Typing tool
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Typing tool
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Complete norovirus genomes
| MN308016 | GII.4 Sydney | |
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| GII.P31 |
ORF1: 1..5097
ORF2: 5078..6700
ORF3: 6700..7506
LOCUS MN308016 7506 bp RNA linear VRL 29-JUN-2021
DEFINITION Norovirus GII isolate 158_GII.Pe_GII.4_Araguaina nonstructural
polyprotein (ORF1) gene, partial cds; and VP1 (ORF2) and VP2 (ORF3)
genes, complete cds.
ACCESSION MN308016
VERSION MN308016.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7506)
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 7506)
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..7506
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="158_GII.Pe_GII.4_Araguaina"
/isolation_source="feces"
/host="Homo sapiens"
/db_xref="taxon:122929"
/country="Brazil"
/collection_date="12-Apr-2014"
/note="genotype: GII.Pe_GII.4"
gene <1..5097
/gene="ORF1"
CDS <1..5097
/gene="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="QED42436.1"
/translation="MASNDASAAAVANSNNDIAKSSSDGVFSNMAVTFKRALGARPKQ
PPPKEIPPRPPRPPTPELVKKIPPPPPNGEDELVVSYSAKDGVSGLPELTTVRQPEET
NTAFSVPPLNQRESRDAKEPLTGTIIEMWDGEIYHYGLYVERGLILGVHKPPAAISLA
KVELTPLSLFWRPVYTPQYLISPDTLRRLHGESFPYTAFDNNCYAFCCWVLDLNDSWL
SRRMIQRTTGFFRPYQDWNRKPLPTMDDSKLKKVANIFLCTLSSLFTRPIKDIIGKLK
PLNILNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPEDLA
VELVPIVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFPKK
EEANELAMVRSIEDAVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARKLSTKS
ASPDIVGTINSLLARIAAARSLVHRAKEELSSRPRPVVVMISGRPGIGKTHLARELAK
KIAASLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTCPL
TLNCDRIENKGKVFDSDAIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEKAK
RDFPGQPDMWKNAFSPDFSHIKLSLAPQGGFDKNGNTPHGKGVMKTLTTGSLIARASG
LLHERLDEYELQGPALTTFNFDRNKILAFRQLAAENKYGLVDTMKVGKQLKDVKTMSD
LKQALKNIAIKKCQIVYNGSTYTLEADGKGSVKVDKVQSATVQTNNELAGALHHLRCA
RIRYYVKCVQEALYSIIQIAGAAFVTTRIAKRMNIQNLWSKPQVEDTEEMTNKDGCLK
PKDDEEFVVSSDDIKTEGKKGKNKSHRTPHHWAFSSKGLSDEEYDEYKRIREERNGKY
SIEEYLPVRDRYSSMEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGLVT
GSEIRKRNPEDFKPKGKLWADDDRSVDYNEKLNFEAPPSIWSRIVNFGSGWGFWVSPS
LFVTSTHVIPQGAKEFFGVPIKQIQVHKSGEFCRLRFPKPIRTDVTGMILEEGAPEGT
VATLLIKRPTGELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGDC
GCPYIYKRGNDYVVIGVHTAAARGGNTVICATQGSEGEATLEGGDSKGTYCGAPILGP
GSAPKLSTKTKFWRSSTTPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKPFTEPR
GKPPRPNVLEAAKKTIINVLEQTIDPPQKWSFAQACASLDKTTSSGHPHHMRKNDCWN
GESFTGKLADQASKANLMFEEGKNMTPVYTGALKDELVKTDKVYGKIKKRLLWGSDLA
TMIRCARAFGGLMDELKAHCVTLPVRVGMNMNEDGPIIFEKHSRYRYHYDADYSRWDS
