Typing tool
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Typing tool
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Complete norovirus genomes
| MT316122 | GII.3 | |
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| GII.P16 |
ORF1: 1..5097
ORF2: 5078..6724
ORF3: 6724..7488
LOCUS MT316122 7545 bp RNA linear VRL 29-JUN-2021
DEFINITION Norovirus GII isolate 080_GII.P16_GII.3_Palmas nonstructural
polyprotein (ORF1), VP1 (ORF2), and VP2 (ORF3) genes, complete cds.
ACCESSION MT316122
VERSION MT316122.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7545)
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 7545)
AUTHORS Luchs,A.
TITLE Direct Submission
JOURNAL Submitted (22-MAR-2020) Virology, Adolfo Lutz Institute, Av Dr
Arnaldo 355, Centro de Virologia, Cerqueira Cesar, Sao Paulo, Sao
Paulo 01246902, Brazil
COMMENT ##Assembly-Data-START##
Assembly Method :: Geneious v. 9
Sequencing Technology :: Illumina
##Assembly-Data-END##
FEATURES Location/Qualifiers
source 1..7545
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="080_GII.P16_GII.3_Palmas"
/isolation_source="feces"
/host="Homo sapiens"
/db_xref="taxon:122929"
/country="Brazil"
/collection_date="10-Nov-2014"
/note="genotype: GII.P16_GII.3"
gene 1..5097
/gene="ORF1"
CDS 1..5097
/gene="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="QIW94447.1"
/translation="MKMASNDATVAVACNNNNDKEKSSGEGLFTNMSSTLKKALGARP
KQPAPRDNSQKPPRPPTPELVKRIPPPPPNGEEEEPVIRYEVKSGISGLPELTTVPQP
DVANTAFSVPPLSLRENREAKEPLTGAILEMWDGEIYHYGLYVEKGLVLGVHKPPAAI
SMAKVELAPLSLYWRVVYTPQYLISPETLRRLNGEAFPYTAFDNNCYAFCCWVLDLND
SWLNRRMVQRTTGFFRPYQEWNRKPLPTMDDSKIKKVANIFLCSLSTLFTRPIKDLIG
KIKPLNILNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPE
DLAVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFF
PKKEEANELAMVRAIEDAVLDLEAIENNHMTTLLKDKDSLATYMKTLDMEEEKARRLS
TKSASPDIVGTINALLARIAAARSLVHRAKEELSSRMRPVVVMISGKPGIGKTHLARE
VARKVASTLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRIQELADT
CPLTLNCDRIENKGKVFDSEVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVE
KAKRDFPGQPDMWKDAFKSDFSHIKLQLAPQGGFDKNGNTPHGKGVMKTLTTGSLIAR
ASGLLHERMDEFELQGPTVTTFNFDRNRITAFRQLAAENKYGLVDTMRVGNQLKGVKT
MEELKQAIKNVIIKRCRIIYGGSTYDLESDGKGKVLVEKVKNTSVQTNNELAGALHHL
KHARIRYYVKCVQEAVYSIIQIAGAAFVTTRIARRMNIQELWSKPPLDQNESEAKEEA
PKSEDDEFIISSKDIKEEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNGK
YSIEEYLQDRDRYYEELAIAKATEEDFCEEEEIKIRQRIFRPTRKQRKEERATLGLVT
