTCPLTLNCDRIENKGKVFDSDAIIITTNLANPAPLDY
VNFEACSRRIDFLVYAEAPEVEKAKRDFPGQPDMWKNAFSPDFSHIKLSLAPQGGFDK
NGNTPHGKGVMKTLTTGSLIARASGLLHERLDEYELQGPALTTFNFDRNKILAFRQLA
AENKYGLMDTMRVGKQLKDVKTMSDLKQALKNIAIKKCQIVYNGGTYTLEADGKGSVK
VDKVQSATVQTNNELAGALHHLRCARIRYYVKCVQEALYSIIQIAGAAFVTTRIAKRM
NIQNLWSKPQVEDTEEMANKDGCLKPKDDEEFVVSSDDIKTEGKKGKNKSGRGKKHTA
FSSKGLSDEEYDEYKRIREERNGKYSIEEYLQDRDRYYEEVAIARATEEDFCEEEEAK
IRQRIFRPTRKQRKEERASLGLVTGSEIRKRNPEDFKPKGKLWADDDRSVDYNEKLNF
EAPPSIWSRIVNFGSGWGFWVSPSLFITSTHVIPQGAKEFFGVPIKQIQIHKSGEFCR
LRFPKPIRTDVTGMILEEGAPEGTVATLLIKRPTGELMPLAARMGTHATMKIQGRTVG
GQMGMLLTGSNAKSMDLGTTPGDCGCPYIYKRGNDYVVIGVHTAAARGGNTVICATQG
SEGEATLEGGDSKGTYCGAPILGPGSAPKLSTKTKFWRSSTTPLPPGTYEPAYLGGKD
PRVKGGPSLQQVMRDQLKPFTEPRGKPPRPNVLEAAKKTIINVLEQTIDPPQKWSFAQ
ACASLDKTTSSGHPHHMRKNDCWNGESFTGKLADQASKANLMFEEGKNMTPVYTGALK
DELVKTDKVYGKVKKRLLWGSDLATMIRCARAFGGLMDELKAHCVTLPVRVGMNMNED
GPIIFEKHSRYRYHYDADYSRWDSTQQRDVLAAALEIMVKFSPEPHLAQIVAEDLLSP
SVMDVGDFQISISEGLPSGVPCTSQWNSIAHWLLTLCALSEVTDLSPDIIQANSLFSF
YGDDEIVSTDIKLDPEKLTAKLKEYGLKPTRPDKTEGPLVISEDLDGLTFLRRTVTRD
PAGWFGKLEQSSILRQMYWTRGPNHEDPFETMIPHSQRPIQLMSLLGEAALHGPAFYS
KISKLVIAELKEGGMDFYVPRQEPMFRWMRFSDLSTWEGDRNLAPSFVNEDGVE"
mat_peptide <1..887
/gene="ORF1"
/product="p48"
mat_peptide 888..1985
/gene="ORF1"
/product="NTPase"
mat_peptide 1986..2522
/gene="ORF1"
/product="p22"
mat_peptide 2523..2921
/gene="ORF1"
/product="VPg"
mat_peptide 2922..3464
/gene="ORF1"
/product="Pro"
mat_peptide 3465..4994
/gene="ORF1"
/product="RdRp"
gene 4978..6600
/gene="ORF2"
CDS 4978..6600
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="QPJ59383.1"
/translation="MKMASSDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ
QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
FEVQVILAGNAFTAGKVIFAAVPPNFPTEGLSPSQVTMFPHIVVDVRQLEPVLIPLPD
VRNNFYHYNQSNDPTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT
QLSPVNICTFRGDVTHITGSHNYTMNLASQNWNNYDPTEEIPAPLGAPDFVGKIQGVL
TQTTRTDGSTRGHKATVYTGSADFAPKLGRVQFATDTDHDFETNQNTKFTPVGVIQDG
GTTHRNEPQQWVLPSYSGRNTPNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD
CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV
IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRAL"
gene 6600..7406
/gene="ORF3"
CDS 6600..7406
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="QPJ59384.1"
/translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA
SFQFSSNLQQASFQHDKEMLQAQIEATKRLQQEMMKVKQAMLLEGGFSETDAARGAIN
APMTKALDWSGTRYWAPDARTTTYNAGRFSTPQPSGALPGRANLRDAVPARGSSSKSS
NSSTATSVYSNQTTSTRLGSTAGSGTSVSSFPSTARTRSWVEDQSRNLSPFMRGAHNI
SFVTPPSSRSSSQGTVSTVPKEILDSWTGAFNTRRQPLFAHIRKRGESRA"
ORIGIN
1 cttttaagcg ggccctcggg gcgcggccta aacagccgcc cccgaaggaa acaccaccca
61 gacccccgcg accacccaca ccagaattgg tcaaaaagat ccctcctccc ccacccaacg
121 gggaggatga actagtggtc tcttacagcg ccaaagatgg cgtttccgga ctgcctgagc
181 tcaccactgt cagacaaccg gaagaaacca acacggcgtt cagtgtcccc ccactcaacc