TQQRDVLAAALEIMVKFSPEPHLAQVVAEDLLSPSVMDVGDFQISISEGLPSGVPCTS
QWNSIAHWLLTLCALSEVTDLSPDIIQANSLFSFYGDDEIVSTDIKLDPEKLTAKLKE
YGLKPTRPDKTEGPLVISEDLDGLTFLRRTVTRDPAGWFGKLEQSSILRQMYWTRGPN
HEDPFETMIPHSQRPIQLMSLLGEAALHGPAFYSKISKLVIAELKEGGMDFYVPRQEP
MFRWMRFSDLSTWEGDRNLAPSFVNEDGVE"
mat_peptide <1..984
/gene="ORF1"
/product="p48"
mat_peptide 985..2082
/gene="ORF1"
/product="NTPase"
mat_peptide 2083..2619
/gene="ORF1"
/product="p22"
mat_peptide 2620..3021
/gene="ORF1"
/product="VPg"
mat_peptide 3022..3564
/gene="ORF1"
/product="Pro"
mat_peptide 3565..5094
/gene="ORF1"
/product="RdRp"
gene 5078..6700
/gene="ORF2"
CDS 5078..6700
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="QED42437.1"
/translation="MKMASSDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ
QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
FEVQVILAGNAFTAGKVIFAAVPPNFPTEGLSPSQVTMFPHIVVDVRQLEPVLIPLPD
VRNNFYHYNQSNDPTIKLIAMLYTPLRANNAGDDVFTVSCRVVTRPSPDFDFIFLVPP
TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT
QLSPVNICTFRGDVTHITGSRNYTMNLASQNWNNYDPTEEIPAPLGTPDFVGKIQGVL
TQTTRTDGSTRGHKATVYTGSADFAPKLGRVQFETDTDHDFEANQNTKFTPVGVIQDG
STTHRNEPQQWVLPSYSGRNTHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD
CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV
IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRAV"
gene 6700..7506
/gene="ORF3"
CDS 6700..7506
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="QED42438.1"
/translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA
SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQEMMKVKQAMLLEGGFSETDAARGAIN
APMTKALDWSGTRYWAPDARTTTYNAGRFSTPQPSGALPGRANFRDAVPARGSSSKSS
NSSIATSVYSNQTTSTRLGSTAGSGTSVSSLSSTARTRSWVEDQSRNLSPFMRGAHNI
SFVTPPSSRSSSQGTVSTVPKEVLDSWTGAFNTRRQPLFAHIRKRGESRV"
ORIGIN
1 atggcgtcta acgacgcttc cgctgccgct gttgccaaca gcaacaacga catcgcaaaa
61 tcttcaagtg acggtgtgtt ttctaacatg gctgtcactt ttaagcgggc cctcggggcg
121 cggcctaaac agccgccccc gaaggagata ccacccagac ccccgcgacc acccacacca
181 gaattggtca aaaagatccc tcctccccca cccaacgggg aggatgaact agtggtctct
241 tacagcgcca aagatggcgt ttccggactg cctgagctca ccactgtcag acaaccggaa
301 gaaaccaata cggcgttcag tgtcccccca ctcaaccaaa gggagagcag ggacgccaag
361 gagccactaa ctggaacaat tattgaaatg tgggatggag aaatctacca ttacggcctg
421 tacgtggaac gaggtcttat acttggtgtg cacaagccac cggcagccat cagccttgcc
481 aaggtcgagc taacaccgct ctctttgttc tggagacctg tatacacccc ccagtatctc
541 atctctccag atactcttag gagattacat ggagagtcat tcccctacac tgcatttgac
601 aacaattgct acgccttttg ttgttgggta ttagacctaa acgactcatg gctaagcagg
661 aggatgattc agagaacaac aggtttcttc aggccgtacc aggattggaa caggaaaccc
721 ctccccacta tggatgattc caaattaaag aaggtagcca acatattctt gtgcaccttg
