Typing tool
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Typing tool
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Complete norovirus genomes
| MN308017 | GII.4 Sydney | |
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| GII.P31 |
ORF1: 1..5103
ORF2: 5084..6706
ORF3: 6706..7512
LOCUS MN308017 7512 bp RNA linear VRL 29-JUN-2021
DEFINITION Norovirus GII isolate 159_GII.Pe_GII.4_Araguaina nonstructural
polyprotein (ORF1), VP1 (ORF2), and VP2 (ORF3) genes, complete cds.
ACCESSION MN308017
VERSION MN308017.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7512)
AUTHORS Tinker,R.J., da Costa,A.C., Tahmasebi,R., Milagres,F.A.P., Dos
Santos Morais,V., Pandey,R.P., Jose-Abrego,A., Brustulin,R.,
Rodrigues Teles,M.D.A., Cunha,M.S., Araujo,E.L.L., Gomez,M.M.,
Deng,X., Delwart,E., Sabino,E.C., Leal,E. and Luchs,A.
TITLE Norovirus strains in patients with acute gastroenteritis in rural
and low-income urban areas in northern Brazil
JOURNAL Arch Virol 166 (3), 905-913 (2021)
PUBMED 33462673
REFERENCE 2 (bases 1 to 7512)
AUTHORS Tinker,R.J., da-Costa,A.C., Leal,E.S., Tahmasebi,R.,
Milagres,F.A.P., Pandey,R.P., Jose-Abrego,A., Brustulin,R.,
Teles,Md.A.R., Sayao-Lobato,M.C.A.B., Chagas,R.T.,
Santos-Abrao,Md.F.N., Alves-Soares,C.V.D., Cunha,M.S., Deng,X.,
Delwart,E., Sabino,E.C. and Luchs,A.
TITLE Direct Submission
JOURNAL Submitted (13-AUG-2019) Institute of Tropical Medicine, University
of Sao Paulo, Av Dr Eneas de Carvalho Aguiar 470, Sao Paulo, Sao
Paulo 05403000, Brazil
COMMENT ##Assembly-Data-START##
Assembly Method :: Geneious v. R9
Sequencing Technology :: Illumina
##Assembly-Data-END##
FEATURES Location/Qualifiers
source 1..7512
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="159_GII.Pe_GII.4_Araguaina"
/isolation_source="feces"
/host="Homo sapiens"
/db_xref="taxon:122929"
/country="Brazil"
/collection_date="03-Jan-2013"
/note="genotype: GII.Pe_GII.4"
gene 1..5103
/gene="ORF1"
CDS 1..5103
/gene="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="QED42439.1"
/translation="MKMASNDASAAAVANSNNDIAKSSSDGVFSNMAVTFKRALGARP
KQPPPKEIPPRPPRPPTPELVKKIPPPPPNGEDELVVSYSTKGGVSGLPELTTVRQPE
ETNTAFSVPPLNQRESRDAKEPLTGTIIEMWDGEIYHYGLYVERGLILGVHKPPAAIS
LAKVELTPLSLFWRPVYTPQYLISPDTLRRLHGESFPYTAFDNNCYAFCCWVLDLNDS
WLSRRMIQRTTGFFRPYQDWNRKPLPTMDDSKLKKVANIFLCTLSSLFTRPIKDIIGK
LKPLNILNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPED
LAVELVPIVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFP
KKEEANELAMVRSIEDAVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARKLST
KSASPDIVGTINSLLARIAAARSLVHRAKEELSSRPRPVVVMISGRPGIGKTHLAREL
AKKIAASLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTC
PLTLNCDRIENKGKVFDSDAIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEK
AKRDFPGQPDMWKNAFSPDFSHIKLSLAPQGGFDKNGNTPHGKGVMKTLTTGSLIARA
SGLLHERLDEYELQGPALTTFNFDRNKILAFRQLAAENKYGLMDTMRVGKQLKDVKTM
