Typing tool
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Typing tool
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Complete norovirus genomes
| MN308002 | GII.4 Sydney | |
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| GII.P31 |
ORF1: 1..5103
ORF2: 5084..6706
ORF3: 6706..7512
LOCUS MN308002 7512 bp RNA linear VRL 29-JUN-2021
DEFINITION Norovirus GII isolate 065_GII.Pe_GII.4_Araguaina nonstructural
polyprotein (ORF1), VP1 (ORF2), and VP2 (ORF3) genes, complete cds.
ACCESSION MN308002
VERSION MN308002.1
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="065_GII.Pe_GII.4_Araguaina"
/isolation_source="feces"
/host="Homo sapiens"
/db_xref="taxon:122929"
/country="Brazil"
/collection_date="31-Aug-2015"
/note="genotype: GII.Pe_GII.4"
gene 1..5103
/gene="ORF1"
CDS 1..5103
/gene="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="QED42394.1"
/translation="MKMASNDASAAAVANSNNDIAKSSSDGMFSNMAVTFKRALGARP
KQPPPKEVPPRPPRPPTPELVKKIPPPPPNGEDELVVSYSAKDGVSGLPELTTVRQPE
ETNTAFSVPPLNQRESRDAKEPLTGTIIEMWDGEIYHYGLYVERGLILGVHKPPAAIS
LAKVELAPLSLFWRPVYTPQYLISPDTLRRLHGESFPYTAFDNNCYAFCCWVLDLNDS
WLSRRMIQRTTGFFRPYQDWNRKPLPTMDDSKLKKVANIFLCTLSSLFTRPIKDIIGK
LKPLNILNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPED
LAVELVPIVMGGIGLVLGFTKERIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFP
KKEEANELAMVRSIEDAVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARKLST
KSASPDIVGTINSLLARIAAARSLVHRAKEELSSRPRPVVVMISGRPGIGKTHLAREL
AKKIAASLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTC
PLTLNCDRIENKGKVFDSDAIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEK
AKRDFPGQPDMWKNAFSPDFSHIKLSLAPQGGFDKNGNTPHGKGVMKTLTTGSLIARA
SGLLHERLDEYELQGPALTTFNCVHQPILAFRQLAAENKYGLMDTMRVGKQLKDVKTM
SDLKQALKNIAIKKCQIVYDGGTYTLEADGKGSVKVDKVQSATVQTNNELAGALHHLR
CARIRYYVKCVQEALYSIIQIAGAAFVTTRIAKRMNIQNLWSKPQMEDTEEMTNKDGC
LKPKDEEEFVVSSKDIKTEGKKGKNKSHRTPHHWAFSSKGLSDEEYDEYKRIREERNG
KYSIEEYLQDRDRYSSMEVAITRATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGL
VTGSEIRKRNPEDFKPKGKLWADDDRSVDYNEKLNFEAPPSIWSRIVNFGSGWGFWVS
PSLFITSTHVIPQGAKEFFGVPIKQIQIHKSGEFCRLRFPKPIRTDVTGMILEEGAPE
GTVATLLIKRPTGELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPG
DCGCPYIYKRGNDYVVIGVHTAAARGGNTVICATQGSEGEATLEGGDSKGTYCGAPIL
GPGSAPKLSTKTKFWRSSTTPLPPGTYEPAYLGGKDPRVEGGPSLQQVLRDQLKPFTE
PRGRPPEPNLLEAAKKTVTNVLEQTIDPPQKWSFGQACASLDKTTSSGHPHHMRKNDC
WNGESFTGKLADQASKANLMFEEGKNMTPVYTGALKDELVKTDKVYGKIKKRLLWGSD
LATMIRCARAFGGLMDELKAHCVTLPVRVGMNMNEDGPIIFEKHSRYRYHYDADYSRW
DSTQQRDVLAAALEIMVKFSPEPHLAQIVAEDLLSPSVMDVGDFQISISEGLPSGVPC
TSQWNSIAHWLLTLCALSEVTDLSPDIIQANSLFSFYGDDEIVSTDIKLDPEKLTAKL
KEYGLKPTRPDKTEGPLVISEDLDGLTFLRRTVTRDPAGWFGKLEQSSILRQMYWTRG
PNHEDPFETMIPHSQRPIQLMSLLGEAALHGPAFYSQLSKLVIAELKEGGMDFYVPRQ
EPMFRWMRFSDLSTWEGDRNLAPSFVNEDGVE"
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="QED42395.1"
/translation="MKMASSDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ
QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
FEVQVILAGNAFTAGKVIFAAVPPNFPTEGLSPSQVTMFPHIVVDVRQLEPVLIPLPD
VRNNFYHYNQSNDPTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT
QLSPVNICTFRGDVTHITGSHNYTMNLASQNWNNYDPTEEIPAPLGTPDFVGKIQGML
TQTTRTDGSTRGHKATVYTGSADFSPKLGRVQFETDTDHDFEANQNTKFTPVGVIQDG
STTHRNEPQQWVLPSYSGRNTHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD
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="QED42396.1"
/translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNKKLQQA
SFQFSSNLQQASFQHDKEMLQAQIEATKRLQQEMMKVKQAVLLEGGFSETDAARGAIN
APMTKALDWSGTRYWAPEARTTTYNAGRFSTPQPSGALPGRANLRDAVPARGSSSKSS
NSSTATSVYSNQTTSTRLGSTAGSGTSVSSFPSIARTRSWVEDQSRNLSPFMRGAHNI
SFVTPPSSRSSSQGTVSTVPKEVLDSWTGAFNTRRQPLFAHIRKRGESRA"
ORIGIN
1 ttgaagatgg cgtctaacga cgcttccgct gccgctgttg ccaacagcaa caacgacatc
61 gcaaaatctt caagtgacgg tatgttttct aacatggctg tcacttttaa gcgggccctc
121 ggggcgcggc ctaaacagcc gcccccgaag gaagtaccac ccagaccccc gcgaccaccc
181 acaccagaat tggtcaaaaa gatccctcct cccccaccca acggggagga tgaactagtg
241 gtctcttaca gcgccaaaga tggcgtttcc ggactgcctg agctcaccac tgtcagacaa
301 ccggaagaaa ccaacacggc gttcagtgtc cccccactca accaaaggga gagcagggac
361 gccaaggagc cattaactgg aacaatcatt gaaatgtggg atggagaaat ctaccattac
421 ggcctgtacg tggaacgagg tcttatactt ggtgtgcaca agccaccggc agccattagc
481 cttgccaagg tcgagctagc accgctctct ttgttctgga gacctgtata caccccccag
541 tatctcatct ctccggacac tcttaggaga ttgcatggag agtcattccc ttacactgca
601 tttgacaaca attgctacgc cttttgttgt tgggtattag acctaaacga ctcatggcta
661 agcaggagaa tgattcagag aacaacaggc ttctttaggc cgtaccagga ttggaacagg
721 aaacccctcc ccactatgga tgattccaaa ttaaagaagg tagccaacat attcttgtgc
781 actttgtctt cactattcac cagacccatc aaggacataa tagggaagtt gaaacctctt
841 aacatcctta atattctggc tacatgtgat tggaccttcg caggcatagt ggaatcttta
901 atactcttag cagaactctt tggagttttc tggacacccc cagatgtgtc tgcgatgatc
961 gcccccttgc taggtgatta tgaactgcaa ggacctgagg accttgcagt ggaactggtc
1021 ccaatagtga tgggggggat aggtttggtg ctaggattta ccaaagagag aatcggaaag
1081 atgctatcat ccgctgcatc cactttaaga gcttgtaaag accttggtgc atacggactg
1141 gaaatcttaa aattggtcat gaagtggttc ttcccaaaga aagaggaagc aaatgaactg
1201 gctatggtga gatccatcga ggatgcagta ctagaccttg aggcaattga aaacaaccac
1261 atgaccaccc tactcaaaga caaagacagc ttggcaacct acatgagaac ccttgacctt
1321 gaggaggaga aagccagaaa actctcaacc aaatctgctt caccagatat tgtgggcaca
1381 atcaactctc ttctggcaag aatcgccgct gcacgctccc tagtgcatcg ggcgaaagaa
1441 gagctctcca gcaggccgag acctgtcgtt gtgatgatat cgggaagacc agggataggg
1501 aaaactcacc ttgccaggga gctggccaag aagatcgcgg cctccctcac aggggaccag
1561 cgcgtgggtc ttatcccacg caatggtgtc gatcactggg acgcatacaa gggcgaaaga
1621 gttgtcttat gggacgacta tggaatgagc aaccccatcc atgatgccct caggttacag
1681 gaacttgctg acacttgccc cctcacgcta aattgtgaca gaattgagaa caaagggaaa
1741 gtctttgaca gtgatgccat aattatcacc accaatctgg ccaacccagc accactggat
1801 tatgtcaact tcgaagcgtg ctcgagacgt attgacttcc tcgtgtacgc agaagcccct
1861 gaggtggaga aggcaaagcg cgacttccca ggtcaacctg acatgtggaa gaacgctttc
1921 agtcctgact tctcacacat aaaactgtca ttggctccac agggtggttt tgacaagaac
1981 ggcaacaccc cgcatgggaa aggggtcatg aagaccctca ccactggctc cctcatcgcc
2041 cgagcgtcag ggttactcca tgagaggcta gatgaatatg aactgcaagg cccagccctc
2101 accactttca actgtgtcca tcagcccata cttgctttta gacagcttgc tgctgaaaac