GSEIRRRNPDDFKPKGKLWADDNRSVDYNEKLDFEAPPSIWSRIVSFGSGWGFWVSPS
LFITSTHVIPAGITEAFGVPIKQIQVHKSGEFCRFRFPKPIRPDVTGMILEEGAPEGT
VATVLIKRPTGELMPLAARMGTHATMKIQGRMVGGQMGMLLTGSNAKGMDLGTTPGDC
GCPYIYKRGNDYIVIGVHTAAARGGNTVICATQGSEGEATLEGGDDKGTYCGAPILGP
GGAPKLSTKTKFWRSSNTPLPPGTYEPAYLGGRDPRVKGGPSLQQVMRDQLKPFTEPR
GKPPRPSVLEAAKQTIINVLEQTLDPPQKWTYAQACASLDKTTSSGHPHHVRKNEFWN
GETFTGKLADQASKANLMFEEGKHMTPVYTAALKDELVKTDKIYGKIKKRLLWGSDLS
TMIRCARSFGGLMDEMKAHCISLPVRVGMNMNEDGPIIFEKHSRYKYHYDADYSRWDS
TQQRAVLAAALEIMVRFSAEPQLAQIVAEDLLAPSVVDVGDFKISINEGLPSGVPCTS
QWNSIAHWLLTLCALSEVTKLSPDIVQANSMFSFYGDDEIVSTDIKLDPEKLTTKLKE
YGLKPTRPDKTEGPLIISEDLNGLTFLRRTVTRDPAGWFGKLDQSSILRQMYWTRGPN
HEDPNETMIPHSQRPIQLMALLGEASLHGPSFYSKISKLVITELKEGGMDFYVPRQEP
MFRWMRFSDLSTWEGDRNLAPNFVNEDGVE"
mat_peptide 1..993
/gene="ORF1"
/product="p48"
mat_peptide 994..2091
/gene="ORF1"
/product="NTPase"
mat_peptide 2092..2622
/gene="ORF1"
/product="p22"
mat_peptide 2623..3021
/gene="ORF1"
/product="VPg"
mat_peptide 3022..3564
/gene="ORF1"
/product="Pro"
mat_peptide 3565..5094
/gene="ORF1"
/product="RdRp"
gene 5078..6724
/gene="ORF2"
CDS 5078..6724
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="QIW94448.1"
/translation="MKMASNDAAPSNDGAAGLVPEINNEAMALDPVAGAAIAAPLTGQ
QNIIDPWIMNNFVQAPGGEFTVSPRNSPGEVLLNLELGPEINPYLAHLARMYNGYAGG
FEVQVVLAGNAFTAGKVIFAAIPPNFPTDNLSAAQITMCPHVIVDVRQLEPINLPMPD
VRNNFFHYNQGSDSRLRLIAMLYTPLRANNSGDDVFTVSCRVLTRPSPDFSFNFLVPP
TVESKTKLFTLPILTISEMSNSRFPVPIDSLHTSPTDNIVVQCQNGRVTLDGELMGTT
QLLPSQICAFRGVLTRSTSRASDQADTATPRLFNYYWHIQLDNLNGTPYDPAEDIPAP
LGTPDFRGKVFGVASQRNPDSTTRAHEAKVDTTSGRFTPKLGSLEISTESGDFDQNQP
TRFTPVGIGVDNEADFQQWTLPDYSGQFTHNMNLAPAVAPNFPGEQLLFFRSQLPSSG
GRSNGILDCLVPQEWVQHFYQESAPAQTQVALVRYVNPDTGRVLFEAKLHKLGYMTIA
KSGDSPITVPPNGYFRFESWVNPFYTFAPMGTGNGRRRIQ"
gene 6724..7488
/gene="ORF3"
CDS 6724..7488
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="QIW94449.1"
/translation="MAGAFIAGLAGDMLTNTVGSLVNAGAGAINQKVDFENNKYLQNA
SFNHDKEMLNAQVEATKRLQADMIAIKQGVLTAGGFSPTDAARGAINAPITKVLDWSG
TRYWAPNATSTTSMSGGFTGQAVHRATPNFKTNQAPKSTPSSGSSVRSSSTQLTNLSS
HSSGSSRSSGSTMVSSLPSSSRTRDWVNQQNFNLEPHMPGSLRTAFVTPPSSTASSLD
TVSTVPKSVLDSWTSAFNTRRQPLFAHLRRRGESNV"
ORIGIN
1 atgaagatgg cgtctaacga cgctaccgtt gccgttgctt gcaacaacaa caacgacaag
61 gaaaaatctt caggtgaagg cttattcaca aatatgtctt ccaccttaaa gaaagccctc
121 ggggcccggc ccaaacagcc tgccccgagg gacaactcac aaaagccccc aagaccacca
181 actcccgagt tggttaagag gataccccct cccccaccta atggtgaaga agaagaacca
