Typing tool
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Typing tool
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Complete norovirus genomes
| MN308009 | GII.4 Sydney | |
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| GII.P31 |
ORF1: 1..5097
ORF2: 5078..6700
ORF3: 6700..7506
LOCUS MN308009 7506 bp RNA linear VRL 29-JUN-2021
DEFINITION Norovirus GII isolate 087_GII.Pe_GII.4_Silvanopolis nonstructural
polyprotein (ORF1) gene, partial cds; and VP1 (ORF2) and VP2 (ORF3)
genes, complete cds.
ACCESSION MN308009
VERSION MN308009.1
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="087_GII.Pe_GII.4_Silvanopolis"
/isolation_source="feces"
/host="Homo sapiens"
/db_xref="taxon:122929"
/country="Brazil"
/collection_date="28-Feb-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="QED42415.1"
/translation="MASNDASAAAVANSNNDIAKSSSDGVFSNMAVTFKRALGARPKQ
PPPKEIPPRPPRPPTPELVKKIPPPPPNGEDELVVSYSAKDGVSGLPELTTVRQPEET
NTAFSVPPLNQRESRDAKEPLTGTIIEMWDGEIYHYGLYVERGLILGVHKPPSAISLA
KVELTPLSLFWRPVYTPQYLISPDTLRRLHGESFPYTAFDNNCYAFCCWVLDLNDSWL
SRRMIQRTTGFFRPYQDWNRKPLPTMDDSKLKKVANIFLCTLSSLFTRPIKDIIGKLK
PLNILNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPEDLA
VELVPIVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFPKK
EEANELAMVRSIEDAVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARKLSTKS
ASPDIVGTINSLLARIAAARSLVHRAKEELSSRPRPVVVMISGRPGIGKTHLARELAK
KIAASLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTCPL
TLNCDRIENKGKVFDSDAIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEKAK
RDFPGQPDMWKNAFSPDFSHIKLSLAPQGGFDKNGNTPHGKGVMKTLTTGSLIARASG
LLHERLDEYELQGPALTTFNFDRNKMLAFRQLAAENKYGLIDTMRVGKQLKDVKTMSD
LKQALKNIAIKKCQIVYNGSTYTLEADGKGSVKVDKVQSATVQTNNELAGALHHLRCA
RIRYYVKCVQEALYSIIQIAGAAFVTTRIAKRMNIQNLWSKPQVEDTEEMTNKDGCLK
PKDDEEFVVSSDDIKTEGKKGKNKSHRTPHHWAFSSKGLSDEEYDEYKRIREERNGKY
SIEEYLQDRDRYSSMEVAITMATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGLVT
GSEIRKRNPEDFKPKGKLWADDDRSVDYNEKLNFEAPPSIWSRIVNFGSGWGFWVSPS
LFITSTHVIPQGAKEFFGVPIKQIQIHKSGEFCRLRFPKPIRTDVTGMILEEGAPEGT
VATLLIKRPTGELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGDC
GCPYIYKRGNDYVVIGVHTAAARGGNTVICATQGSEGEATLEGGDSKGTYCGAPILGP
GSAPKLSTKTKFWRSSTTPLPPGTYEPAYLGGRDPRVKGGPSLQQVMRDQLKPFTEPR
GKPPRPNVLEAAKKTIINVLEQTIDPPQKWSFGQACASLDKTTSSGHPHHMRKNDCWN
GESFTGKLADQASKANLMFEEGKNMTPVYTGALKDELVKTDKVYGKVKKRLLWGSDLA
TMIRCARAFGGLMDELKAHCVTLPVRVGMNMNEDGPIIFEKHSRYRYHYDADYSRWDS
TQQRDVLAAALEIMVKFSPEPHLAQVVAEDLLSPSVMDVGDFQISISEGLPSGVPCTS
QWNSIAHWLLTLCALSEVTDLSPDIIQANSLFSFYGDDEIVSTDIKLDPEKLTAKLKE
YGLKPTRPDKTEGPLVISEDLDGLTFLRRTVTRDPAGWFGKLEQSSILRQMYWTRGPN
HEDPFETMIPHSQRPIQLMSLLGEAALHGPAFYSKISKLVIAELKEGGMDFYVPRQEP
MFRWMRFSDLNTWEGDRNLAPSFVNEDGVE"
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="QED42416.1"
/translation="MKMASSDANPSDGSAASLVPEVNNEVMALEPVVGAAIAAPVAGQ
QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
FEVQVILAGNAFTAGKVIFAAVPPNFPTEGLSPSQVTMFPHIVVDVRQLEPVLIPLPD
VRNNFYHYNQSNDPTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT
QLSPVNICTFRGDVTHITGSRNYTMNLASQNWNNYDPTEEIPAPLGTPDFVGKIQGVL
TQTTRTDGSTRGHKATVYTGSADFAPKLGRVQFETDTDHDFETNQNTKFTPVGVIQDG
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="QED42417.1"
/translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA
SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQEMMKVKQAMLLEGGFSETDAARGAIN
APMTKALDWSGTRYWAPDARTTTYNAGRFSIPQPSGALPGRANLRDAVPARGSSSKSS
NSSTATSVYSNQTTSTRLGSTAGSGTSVSSLPSTARTRSWVEDQSRNLSPFMRGAHNI
SFVTPPSSRSSSQGTVSTVPKEVLDSWTGAFNTRRQPLFAHIRKRGESRA"
ORIGIN
1 atggcgtcta acgacgcttc cgctgccgct gttgccaaca gcaacaacga catcgcaaaa
61 tcttcaagtg acggtgtgtt ttctaacatg gccgtcactt ttaagcgggc cctcggggcg
121 cggcctaaac agccgccccc gaaggagata ccacccagac ccccgcgacc acccacacca
181 gaattggtca aaaagattcc tcctccccca cccaacgggg aggatgaact agtggtttct
241 tacagcgcca aagatggcgt ttccgggctg cctgagctta ccactgtcag acaaccggaa
301 gaaaccaaca cggcgttcag cgttccccca ctcaaccaaa gggagagcag ggacgccaag
361 gagccactaa ctggaacaat tattgaaatg tgggatggag aaatctacca ttacggcctg
421 tacgtggaac gaggtcttat acttggtgtg cacaagccac caagtgccat cagccttgcc
481 aaggtcgagc taacaccgct ctctttgttc tggagacctg tatacacccc ccagtatctc
541 atctctccag acactcttag gagattacat ggagagtcat tcccctacac tgcatttgac
601 aacaattgct acgccttttg ttgttgggta ttagacctaa acgactcatg gctaagcagg
661 agaatgattc agagaacaac aggtttcttc aggccgtacc aggattggaa caggaaaccc
721 ctccccacta tggatgattc caaattgaag aaggtagcca atatattctt gtgcactttg
781 tcttcactat tcaccagacc cattaaggac ataataggga agttgaaacc tcttaacatc
841 ctcaacattc 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 attggaaatc
1141 ttaaaattgg tcatgaagtg gttcttccca aagaaagagg aagcaaatga actggctatg
1201 gtgagatcca tcgaggacgc agtactagac ctcgaggcaa ttgaaaacaa ccacatgacc
1261 accctactca aagacaaaga cagcttagca acctacatga gaacccttga ccttgaggag
1321 gagaaagcca gaaaactctc aactaaatct gcttcacccg atattgtggg cacaatcaac
1381 tctcttctgg caagaatcgc tgctgcacgc tccctagtgc atcgggcgaa agaagagctc
1441 tccagcaggc cgagacctgt cgttgtgatg atatcgggaa gaccagggat agggaaaact
1501 caccttgcca gggagctggc caagaagatc gcggcctccc tcacagggga ccagcgtgtg
1561 ggacttatcc cacgcaatgg tgtcgatcat tgggacgcat acaagggcga aagagttgtc
1621 ctatgggacg actatggaat gagcaacccc atccatgatg ccctcaggtt gcaagagctt
1681 gccgacactt gccccctcac gctaaattgt gacagaattg agaacaaagg gaaagtcttt
1741 gacagtgatg ccataattat caccaccaat ctggccaacc cagcaccact ggattacgtc
1801 aactttgaag cgtgctcgag acgtatcgac ttcctcgtgt acgcagaagc ccctgaggtg
1861 gagaaggcaa agcgcgactt cccaggtcaa cctgacatgt ggaagaacgc tttcagtcct
1921 gacttctcac acataaaact gtcattggct ccacagggtg gttttgacaa gaacggcaac
1981 accccgcatg gaaaaggggt catgaagacc ctcactactg gctccctcat cgcccgagca
2041 tcagggttac tccatgagag gctagatgaa tatgaactgc aaggcccagc cctcaccact
2101 ttcaactttg accgaaacaa gatgcttgct tttagacagc ttgctgctga aaacaagtat
2161 gggctgatag acacaatgag agttggaaaa cagctcaagg atgtcaagac catgtcagac