241 aaagggagag cagggacgcc aaggagccac taactggaac aatcattgaa atgtgggatg
301 gagaaatcta ccattacggc ctgtacgtgg aacgaggtct tatacttggt gtacacaagc
361 caccggcagc cattagcctt gccaaggtcg agctagcacc gctctctttg ttctggagac
421 ctgtatacac cccccagtat ctcatctctc cagacactct taggagatta catggagagt
481 cattccccta cactgcattt gacaacaatt gctacgcctt ttgttgttgg gtattagacc
541 taaacgactc atggctaagc aggagaatga ttcagagaac aacaggtttc ttcaggccgt
601 accaggattg gaacaggaaa cccctcccca ctatggatga ttccaaatta aagaaggtag
661 ccaacatatt cttgtgcact ttgtcttcac tattcaccag acccattaag gacataatag
721 ggaagttgaa acctcttaac atccttaaca ttctggctac atgtgattgg accttcgcag
781 gcatagtgga atccttaata ctcttggcag aactctttgg agttttctgg acacccccag
841 atgtgtctgc gatgatcgcc cccttgctag gtgattatga actgcaagga cctgaggacc
901 ttgcagtgga actggtccca atagtgatgg gggggatagg tttggtgcta ggatttacca
961 aagagaaaat cgggaagatg ctatcgtctg ctgcatccac tttaagagct tgtaaagacc
1021 ttggtgcata cggactggaa atcttaaaat tggtcatgaa gtggttcttc ccaaagaaag
1081 aggaagcaaa tgaactggct atggtgagat ccatcgagga tgcagtgcta gacctcgagg
1141 caattgagaa caaccacatg accaccctac tcaaagacaa agacagcttg gcaacctaca
1201 tgagaaccct tgaccttgag gaggagaaag ccagaaaact ctcaaccaaa tctgcttcac
1261 ccgatattgt gggcacaatc aactctcttc tggcaagaat cgctgctgca cgctccctag
1321 tgcatcgggc gaaagaagag ctctccagca ggccgagacc tgtcgttgtg atgatatcgg
1381 gaagaccagg gatagggaaa actcaccttg ccagggagct ggccaagaag atcgcggcct
1441 ccctcacagg ggaccagcgt gtgggtctta tcccacgcaa tggtgtcgac cactgggacg
1501 catacaaggg cgaaagagtt gtcctatggg acgactatgg aatgagcaac cccatccatg
1561 atgccctcag gttgcaggag cttgctgaca cttgccccct cacactaaat tgtgacagaa
1621 ttgagaacaa agggaaagtc tttgacagtg atgccataat tatcaccacc aatctggcca
1681 acccagcacc actggattat gtcaactttg aagcgtgctc gagacgcatt gatttcctcg
1741 tgtacgcaga agcccctgag gtggagaagg caaagcgcga cttcccaggt caacctgaca
1801 tgtggaagaa cgctttcagt cctgacttct cacacataaa actgtcattg gctccacagg
1861 gtggttttga caagaacggc aacaccccgc atggaaaagg ggtcatgaag accctcacca
1921 ctggctccct catcgcccga gcatcagggt tactccatga gaggctagat gaatatgaac
1981 tgcaaggccc agccctcacc actttcaact ttgaccgcaa caagatactt gcttttagac
2041 agcttgctgc tgaaaacaag tatgggctga tggacacaat gagagttgga aaacagctca
2101 aggatgtcaa gaccatgtca gacctcaaac aagcactcaa gaacatcgcg atcaagaagt
2161 gccagatagt gtacaatggt ggcacctaca cacttgaggc tgatggcaag ggtagtgtga
2221 aagttgacaa agtacaaagt gccactgtgc agaccaacaa tgaactagcc ggtgccctac
2281 accacctaag gtgcgctaga atcagatact atgttaagtg cgtccaggag gcactgtatt
2341 ccatcatcca aatcgctggg gctgcattcg tcaccacgcg catcgctaag cgcatgaata
2401 tacagaatct ctggtccaag ccacaggtgg aagacacaga agagatggcc aacaaagatg
2461 gttgcctaaa acccaaagat gatgaagagt ttgtcgtctc atccgacgac atcaaaactg
2521 agggcaagaa agggaagaac aagtccggcc gtggcaagaa gcacacagcc ttttcaagca
2581 aagggctcag tgatgaggag tacgatgagt acaagagaat cagagaagaa aggaatggta