SDLKQALKNIAIKKCQIVYNGSTYTLEADGKGSVKVDKVQSATVQTNNELAGALHHLR
CARIRYYVKCVQEALYSIIQIAGAAFVTTRIAKRMNIQNLWSKPQVEDTEEMTNKDGC
LKPKDDEEFVVSSDDIKTEGKKGKNKSHRIPHHWAFSSKGLSDEEYDEYKRIREERNG
KYSIEEYLQDRDRYSSMELAITRATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGL
VTGSEIRKRNPEDFKPKGKLWADDDRSVDYNEKLNFEAPPSIWSRIVNFGSGWGFWVS
PSLFITSTHVIPQGAKEFFGVPIKQIQIHKSGEFCRLRFPKPIRTDVTGMILEEGAPE
GTVATLLIKRPTGELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPG
DCGCPYIYKRGNDYVVIGVHTAAARGGNTVICATQGSEGEATLEGGDSKGTYCGAPIL
GPGSAPKLSTKTKFWRSSTTPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKPFTE
PRGKPPRPNVLEAAKKTIINVLEQTIDPPQKWSFAQACASLDKTTSSGHPHHMRKNDC
WNGESFTGKLADQASKANLMFEEGKNMTPVYTGALKDELVKTDKVYGKIKKRLLWGSD
LATMIRCARAFGGLMDELKAHCVTLPVRVGMNMNEDGPIIFEKHSRYRYHYDADYSRW
DSTQQRDVLAAALEIMVKFSPEPHLAQVVAEDLLSPSVMDVGDFQISISEGLPSGVPC
TSQWNSIAHWLLTLCALSEVTDLSPDIIQANSLFSFYGDDEIVSTDIKLDPEKLTAKL
KEYGLKPTRPDKTEGPLVISEDLDGLTFLRRTVTRDPAGWFGKLEQSSILRQMYWTRG
PNHEDPFETMIPHSQRPIQLMSLLGEAALHGPAFYSQLSKLVIAELKEGGMDFYVPRQ
EPMFRWMRFSDLSMWEGDRNLAPSFVNEDGVE"
mat_peptide 1..990
/gene="ORF1"
/product="p48"
mat_peptide 991..2088
/gene="ORF1"
/product="NTPase"
mat_peptide 2089..2625
/gene="ORF1"
/product="p22"
mat_peptide 2626..3027
/gene="ORF1"
/product="VPg"
mat_peptide 3028..3570
/gene="ORF1"
/product="Pro"
mat_peptide 3571..5100
/gene="ORF1"
/product="RdRp"
gene 5084..6706
/gene="ORF2"
CDS 5084..6706
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="QED42440.1"
/translation="MKMASSDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ
QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
FEVQVILAGNAFTAGKVIFAAVPPNFPTEGLSPSQVTMFPHIVVDVRQLEPVLIPLPD
VRNNFYHYNQSNDPTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFSVPVKTVERMASSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT
QLSPVNICTFRGDVTHITGSHNYTMNLASQNWNNYDPTEEIPAPLGTPDFVGKIQGVL
TQTTRTDGSTRGHKATVYTGSADFAPKLGRVQFETDTNHDFETNQNTKFTPVGVIQDG
STTHRNEPQQWVLPSYSGRNTHNVRLSNLGAPTFPGEQLLFFRSTMPGCSGYPNMDLD
CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV
IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRAV"
gene 6706..7512
/gene="ORF3"
CDS 6706..7512
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="QED42441.1"
/translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA
SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQEMMKVKQAMLLEGGFSETDAARGAIN
APMTKALDWSGTRYWAPDARTTTYNAGRFSTPQPSGALPGRANLRDAVPARGSSSKSS
NSSTATSVYSNQTTSTRLGSTAGSGTSVSSLPSTARTRSWVEDQSRNLSPFMRGAHNI
SFVTPPSSRSSSQGTVSTVPKEVLDSWTGAFNTRRQPLFAHIRKRGESRA"
ORIGIN
1 ttgaagatgg cgtctaacga cgcttccgct gccgctgttg ccaacagcaa caacgacatc
61 gcaaaatctt caagtgacgg tgtgttttct aacatggctg tcacttttaa gcgggccctc
121 ggggcgcggc ctaaacagcc gcccccgaag gagataccac ccagaccccc gcgaccaccc
181 acaccagaat tggtcaaaaa gatccctcct cccccaccca acggggagga tgaactagtg
241 gtctcttaca gcaccaaagg tggcgtttcc ggactgcctg agctcaccac tgtcagacaa