2161 aagtatgggc tgatggacac aatgagagtt ggaaaacaac tcaaggatgt caagaccatg
2221 tcagacctca aacaagcact caagaacatc gcgatcaaaa agtgccagat agtgtacgat
2281 ggtggcacct acacacttga ggctgatggc aagggtagtg tgaaagttga caaagtgcaa
2341 agtgccactg tgcagaccaa caatgaactt gccggtgccc tacaccacct aaggtgcgct
2401 agaatcaggt actatgttaa gtgcgtccag gaggcactgt attccatcat ccaaatcgct
2461 ggggctgcgt tcgtcaccac gcgcatcgct aagcgcatga atatacagaa tctctggtcc
2521 aaaccacaga tggaagatac agaagagatg accaacaaag atggttgcct aaaacccaaa
2581 gatgaggaag agtttgtcgt ctcatccaaa gacatcaaaa ctgagggcaa gaaagggaag
2641 aacaagtctc atcgtactcc tcatcactgg gccttttcaa gtaaaggact cagtgatgag
2701 gagtacgatg agtacaagag gatcagagaa gaaaggaacg gtaagtactc catagaagag
2761 taccttcagg acagagacag gtactcttct atggaggtgg ccattaccag ggcaaccgaa
2821 gaggacttct gtgaggaaga agaggccaaa atccggcaga gaatctttag accaacaagg
2881 aaacaacgca aagaagagag ggcctctctc ggcttggtca caggctctga aatcaggaag
2941 agaaacccag aagacttcaa acccaaggga aagctgtggg ctgatgatga cagaagtgtt
3001 gactacaatg agaaactcaa ctttgaggcc ccaccaagca tctggtcgcg tatagtcaac
3061 tttggttcag gctggggctt ctgggtctcc cccagtctgt ttataacatc aacccatgtc
3121 ataccccaag gtgcaaaaga gttcttcgga gtccctatca agcaaatcca gatacacaaa
3181 tcaggtgaat tctgccgatt gagattccca aagccaatca ggactgatgt gacgggcatg
3241 atcctagaag aaggtgcgcc cgaggggacc gtggccacac tgctcatcaa gagaccaact
3301 ggagagctca tgcctctggc agccagaatg gggacccatg caaccatgaa aattcagggg
3361 cgcacagttg gagggcaaat gggtatgctc ctgacaggat ccaatgccaa gagtatggac
3421 ctgggcacaa caccaggcga ttgcggctgc ccctacatct acaagagggg gaatgactac
3481 gtggtcatag gagtccatac ggccgctgcc cgtggaggaa acactgtcat atgtgccacc
3541 caggggagtg agggagaggc cacacttgaa ggaggtgaca gtaaagggac atactgtggc
3601 gcaccaatct tgggcccagg gagcgctccg aagctcagta ccaagactaa gttttggaga
3661 tcatccacaa cacctctacc acctggtaca tatgaaccag cctacctcgg tggcaaagac
3721 cccagggttg aaggtggtcc atctttgcag caagtgttgc gagaccagct aaaaccattc
3781 acagaaccca gaggcaggcc gccagaacca aatttgctag aagctgccaa gaaaaccgtc
3841 accaatgtcc ttgagcaaac aattgatcca cctcaaaaat ggtcatttgg ccaagcttgc
3901 gcatccctgg acaaaaccac ctccagcggc cacccccacc acatgcggaa aaacgattgt
3961 tggaatgggg aatccttcac gggaaaattg gctgaccaag cctccaaggc caacctaatg
4021 tttgaagagg gaaagaacat gactccagtc tatacaggtg cacttaagga tgagttggta
4081 aagaccgata aagtttatgg taagatcaag aagaggcttc tgtggggttc agacctggcg
4141 accatgatac ggtgcgcccg agcttttgga ggccttatgg atgaactcaa ggcgcactgt
4201 gtcacacttc ctgtcagagt tggtatgaac atgaatgagg atggccccat catctttgag
4261 aagcactcca ggtatagata ccactatgat gctgattatt cccggtggga ttcaacacaa
4321 caaagggatg tgctagcagc agcactagaa atcatggtta agttctctcc agaaccacac
4381 ctggcccaga tagttgcaga agacctcctc tcccctagcg tgatggatgt aggtgacttt
4441 caaatatcaa taagtgaggg tctcccctct ggggtacctt gtacctccca gtggaattcc
4501 atcgcccatt ggctcctcac tctgtgtgca ctctctgaag tcacggacct gtcccccgat
4561 atcattcagg ccaactccct tttctccttc tatggtgatg atgaaattgt aagcacagat
4621 ataaagttgg acccagagaa gctgacagca aaactcaagg agtacgggtt gaaaccaacc
4681 cgccccgaca aaactgaagg accccttgtt atctctgaag acctggatgg cctgacattc