2641 agtactccat agaagagtac cttcaggaca gagacaggta ctacgaggag gtggccattg
2701 ccagggcaac cgaagaggac ttctgtgaag aagaagaggc caaaatccgg cagagaattt
2761 tcagaccaac aaggaaacaa cgcaaagaag agagggcctc tctcggcttg gtcacaggct
2821 ctgaaatcag gaagagaaac ccagaagact tcaaacccaa gggaaagctg tgggctgatg
2881 atgacagaag tgttgactac aatgagaaac tcaactttga ggccccacca agcatctggt
2941 cgcggatagt caactttggt tcaggctggg gcttctgggt ctcccccagt ctgtttataa
3001 catcaaccca tgtcataccc caaggtgcaa aagagttctt cggagtccct atcaagcaaa
3061 tccagataca caaatcaggt gaattctgcc ggttgagatt cccaaagccg atcagaactg
3121 atgtgacggg catgattcta gaagaaggtg cgcccgaggg gaccgtggcc acactgctca
3181 tcaagagacc aactggagag ctcatgcctc tggcagccag aatggggacc catgcaacca
3241 tgaaaattca ggggcgcaca gttggagggc aaatgggtat gctcctgaca ggatccaacg
3301 ccaagagtat ggacctaggc acaacaccag gcgactgcgg ctgcccctac atctacaaga
3361 gggggaatga ctacgtggtc ataggagtcc atacggccgc tgcccgtgga ggaaacactg
3421 tcatatgtgc cacccagggg agtgagggag aagccacact tgaaggaggt gacagtaaag
3481 ggacatactg tggcgcacca atcttgggcc cagggagcgc tccaaagctc agtaccaaga
3541 ctaagttttg gagatcatcc acaacaccac tcccacctgg cacctacgaa ccagcctacc
3601 tcggtggcaa agaccctaga gtcaaaggtg gcccttcatt gcaacaagtt atgagggacc
3661 agctgaagcc attcacagaa cccagaggca aaccaccaag accaaatgtg ttggaagctg
3721 ccaagaaaac catcatcaat gtccttgagc aaacaattga tccaccccaa aaatggtcat
3781 ttgcgcaagc ttgcgcatcc cttgacaaaa ccacctccag cggccacccg caccacatgc
3841 ggaaaaacga ctgttggaat ggggagtcct tcacaggaaa attggctgat caagcctcca
3901 aggccaacct aatgtttgaa gagggaaaga acatgactcc agtctacaca ggtgcactta
3961 aagatgagtt ggtaaagacc gataaagttt atggtaaggt caagaagagg cttctgtggg
4021 gttcagatct ggcgaccatg atacggtgcg cccgagcttt tggaggcctt atggatgaac
4081 tcaaggcaca ctgtgtcaca cttcctgtca gggttggtat gaacatgaat gaggatggcc
4141 ccatcatctt tgagaagcac tccagatata gatatcatta tgatgctgat tattcccggt
4201 gggactcaac acaacaaagg gatgtgctag cagcagcact agaaatcatg gttaagttct
4261 ctccagaacc acacctggcc cagatagttg cagaagacct cctttcccct agcgtaatgg
4321 atgtaggtga ctttcaaata tcaataagtg agggtctccc ctctggggta ccttgtacct
4381 cccagtggaa ttccatcgcc cactggctcc tcactctgtg tgcactctct gaagtcacgg
4441 acctgtcccc tgatatcatt caggccaact cccttttctc cttctatggt gatgatgaga
4501 ttgtaagcac agacataaag ttggacccag agaagctgac agcaaaactc aaggagtacg
4561 ggctgaaacc aacccgcccc gacaaaactg aaggacccct tgttatctct gaagacctgg
4621 atggcctgac attcctccgg agaactgtga cccgtgatcc agctggctgg tttggaaaat
4681 tggaacaaag ttcaattctc aggcaaatgt actggaccag gggtcccaac catgaagatc
4741 catttgaaac aatgatacca cactcccaaa gacccataca attgatgtcc ttgctgggcg
4801 aggctgcact ccacggcccg gcattctata gcaaaattag caaattagtc attgcagagt
4861 tgaaggaagg tggcatggat ttttacgtgc ccagacaaga gccaatgttc agatggatga
4921 gattctcaga tctgagcacg tgggagggcg atcgcaatct ggctcccagt tttgtgaatg
4981 aagatggcgt cgagtgacgc caacccatct gatgggtccg cagccaacct cgtcccagag