301 ccggaagaaa ccaacacggc gttcagtgtc cccccactca accaaagaga gagcagggac
361 gccaaggagc cactaactgg aacaattatt gaaatgtggg atggagaaat ctaccattac
421 ggcctgtatg tggaacgagg tcttatactt ggtgtgcaca agccaccggc agccatcagc
481 cttgccaagg tcgagctaac accgctctct ttgttctgga gacctgtata caccccccag
541 tatctcatct ctccagacac tcttaggaga ttacatggag agtcattccc ctacactgca
601 tttgacaaca attgctacgc cttttgttgt tgggtattag acctaaacga ctcatggtta
661 agcaggagaa tgattcagag aacgacaggt ttcttcaggc cgtaccagga ttggaacagg
721 aaacccctcc ccactatgga tgattccaaa ttaaagaagg tagccaacat attcttgtgc
781 actttgtctt cactattcac cagacccatt aaggatataa tagggaagtt gaaacctctt
841 aacatcctta acattctggc tacatgtgat tggaccttcg caggcatagt ggaatcttta
901 atactcttag cagaactctt tggagttttc tggacacccc cagatgtgtc tgcgatgatc
961 gcccccttgc taggtgatta tgaactgcaa ggacctgagg accttgcagt ggaactggtc
1021 ccaatagtga tgggggggat aggtttggtg ctaggattta ccaaagagaa aattggaaag
1081 atgctatcat ccgctgcatc cactttaaga gcttgtaaag accttggtgc atacggactg
1141 gaaatcttaa aattggtcat gaagtggttc ttcccaaaga aagaggaagc aaatgaactg
1201 gctatggtga gatccatcga ggacgcagtg ctagacctcg aggcaattga aaacaaccac
1261 atgaccaccc tactcaaaga caaagacagc ttggcaacct acatgagaac ccttgacctt
1321 gaggaggaga aagccagaaa actctcaacc aaatctgctt cacccgatat tgtgggcaca
1381 atcaactctc ttctggcaag aatcgctgct gcacgctccc tagtgcatcg ggcgaaagaa
1441 gagctctcca gcaggccgag acctgtcgtt gtgatgatat cgggaagacc agggataggg
1501 aaaactcacc ttgccaggga gctggccaag aagatcgcgg cctccctcac aggggaccag
1561 cgtgtgggtc ttatcccacg caatggtgtc gatcactggg acgcatacaa gggcgaaaga
1621 gttgtcctat gggacgacta tggaatgagc aaccccatcc atgatgccct caggttgcag
1681 gagcttgctg acacttgccc cctcacgcta aattgtgaca gaattgagaa caaagggaaa
1741 gtctttgaca gtgatgccat aattatcacc accaatctgg ccaacccagc accactggat
1801 tatgtcaact ttgaagcgtg ctcgagacgt attgacttcc tcgtgtacgc agaagcccct
1861 gaggtggaga aggcaaagcg cgacttccca ggtcaacctg acatgtggaa gaacgctttc
1921 agtcctgact tctcacacat aaaactgtca ttggctccac agggtggttt tgacaagaac
1981 ggcaacaccc cgcatggaaa aggggtcatg aagaccctca ccactggctc cctcatcgcc
2041 cgagcatcag ggttactcca tgagaggcta gatgaatatg aactgcaagg cccagccctc
2101 accactttca actttgaccg caacaagata cttgctttta gacagcttgc tgctgaaaac
2161 aagtatgggc tgatggacac aatgagagtt ggaaaacagc tcaaggatgt caagaccatg
2221 tcagacctca aacaggcact caagaacatc gcgatcaaga agtgccagat agtgtacaat
2281 ggtagcacct acacacttga ggccgatggc aagggtagtg tgaaagttga caaagtgcaa
2341 agtgccactg tgcagaccaa caatgaacta gccggtgccc tacaccacct aaggtgcgct
2401 agaatcagat actatgttaa gtgcgtccag gaggcactgt attccatcat ccaaatcgct
2461 ggggctgcat tcgtcaccac gcgcatcgct aagcgcatga atatacagaa tctctggtcc
2521 aaaccacagg tggaagacac agaagagatg accaacaaag atggttgcct aaaacccaaa
2581 gatgatgaag agtttgtcgt ctcatccgac gacatcaaaa ctgagggcaa gaaagggaag
2641 aacaagtctc atcgtattcc tcatcactgg gccttttcaa gcaaagggct cagtgatgag