4741 ctccggagaa ctgtgacccg tgatccagct ggctggtttg gaaaattgga acagagttca
4801 attctcaggc aaatgtactg gaccaggggt cccaaccatg aagatccatt tgaaacaatg
4861 ataccacact cccaaagacc catacaattg atgtccttgc tgggcgaggc tgcactccac
4921 ggcccggcat tctacagcca actcagcaaa ttagtcattg cagagttgaa ggaaggtggc
4981 atggattttt acgtgcccag acaagagcca atgttcaggt ggatgagatt ctcagatctg
5041 agcacgtggg agggcgatcg caatctggct cccagttttg tgaatgaaga tggcgtcgag
5101 tgacgccaac ccatctgatg ggtccgcagc caacctcgtc ccagaggtca acaatgaggt
5161 tatggctctg gagcccgttg taggtgccgc cattgcggca cctgtagcgg gccaacaaaa
5221 tgtaattgac ccctggatta gaaataattt tgtacaagcc cctggtggag agtttacagt
5281 atcccctaga aacgctccag gtgaaatact atggagcgcg cccctgggcc ccgatctaaa
5341 tccctaccta tcccatttgg ccagaatgta caatggttat gcaggtggtt ttgaagtgca
5401 ggtaattctc gcggggaacg cgttcaccgc cgggaaggtc atatttgcag cagttccacc
5461 aaattttcca actgaaggct tgagccccag ccaggttact atgttccccc atatagtagt
5521 agatgttagg caactagaac ctgtgttgat tcctttaccc gatgttagga ataatttcta
5581 tcattataat caatcaaatg accccaccat taagttgata gcaatgttgt atacaccact
5641 tagggctaat aatgctgggg atgatgtctt cacagtttct tgccgagttc tcacgagacc
5701 atcccccgat tttgatttca tatttctagt gccacccaca gttgagtcaa gaactaaacc
5761 attctctgtc ccagttttaa ctgttgagga gatgaccaat tcaagattcc ccattccttt
5821 ggaaaagttg ttcacgggtc ccagcagtgc ctttgttgtc caaccacaaa acggcaggtg
5881 cacgactgac ggcgtgctcc taggcaccac tcaactgtct cctgtcaaca tctgtacctt
5941 cagaggagat gtcacccaca tcacaggtag tcataactac acaatgaatt tggcttctca
6001 aaattggaac aattatgacc caacagaaga aatcccagcc cctctaggaa ctccagattt
6061 tgtggggaag attcaaggca tgctcaccca aaccacaagg acagatggct caacgcgcgg
6121 ccacaaagcc acagtgtaca ctgggagcgc cgatttttct ccaaaactgg gtagagttca
6181 atttgaaact gacacagacc atgattttga agccaaccaa aacacaaagt tcaccccagt
6241 cggtgtcatc caagatggta gcaccactca ccgaaatgaa ccccagcagt gggtgctccc
6301 aagttactca ggcagaaata ctcataatgt gcatctggcc cccgctgtag ctcccacttt
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 tgtaacagtg gctcacactg gtcaacatga
6601 tttggttatc ccccccaatg gctattttag gtttgattcc tgggtcaacc agttctacac
6661 gcttgccccc atgggaaatg gaacggggcg tagacgtgca gtataatggc tggagctttc
6721 tttgctggat tggcatctga tgtccttggc tctggacttg gttcccttat caatgctggg
6781 gctggggcca tcaaccaaaa agttgagttt gaaaataaca aaaaattgca acaagcatcc
6841 ttccaattta gcagcaatct acaacaggct tcctttcaac atgacaaaga gatgctccaa
6901 gcacaaattg aggctaccaa aaggctacaa caggaaatga tgaaagttaa gcaggcagtg
6961 ctcctagagg gtgggttctc tgagacagat gcagcccgtg gggcaatcaa cgcccccatg
7021 acaaaagctt tggactggag cgggacaagg tactgggcac ccgaagctag gactacaaca
7081 tacaatgcag gccgcttttc cacccctcaa ccatcggggg cactgccagg aagagctaat
7141 cttagggatg ctgtccctgc tcggggttcc tctagtaaat cttctaattc ttctactgct
7201 acttctgtgt actcaaatca aactacttca acgagacttg gttctacagc tggttctggc
7261 accagtgtct cgagcttccc gtcaattgca aggactagga gctgggttga ggatcaaagt
7321 aggaatttgt cacctttcat gaggggggct cacaacatat cgttcgtcac cccaccatct
7381 agcagatcct ctagccaagg cacagtctca accgtgccta aagaggtttt ggactcctgg
7441 actggcgctt tcaacacgcg caggcagcca ctcttcgccc atattcgtaa gcgaggggag
7501 tcacgggcgt aa
//