5041 gtcaacaatg aggttatggc tctggagccc gttgttggtg ccgccattgc ggcacctgta
5101 gcgggccaac aaaatgtaat tgacccctgg attagaaata attttgtaca agcccctggt
5161 ggagagttta cagtatcccc tagaaacgct ccaggtgaaa tactatggag cgcgcccttg
5221 ggccctgatc taaatcccta cctatcccat ttggccagaa tgtacaatgg ttatgcaggt
5281 ggttttgaag tgcaggtaat tctcgcgggg aacgcgttca ccgccgggaa ggtcatattt
5341 gcagcagtcc caccaaattt tccaactgaa ggcttgagcc ccagccaggt cactatgttc
5401 ccccatatag tagtagatgt taggcaacta gaacctgtgt tgattccctt acccgatgtt
5461 aggaataatt tctaccatta caatcaatca aatgacccca ccattaagtt gatagcaatg
5521 ttgtatacac cacttagggc taataatgct ggggatgatg tcttcacagt ttcttgccga
5581 gttctcacga gaccatcccc cgattttgat ttcatatttc tagtgccacc cacagttgag
5641 tcaagaacta aaccattctc tgtcccagtt ttaactgttg aggagatgac caattcaaga
5701 ttccccattc ctttggaaaa gttgttcacg ggtcccagca gtgcctttgt tgtccaacca
5761 caaaacggta ggtgcacgac tgatggcgtg ctcctaggca ccacccaact gtctcctgtc
5821 aacatctgca ccttcagagg agatgtcacc catatcacag gtagtcataa ctacacaatg
5881 aatttggctt ctcaaaattg gaacaattat gacccaacag aagaaatccc agcccctcta
5941 ggagctccag attttgtggg gaagattcaa ggcgtgctca cccaaaccac aaggacagat
6001 ggctcaacac gcggccacaa agctacagtg tacactggga gcgccgattt tgctccaaaa
6061 ctgggtagag ttcaatttgc aactgacaca gaccatgact ttgaaactaa ccaaaacaca
6121 aagttcaccc cagttggtgt catccaagat ggtggcacca cccaccgaaa tgaaccccaa
6181 cagtgggtgc tcccaagtta ctcaggcaga aatactccta atgtgcatct ggcccccgct
6241 gtagccccca cttttccggg tgagcaactt ctcttcttca gatccaccat gcccggatgc
6301 agcgggtacc ccaacatgga tttggactgt ctgctccccc aggaatgggt gcagtacttc
6361 taccaagagg cagccccagc acaatctgat gtggctctgc taagatttgt gaatccagac
6421 acaggtaggg ttttgtttga gtgtaagctt cataaatcag gctatgttac agtggctcac
6481 actggtcaac atgatttggt tatccccccc aatggttatt ttaggtttga ttcctgggtc
6541 aaccagtttt acacgcttgc ccccatggga aatggaacgg ggcgtagacg tgcactataa
6601 tggctggagc tttctttgct ggattggcat ctgatgtcct tggctctgga cttggttccc
6661 ttatcaatgc tggggctggg gccatcaacc aaaaagttga gtttgaaaat aacagaaaat
6721 tgcaacaagc atccttccaa tttagcagca atctacaaca ggcttccttt caacatgaca
6781 aagagatgct ccaagcacaa attgaggcca ccaaaaggct acaacaggaa atgatgaaag
6841 ttaagcaggc aatgctccta gagggtgggt tctctgagac agatgcagcc cgcggggcaa
6901 tcaacgcccc catgacaaaa gctttggact ggagcgggac aaggtactgg gctcccgatg
6961 ctaggactac aacatacaat gcaggccgct tttccacccc tcaaccatcg ggggcactgc
7021 caggaagagc taatcttagg gatgctgtcc ctgctcgggg ttcctccagc aagtcttcta
7081 attcttctac tgctacttct gtgtactcaa atcaaactac ttcaacgaga cttggttcta
7141 cagctggttc tggtaccagt gtctcgagct tcccgtcaac tgcaaggact aggagctggg
7201 ttgaggatca aagtaggaat ttgtcacctt tcatgagggg ggcccacaac atatcgtttg
7261 tcaccccacc atctagcaga tcctctagcc aaggcacagt ctcaaccgtg cctaaagaga
7321 ttttggactc ctggactggc gctttcaaca cgcgcaggca gccactcttc gctcacattc
7381 gtaagcgagg ggagtcacgg gcgtaatgtg aaaagacaaa attgattatc tttctttttc
//