2221 ctcaaacaag cactcaagaa catcgcgatc aagaagtgcc agatagtgta caatggtagc
2281 acctacacac ttgaggccga tggcaagggt agtgtgaaag ttgacaaagt gcaaagtgcc
2341 actgtgcaga ccaacaatga actagccggt gccctacacc acctaaggtg cgctagaatc
2401 agatactatg ttaagtgcgt ccaggaggca 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 ctgggccttt tcaagcaaag ggctcagtga tgaggagtac
2701 gatgagtaca agagaatcag agaagaaagg aatggtaagt actccataga agaatacctt
2761 caggacagag acaggtactc ttctatggag gtggccatta ccatggcaac cgaagaggac
2821 ttctgtgaag aagaagaggc caaaatccgg cagagaattt ttagaccaac aaggaaacaa
2881 cgcaaagaag agagggcctc tctcggcttg gtcacaggct ctgaaatcag gaagagaaac
2941 ccagaagact tcaaacccaa gggaaagctg tgggctgatg atgacagaag tgttgattac
3001 aatgagaaac tcaactttga ggccccacca agcatctggt cgcggatagt caactttggc
3061 tcaggctggg gcttctgggt ctcccccagt ctgtttataa catcaaccca tgtcataccc
3121 caaggtgcaa aagagttctt cggagtccct atcaagcaaa tccagataca caaatcaggt
3181 gaattttgcc ggttgagatt cccaaagcca atcagaactg atgtgacggg catgattcta
3241 gaagaaggtg cgcccgaggg gaccgtggcc acactgctca tcaagagacc aactggagag
3301 ctcatgcctc tggcagccag aatggggacc catgcaacca tgaaaattca ggggcgcaca
3361 gttggagggc aaatgggtat gctcctgaca ggctccaacg ccaagagtat ggacctaggc
3421 acaacaccag gcgactgcgg ctgcccctac atctacaaga gggggaatga ctacgtggtc
3481 ataggagtcc atacggccgc tgcccgtggg ggaaacactg tcatatgtgc cacccagggg
3541 agtgagggag aggccacact tgaaggaggt gacagtaaag ggacatactg tggcgcacca
3601 atcttgggcc cagggagcgc tccgaagctc agtaccaaga ctaagttttg gagatcatcc
3661 acaacaccac tcccacctgg cacctacgaa ccagcctacc tcggtggcag agaccccaga
3721 gtcaaaggtg gcccttcatt gcaacaagtt atgagggacc agctaaagcc attcacagaa
3781 cccagaggca aaccaccaag accaaatgtg ttggaagctg ccaagaaaac catcatcaat
3841 gtccttgagc aaacaattga tccaccccaa aaatggtcat ttgggcaagc ttgcgcatcc
3901 cttgacaaaa ccacctccag cggccacccg caccacatgc ggaaaaacga ttgttggaat
3961 ggggagtcct tcacaggaaa attggctgat caagcctcca aggccaacct aatgtttgaa
4021 gagggaaaga atatgactcc agtctacaca ggtgcactta aagatgagtt ggtaaagacc
4081 gataaagttt atggtaaggt caagaagagg ctcctgtggg gttcagatct ggcgaccatg
4141 atacgatgcg cccgagcttt tggaggcctt atggatgaac tcaaggcgca ctgtgtcaca
4201 cttcctgtca gagttggtat gaacatgaat gaggatggcc ccatcatctt tgagaagcac
4261 tccagatata gatatcacta tgatgctgat tattcccggt gggactcaac acaacaaagg
4321 gatgtgctag cagcagcact agaaatcatg gttaagttct ctccagaacc acacctggcc
4381 caggtagttg cagaagacct cctttcccct agcgtaatgg atgtaggtga ctttcaaata
4441 tcaataagtg agggtctccc ctctggggta ccttgtacct cccagtggaa ttccatcgcc
4501 cactggctcc tcactctgtg tgcactctct gaagtcacgg acctgtcccc tgacatcatt
4561 caggccaact cccttttctc cttctatggt gatgatgaga ttgtgagcac agatataaag
4621 ttggacccag agaagctgac agcaaaactc aaggagtacg ggctgaaacc aacccgcccc
4681 gacaaaactg aaggacccct tgttatctct gaagacctgg atggcctgac attcctccgg
4741 agaactgtga cccgtgatcc agctggctgg tttggaaaat tggaacaaag ttcaattctc
4801 agacaaatgt actggaccag gggtcccaac catgaagatc catttgaaac aatgatacca