2701 gaatacgatg agtacaagag aattagagaa gaaaggaatg gtaagtattc catagaagag
2761 taccttcagg acagagacag gtactcttct atggagttgg ccattaccag ggcaaccgaa
2821 gaggacttct gtgaggaaga agaggccaaa atccggcaga gaatcttcag accaacaagg
2881 aaacaacgca aagaagagag ggcctctctc ggcttggtca caggctctga aatcaggaag
2941 agaaacccag aagacttcaa acccaaggga aagctgtggg ctgatgatga cagaagtgtt
3001 gactacaatg agaaactcaa ttttgaggcc ccaccaagca tctggtcgcg gatagtcaac
3061 tttggttcag gctggggctt ctgggtctcc cccagtctgt ttataacatc aacccatgtc
3121 ataccccaag gtgcaaaaga gttcttcgga gtccctatca agcaaatcca gatacacaaa
3181 tcaggtgaat tctgccgatt gagattccca aagccaatca gaactgatgt gacgggcatg
3241 attctagaag aaggtgcgcc cgaggggacc gtggccacac tgctcatcaa gagaccaact
3301 ggagagctca tgcctctggc agccagaatg gggacccatg caaccatgaa aattcagggg
3361 cgcacagttg gagggcaaat gggtatgctc ctgacaggat ccaacgccaa gagtatggac
3421 ctaggcacaa caccaggcga ctgcggctgc ccctacatct acaagagggg gaatgactac
3481 gtggtcatag gagtccatac ggccgctgcc cgtggaggaa acactgtcat atgtgccacc
3541 caggggagtg agggagaagc cacacttgaa ggaggtgaca gtaaagggac atactgtggc
3601 gcaccaatct tgggcccagg gagcgctccg aagctcagta ccaagactaa gttttggaga
3661 tcatccacaa caccactccc acctggcacc tatgaaccag cctacctcgg tggtaaagac
3721 cccagagtta aaggtggccc ttcattgcaa caagttatga gggaccagct aaagccattc
3781 acagaaccca gaggcaaacc accaagacca aatgtgttgg aagctgccaa gaaaaccatc
3841 atcaatgtcc ttgagcaaac aattgatcca ccccaaaaat ggtcatttgc gcaagcttgc
3901 gcatcccttg acaaaaccac ctccagcggc cacccgcacc acatgcggaa aaacgattgt
3961 tggaatgggg agtccttcac gggaaaattg gctgatcaag cctccaaggc caacctaatg
4021 tttgaagagg gaaagaacat gactccagtc tacacaggtg cacttaaaga tgagttggta
4081 aagaccgata aagtttatgg taagatcaag aagaggcttc tgtggggttc agacctggcg
4141 accatgatac ggtgcgcccg agcttttgga ggccttatgg atgaactcaa ggcgcactgt
4201 gtcacacttc ctgtcagagt tggtatgaac atgaatgagg atggccccat catctttgag
4261 aagcactcca gatatagata ccactatgat gctgattatt cccggtggga ctcaacacaa
4321 caaagggatg tgctagcagc agcactagaa atcatggtta agttctctcc agaaccacac
4381 ctggcccagg tagttgcaga agacctcctt tcccctagcg tgatggatgt aggtgacttt
4441 caaatatcaa taagtgaggg tcttccctct ggggtacctt gtacctccca gtggaattcc
4501 atcgcccact ggctcctcac tctttgtgca ctctctgaag tcacggacct gtcccctgac
4561 atcattcagg ccaactccct tttctccttc tatggtgatg atgagattgt aagcacagac
4621 ataaagttgg acccagagaa gctgacagca aaactcaagg agtacgggct gaaaccaacc
4681 cgccccgaca aaactgaggg accccttgtt atctctgaag acctggatgg cctgacattc
4741 ctccggagaa ctgtgacccg tgatccggct ggctggtttg gaaaattgga acaaagttca
4801 attctcagac aaatgtactg gaccaggggt cccaaccatg aagatccatt tgaaacaatg
4861 ataccacact cccaaagacc catacaattg atgtccttgc tgggcgaggc tgcactccac
4921 ggcccggcat tctatagcca actcagcaaa ttagtcattg cagagttgaa ggaaggtggc
4981 atggattttt acgtgcccag acaagagcca atgttcagat ggatgagatt ctcagatctg
5041 agcatgtggg agggcgatcg caatctggct cccagttttg tgaatgaaga tggcgtcgag