781 tcttcactat tcaccagacc cattaaggac ataataggga agttgaaacc tcttaacatc
841 cttaacattc tggctacatg tgattggacc ttcgcaggca tagtggaatc tttaatactc
901 ttagcagaac tctttggagt tttctggaca cccccagatg tgtctgcgat gatcgccccc
961 ttgctaggtg attatgaact gcaaggacct gaggaccttg cagtggaact ggtcccaata
1021 gtgatggggg ggataggttt ggtgctagga tttaccaaag agaaaattgg aaagatgcta
1081 tcatccgctg catccacttt aagagcttgt aaagaccttg gtgcatacgg actggaaatc
1141 ttaaaattgg tcatgaagtg gttcttccca aagaaagagg aggcaaatga actggctatg
1201 gtgagatcca tcgaggacgc agtgctagac ctcgaggcaa ttgaaaacaa ccacatgacc
1261 accctactca aagacaaaga cagcttggca acctacatga gaacccttga ccttgaggag
1321 gagaaagcta gaaaactctc aaccaaatcc gcttcacccg atattgtggg cacaatcaac
1381 tctcttttgg caagaatcgc tgctgcacgc tccctagtgc atcgggcaaa agaagagctc
1441 tccagcaggc cgagacctgt cgttgtgatg atatcgggaa gaccagggat agggaaaact
1501 caccttgcca gggagctggc caagaagatc gcggcctccc tcacagggga ccagcgcgtg
1561 ggtcttatcc cacgcaatgg tgtcgaccac tgggacgcat acaagggcga aagagttgtc
1621 ctatgggacg actatggaat gagtaacccc atccatgatg ccctcaggtt gcaggaactt
1681 gctgacactt gccccctcac gctaaattgt gacagaattg agaacaaagg gaaagtcttt
1741 gacagtgatg ccataattat caccaccaat ctggccaacc cagcaccact ggattatgtc
1801 aactttgaag cgtgctcgag acgtattgac ttcctcgtgt acgcagaggc ccctgaggtg
1861 gagaaggcaa agcgcgactt cccaggtcaa cctgacatgt ggaagaacgc tttcagtcct
1921 gacttctcac acataaaact gtcgctggct ccacagggtg gttttgacaa gaacggcaac
1981 accccgcatg gaaaaggggt catgaagacc ctcactactg gctccctcat cgcccgagca
2041 tcagggttac tccatgagag gctagatgaa tatgaactgc aaggcccagc cctcaccact
2101 ttcaactttg accgcaacaa gatacttgct tttagacagc ttgctgctga aaacaagtat
2161 gggctggtgg acacaatgaa agttggaaaa cagctcaagg atgtcaagac catgtcagac
2221 ctcaaacaag cactcaagaa catcgcgatc aagaagtgcc agatagtgta taatggtagc
2281 acctacacac ttgaggccga tggcaagggt agtgtgaaag ttgacaaagt gcagagtgcc
2341 actgtgcaga ccaacaatga actagccggt gccctacacc acctaaggtg cgctagaatc
2401 agatactatg ttaagtgcgt ccaggaggcg ctgtattcca tcatccaaat cgctggggct
2461 gcattcgtca ccacgcgcat cgctaagcgc atgaatatac agaatctctg gtccaagcca
2521 caggtggaag acacagaaga gatgaccaac aaagatggtt gcctaaaacc caaagatgat
2581 gaagagtttg tcgtctcatc cgacgacatc aaaactgagg gcaagaaagg gaagaacaag
2641 tctcatcgta ctcctcatca ctgggctttt tcaagcaaag ggctcagtga tgaggagtac
2701 gatgagtaca agagaatcag agaagaaagg aatggtaagt actccataga agagtacctt
2761 ccggtcagag acaggtactc ttctatggag gtggccatcg ccagggcaac cgaagaggac
2821 ttctgtgaag aagaagaggc caaaatccgg cagagaattt ttagaccaac aaggaaacaa
2881 cgcaaagaag agagggcctc tctcggcttg gtcacaggct ctgaaatcag gaagagaaac
2941 ccagaagact tcaaacccaa gggaaagctg tgggctgatg atgacagaag tgttgactac
3001 aatgagaaac tcaactttga ggccccacca agcatctggt cgcggatagt caactttggt