241 gtcattaggt atgaggttaa gagtgggatc tctggcctgc ccgagctcac aacagtcccc
301 caaccggatg tggccaacac ggcattcagt gtcccaccgc tgagcttgag agaaaacagg
361 gaggccaagg aaccgctgac aggggcaata ttagagatgt gggatggaga gatataccac
421 tatggcctgt acgtggagaa aggcttagtg ttgggtgtgc acaaaccacc tgcagctata
481 agcatggcaa aagtggagct ggcgccgttg tcattgtact ggcgtgtggt ctacaccccc
541 caatacctca tctcccctga aactctcagg aggctcaacg gagaggcatt cccttacacc
601 gcctttgaca acaattgcta tgccttttgc tgctgggtgt tagacctcaa tgactcatgg
661 cttaacagga ggatggtgca aagaacaaca ggcttcttca gaccttacca agagtggaat
721 agaaaacccc tgcccactat ggatgactcc aaaatcaaga aggtggcaaa catattcctg
781 tgttcattgt ccacgttgtt caccagacct ataaaagacc tcataggaaa aattaaacca
841 ttaaacatct tgaacatcct ggcaacgtgt gactggacat ttgccggaat agtggagtct
901 ctgatactac ttgctgaact ctttggagtt ttctggacac ccccagatgt gtctgctatg
961 atcgctccct tactcggaga ctacgagttg caagggccag aagacctcgc cgttgagctc
1021 gtacctgtgg taatgggagg gattggtctg gtgctgggat tcaccaaaga gaaaattggc
1081 aaaatgttgt cctcagcagc atcaacgctc agggcttgta aagatcttgg tgcctatggc
1141 ttagagatac tcaaattggt catgaagtgg ttcttcccaa agaaagaaga ggccaatgag
1201 ctagccatgg tgagagctat agaggatgct gtactggatc ttgaggcaat agaaaataat
1261 cacatgacaa ctctgctgaa agacaaagac agcctagcaa cctacatgaa aacactggac
1321 atggaggagg agaaagccag aagattgtcc acaaaatctg catcccccga catagttggg
1381 acgatcaacg ccctgctggc tcgaatagca gcggctaggt cattagtcca cagggccaag
1441 gaggagttat ctagcaggat gagaccagta gttgttatga tatctggcaa accagggata
1501 ggaaaaactc atttggccag ggaggtggca agaaaggtgg catccactct cacaggggat
1561 caaagagtcg ggctcatacc gagaaacggt gtggaccatt gggatgcata taaaggtgag
1621 agagtcgtgc tgtgggacga ctatggcatg agcaacccca ttcatgatgc tctgcgcata
1681 caagaattgg ctgatacgtg tccccttacc ttaaattgtg acagaattga aaataaggga
1741 aaagtttttg acagtgaagt cataataatt acaacaaacc ttgccaatcc agctccactt
1801 gattatgtca actttgaggc ctgttccagg agaattgact tcctggtgta cgccgaggca
1861 ccagaagtag aaaaggcaaa acgagacttt cctggtcaac cagatatgtg gaaggacgcc
1921 ttcaagtcgg acttttcaca tatcaagttg caacttgcac ctcagggcgg ctttgacaag
1981 aatggcaaca ccccacatgg gaaaggagtg atgaagaccc tcaccaccgg ttccctgatt
2041 gcccgtgcat caggcttact gcatgagagg atggatgaat ttgaactcca aggccccaca
2101 gtcaccacct tcaatttcga ccggaacaga atcaccgcat tcagacaatt ggctgcagaa
2161 aacaagtatg ggttggtgga caccatgaga gttggcaatc aattaaaagg agtgaaaacc
2221 atggaagaac tcaaacaagc aatcaagaat gtgatcatca agaggtgccg gatcatctac