4861 cactcccaaa gacccataca attgatgtcc ttgctgggcg aggctgcact ccacggcccg
4921 gcattttata gcaaaattag caaattagtc attgcagagt tgaaggaagg tggcatggat
4981 ttttacgtgc ccagacaaga gccaatgttc agatggatga gattctcaga tctgaacacg
5041 tgggagggcg atcgcaatct ggctcccagt tttgtgaatg aagatggcgt cgagtgacgc
5101 caacccatct gatgggtccg cagccagcct cgtcccagag gtcaacaatg aggttatggc
5161 tctggagccc gttgttggtg ccgctattgc ggcacctgta gcgggccaac aaaatgtaat
5221 tgacccctgg attagaaaca attttgtaca agcccctggt ggagagttta cagtatcccc
5281 tagaaacgct ccaggtgaaa tactatggag cgcgcccttg ggccctgatc taaaccccta
5341 cctatcccat ttggccagaa tgtacaatgg ttatgcaggt ggttttgaag tgcaagtgat
5401 tctcgcgggg aacgcgttca ccgccgggaa ggtcatattt gcagcagtcc caccaaattt
5461 tccaactgaa ggcttgagtc ccagccaggt cactatgttc ccccatatag tagtagatgt
5521 taggcaacta gaacctgtgt tgattccctt acccgatgtt aggaataatt tctatcatta
5581 taatcaatca aatgatccca ccattaagtt gatagcaatg ttgtatacac cacttagggc
5641 taataatgct ggggatgatg tcttcacagt ttcttgccga gttctcacga gaccatcccc
5701 tgattttgat ttcatatttc tagtgccacc cacagttgaa tcaagaacta aaccattctc
5761 tgtcccagtt ttaactgttg aggagatgac caattcaaga ttccctattc ctttggaaaa
5821 gttgttcacg ggtcccagca gtgcctttgt tgttcaacca caaaacggca ggtgcacaac
5881 tgatggcgtg ctcctaggca ccacccaact gtctcctgtc aacatctgca ccttcagagg
5941 agatgtcacc cacatcacag gcagtcgtaa ctacacaatg aatttggctt ctcaaaattg
6001 gaacaattat gacccaacag aagaaatccc agcccctcta ggaactccag actttgtggg
6061 gaagattcaa ggcgtgctca cccaaaccac aaggacagat ggctcaacac gcggccacaa
6121 agccacagtg tacactggga gcgccgactt tgctccaaaa ctgggtagag ttcaatttga
6181 aactgacaca gaccatgatt ttgaaactaa ccaaaacaca aagttcaccc cagttggtgt
6241 catccaagat ggtagcacca cccaccgaaa tgaaccccaa cagtgggtgc tcccaagtta
6301 ctcaggcaga aatactcata atgtgcatct ggcccccgct gtagccccca cctttccggg
6361 tgagcaactc ctcttcttca ggtccaccat gcccggatgc agcgggtacc ccaacatgga
6421 tttggactgt ctgctccccc aggaatgggt gcagtatttc taccaagagg cagccccagc
6481 acaatctgat gtggctctgc taagatttgt gaatccagac acaggtaggg ttttgtttga
6541 gtgtaagctt cataaatcag gctatgttac agtggctcac actggccaac atgatctggt
6601 tattcccccc aatggttatt ttagatttga ttcctgggtc aaccagttct acacgcttgc
6661 ccccatggga aatggaacgg ggcgtagacg tgcagtataa tggctggagc tttctttgct
6721 ggattggcat ctgatgtcct tggctctgga cttggttccc ttatcaatgc tggggctggg
6781 gccatcaacc aaaaagttga gtttgaaaat aacagaaaac tgcaacaagc atcctttcaa
6841 tttagcagca acctacaaca ggcttccttt caacatgaca aagagatgct ccaagcacaa
6901 attgaggcca ccaaaaagct acaacaggaa atgatgaaag ttaagcaggc aatgctccta
6961 gagggtgggt tctctgagac agatgcagcc cgcggggcaa tcaacgcccc catgacaaaa
7021 gctttggact ggagcgggac aaggtactgg gcccccgatg ctaggactac aacatacaat
7081 gcaggccgct tttccatccc tcaaccatcg ggggcactgc caggaagagc taatcttagg
7141 gatgctgtcc ctgctcgggg ttcctccagt aaatcttcta actcttctac tgctacttct
7201 gtgtactcaa atcaaactac ttcaacgaga cttggttcta cagctggttc tggtaccagt
7261 gtctcgagcc tcccgtcaac 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 gcgtaa
//