3061 tcaggctggg gcttctgggt ctcccccagt ctgtttgtaa catcaaccca tgtcataccc
3121 caaggtgcaa aagagttctt cggagtccct atcaagcaaa tccaggtaca caaatcaggt
3181 gaattctgcc gattgagatt cccaaagcca atcagaacag atgtgacggg catgattcta
3241 gaagaaggtg cgcccgaggg aaccgtggcc acactgctca tcaagaggcc aactggagag
3301 ctcatgcctc tggcagccag aatgggaacc catgcaacca tgaaaattca ggggcgcaca
3361 gttggagggc aaatgggtat gctcctgaca ggatccaacg ccaagagtat ggacctaggc
3421 acaacaccag gcgactgcgg ctgcccctac atctacaaga gggggaatga ctacgtggtc
3481 ataggagtcc atacggccgc cgcccgtgga ggaaacactg tcatatgtgc cactcagggg
3541 agtgagggag aagccacact tgaaggaggt gacagtaaag ggacatactg tggcgcaccg
3601 atcttgggcc cagggagcgc tccgaagctc agtaccaaga ccaagttttg gagatcatcc
3661 acaacaccac tcccacctgg cacctacgaa ccagcttacc tcggtggcaa agaccccaga
3721 gtcaaaggtg gcccatcact gcaacaagtt atgagggacc agctaaagcc attcacagaa
3781 cccagaggca aaccaccaag gccaaatgtg ttggaagctg ccaagaaaac catcatcaat
3841 gtccttgagc aaacaattga tccaccccaa aaatggtcat ttgcgcaagc ttgcgcatcc
3901 cttgacaaaa ccacctccag cggccacccg caccacatgc ggaaaaacga ttgttggaat
3961 ggggagtcct tcacaggaaa attggctgat caagcctcca aggccaacct aatgtttgaa
4021 gagggaaaga acatgactcc agtctacaca ggtgcactta aagatgagtt ggtaaagacc
4081 gataaagttt atggtaagat caagaagagg cttctgtggg gttcagatct ggcgaccatg
4141 atacggtgcg cccgagcttt tggaggcctt atggatgaac tcaaggcgca ctgtgtcaca
4201 cttcctgtca gagttggcat gaacatgaat gaggatggcc ccatcatctt tgagaagcac
4261 tccagatata gatatcacta tgatgctgac tattcccggt gggactcaac acaacaaagg
4321 gatgtgctag cagcagcact agaaatcatg gttaagttct ctccagaacc acacctggcc
4381 caggtagttg cagaagacct cctttcccct agcgtaatgg atgtaggtga ctttcaaata
4441 tcaataagtg agggtcttcc ttctggggta ccttgtacct cccagtggaa ttccatcgcc
4501 cactggctcc tcactctttg tgcactttct gaagtcacgg acctgtcccc tgacatcatt
4561 caggccaact cccttttctc cttctatggt gatgatgaga ttgtaagcac agacataaag
4621 ttggacccag agaagctgac agcaaaactc aaggagtacg ggctgaaacc aacccgcccc
4681 gacaaaactg aaggacccct tgttatctct gaagacctgg atggcctgac attcctccgg
4741 aggactgtga cccgtgatcc agctggctgg tttggaaaac tggaacaaag ttcaattctc
4801 agacaaatgt actggaccag gggtcccaac catgaagatc catttgaaac aatgatacca
4861 cactcccaaa gacccataca attgatgtcc ttgttgggcg aggctgcact ccacggcccg
4921 gcattttata gcaaaattag caaattagtc attgcagagt tgaaggaagg tggcatggat
4981 ttttacgtgc ccagacaaga gccaatgttc aggtggatga gattctcaga tctgagcacg
5041 tgggagggcg atcgcaatct ggctcccagt tttgtgaatg aagatggcgt cgagtgacgc
5101 caacccatct gatgggtccg cagccaacct cgtcccagag gtcaacaatg aggttatggc
5161 tctggagccc gttgttggtg ccgccattgc ggcacctgta gcgggccaac aaaatgtaat
5221 tgacccctgg attagaaaca attttgtaca agcccctggt ggagagttta cagtatcccc