5101 tgacgccaac ccatctgatg ggtccgcagc caacctcgtc ccagaggtca acaatgaggt
5161 tatggctctg gagcccgttg ttggtgccgc cattgcggca cctgtagcgg gccaacaaaa
5221 tgtaattgac ccctggatta gaaataattt tgtacaagcc cctggtggag agtttacagt
5281 atcccctaga aacgctccag gtgaaatact atggagcgcg cccttgggcc ctgatctaaa
5341 tccctaccta tcccatttgg ccagaatgta caatggttat gcaggtggtt ttgaagtgca
5401 ggtaattctc gcggggaacg cgttcaccgc cgggaaggtc atatttgcag cagtcccacc
5461 aaattttcca actgaaggct tgagccccag ccaggtcact atgttccccc atatagtagt
5521 agatgttagg caactagaac ctgtgttgat tcctttaccc gatgttagga ataatttcta
5581 tcattataat caatcaaatg accccaccat taagttgata gcaatgttgt atacaccact
5641 tagggctaat aatgctgggg atgatgtctt cacagtttct tgccgggttc tcacgagacc
5701 atcccccgat tttgatttca tatttctagt gccacccaca gttgaatcaa gaactaaacc
5761 attctctgtc ccagttaaaa ctgttgagag aatggccagt tcaagattcc ccattccttt
5821 ggaaaagttg ttcacgggtc ccagcagtgc ctttgttgtc caaccacaaa acggcaggtg
5881 cacgactgat ggcgtgctcc tgggcaccac ccaactgtct cctgtcaaca tctgtacctt
5941 cagaggagat gtcacccata tcacaggtag tcataactac acaatgaatt tggcttctca
6001 aaattggaac aattatgacc caacagaaga aatcccagcc cctctaggaa ctccagactt
6061 tgtggggaag attcaaggcg tgctcaccca aaccacaagg acagatggct caacacgcgg
6121 ccacaaagcc acagtgtaca ctgggagcgc cgactttgct ccaaaactgg gtagagttca
6181 atttgaaact gacacaaacc atgattttga aaccaaccaa aacacaaagt tcaccccagt
6241 cggtgtcatc caagatggta gcaccaccca ccgaaatgaa ccccaacagt gggtgctccc
6301 aagttactca ggcagaaata ctcataatgt gcgcctgagt aacttgggag cacccacttt
6361 tccgggtgag caacttctct tcttcagatc caccatgccc ggatgcagcg ggtaccccaa
6421 catggatttg gactgtctgc tcccccagga atgggtgcag tacttctacc aagaggcagc
6481 cccagcacaa tctgatgtgg ctctgctaag atttgtgaat ccagacacag gtagggtttt
6541 gtttgagtgt aagcttcata aatcaggcta tgttacagtg gctcacactg gccaacatga
6601 tttggttatt ccccccaatg gttattttag atttgattcc tgggtcaacc agttctacac
6661 gcttgccccc atgggaaatg gaacggggcg tagacgtgca gtataatggc tggagctttc
6721 tttgctggat tggcatctga tgtcctaggc tctggacttg gttcccttat caatgctggg
6781 gctggggcca tcaaccaaaa agttgagttt gaaaataaca gaaaattgca acaagcatcc
6841 ttccaattta gcagcaatct acaacaggct tcctttcaac atgacaaaga gatgctccaa
6901 gcacaaattg aggccaccaa aaagctacaa caggaaatga tgaaagttaa gcaggcaatg
6961 ctcctagagg gtgggttctc tgagacagat gcagcccgcg gggcaatcaa cgcccccatg
7021 acaaaagctt tggactggag cgggacaagg tactgggctc ccgatgctag gactacaaca
7081 tacaatgcag gccgcttttc cacccctcaa ccatcggggg cactgccagg aagagctaat
7141 cttagggatg ctgtccctgc tcggggttcc tccagtaaat cttctaactc ttctactgct
7201 acttctgtgt actcaaatca aactacttca acgagacttg gttctacagc tggttctggc
7261 accagtgtct cgagcctccc gtcaactgca aggaccagga gctgggttga ggatcaaagt
7321 aggaatttgt cacctttcat gaggggggcc cacaacatat cgtttgtcac cccaccatct
7381 agcagatcct ctagccaagg cacagtctca accgtgccta aagaggtttt ggactcctgg
7441 actggcgctt tcaacacgcg caggcagcca ctcttcgctc acattcgtaa gcgaggggag
7501 tcacgggcgt aa
//