5281 tagaaacgct ccaggtgaaa tactatggag cgcgcccttg ggccctgacc taaatcccta
5341 cctatcccat ttggccagaa tgtacaatgg ttatgcaggt ggttttgaag tgcaggtaat
5401 tctcgcgggg aacgcgttca ccgccgggaa ggtcatattt gcagcagtcc caccaaattt
5461 tccaactgaa ggcttgagcc ccagccaggt cactatgttc ccccatatag ttgtagatgt
5521 taggcaacta gaacctgtgt tgattccctt acccgatgtt aggaataatt tctatcatta
5581 caatcaatca aatgacccca ctattaaatt gatagcaatg ttgtatacac cacttagggc
5641 taataatgct ggggatgatg tcttcacagt ttcttgccga gttgtcacga gaccatcccc
5701 cgattttgat ttcatatttc tagtcccacc cacagttgaa tcaagaacta aaccattctc
5761 tgtcccagtt ttaactgttg aggagatgac caattcaaga ttccccattc ctttggaaaa
5821 gttgttcacg ggtcccagca gtgcctttgt tgtccaacca caaaacggca ggtgcacgac
5881 tgatggcgtg ctcctaggca ccacccaact gtctcctgtc aacatctgta ccttcagagg
5941 agatgtcacc catatcacag gtagtcgtaa ctacacaatg aatttggctt ctcaaaattg
6001 gaacaattat gacccaacag aagaaatccc agcccctctg ggaactccag actttgtggg
6061 gaagattcaa ggtgtgctca cccaaaccac aaggacagat ggctcgacac gcggccacaa
6121 agccacagtg tacactggga gcgccgactt tgctccaaaa ctgggtagag tacaatttga
6181 aactgacaca gaccatgatt ttgaagctaa ccaaaacaca aagttcaccc cagtcggtgt
6241 catccaagat ggtagcacca cccaccgaaa tgaaccccaa cagtgggtgc tcccaagtta
6301 ctcaggcaga aatactcaca atgtgcatct ggcccccgct gtagccccca cttttccggg
6361 tgagcaactt ctcttcttta gatccaccat gcccggatgc agcgggtacc ccaacatgga
6421 tttggactgt ctgctccccc aggaatgggt gcagtacttc taccaagagg cagccccagc
6481 acaatctgat gtggctctgc taagatttgt gaatccagac acaggtaggg ttttgtttga
6541 gtgtaagcta cataaatcag gctatgttac agtggctcac actggccaac atgatttggt
6601 tattcccccc aatggttatt ttagatttga ttcctgggtt aaccagttct acacgcttgc
6661 ccccatggga aatggaacgg ggcgtagacg tgcagtataa tggctggagc tttctttgct
6721 ggattggcat ctgatgtcct tggctccgga cttggttccc ttatcaatgc tggggctggg
6781 gccatcaacc aaaaagttga gtttgaaaat aacagaaaat tgcaacaagc atccttccaa
6841 tttagcagca atctacaaca ggcttccttt caacatgaca aagagatgct ccaagcacaa
6901 attgaggcca ccaaaaagct acaacaggaa atgatgaaag ttaagcaggc aatgctccta
6961 gagggtgggt tctctgagac agacgcagcc cgcggggcaa tcaacgcccc catgacaaaa
7021 gctttggact ggagcgggac aaggtactgg gctcccgatg ctaggactac aacatacaat
7081 gcaggccgct tttccacccc tcaaccatcg ggggcactgc caggaagagc taattttagg
7141 gatgctgtcc ctgctcgggg ttcctctagt aaatcttcta actcttctat tgctacttct
7201 gtgtactcaa atcaaactac ttcaacgaga cttggttcta cagctggttc tggtaccagt
7261 gtctcgagcc tctcgtcaac tgcaaggact aggagctggg ttgaggatca aagtaggaat
7321 ttgtcacctt tcatgagggg ggcccacaac atatcgtttg tcaccccacc atctagcaga
7381 tcctctagcc aaggcacagt ctcaaccgtg cctaaagagg ttttggactc ctggactggc
7441 gctttcaaca cgcgcaggca gccactcttc gctcacattc gtaagcgagg ggagtcacgg
7501 gtgtaa
//