2281 ggtggctcca cgtatgacct tgaatctgat ggcaagggca aagttttggt ggaaaaggtc
2341 aagaacacct ctgtacagac caacaacgag ttggccggag ccctgcatca cctcaaacat
2401 gcccgaatca ggtactatgt caaatgtgtg caagaagcag tctactccat catacaaatt
2461 gccggcgctg cgtttgtcac cacacgcatt gcacgccgca tgaacataca agagctttgg
2521 tcgaagccac cattagacca aaatgaatca gaggctaagg aagaggcccc caagtcagaa
2581 gatgacgagt tcatcatatc ttctaaggac atcaaggagg aaggaaagaa gggcaaaaac
2641 aaaactggcc gtggcaagaa acacactgca ttctctagca agggcttgag cgatgaggag
2701 tatgacgagt acaagaggat aagagaagag agaaatggga agtactccat agaggagtat
2761 cttcaagaca gagacaggta ctatgaggaa ctcgccatcg ccaaggccac ggaagaagac
2821 ttctgtgagg aggaggagat caaaatccgt cagaggattt tccgtcccac caggaaacaa
2881 aggaaggaag agagggccac actagggcta gtaactggtt cagaaatcag aagaagaaac
2941 cctgatgact tcaaacctaa agggaaactg tgggccgatg acaacagaag tgttgactac
3001 aatgagaaac tggactttga ggccccccca agcatatggt ctaggattgt gagctttggt
3061 tctggttggg gcttctgggt atcaccaagc ctgttcataa catcaactca tgtaatccct
3121 gcaggcataa cagaggcatt tggagtcccc atcaaacaaa tccaggtcca caaatcaggt
3181 gaattttgcc ggttcagatt cccaaaacca attagaccag atgtgacagg aatgatcttg
3241 gaagaaggtg cgcctgaggg caccgtggca accgtgctca tcaaacgccc taccggagag
3301 ctcatgcccc ttgcagccag aatggggaca cacgcaacca tgaaaattca aggccgcatg
3361 gttggcggac agatgggtat gttgctcact ggttcaaatg ctaaaggaat ggatttggga
3421 acaactcctg gtgattgtgg ctgtccctac atctacaaaa ggggcaatga ctatatagtc
3481 attggggtgc acacagcagc agcccgtggt ggaaacaccg tcatctgtgc cacacaggga
3541 agtgagggtg aggcaactct tgagggtgga gatgacaaag gaacatactg tggggcaccc
3601 attctaggcc ctgggggggc accaaaattg agcaccaaaa ccaaattttg gaggtcatcg
3661 aacacgcctc ttccaccagg gacatatgag cctgcctacc tcggtggccg tgacccgcgt
3721 gttaagggtg ggccctcctt gcagcaggta atgagagacc agttgaagcc attcactgag
3781 cccaggggta aacctccaag accaagtgtg ttggaagcag ccaaacaaac catcattaat
3841 gtcctcgaac aaaccctgga ccctccacaa aaatggacat acgcacaggc gtgtgcttca
3901 cttgacaaaa ccacctccag cgggcatccc caccacgtcc gaaagaatga attctggaat
3961 ggtgagacct tcactggtaa attggcagac caagcatcaa aagcaaatct aatgtttgag
4021 gaagggaaac acatgacacc agtgtataca gcagccctca aggacgagct ggtcaagact
4081 gacaaaatct atggaaagat caagaagaga ctgctctggg gctctgactt gtccaccatg
4141 atccggtgcg ccaggtcctt tggtgggctc atggatgaga tgaaggcaca ctgcatatca
4201 ctcccagtcc gagttggcat gaacatgaat gaagatggtc caataatatt tgagaagcac
4261 tccagataca agtaccacta tgatgcagac tactcccgct gggattcaac acaacagagg
4321 gcggtactag cagcagcctt ggaaatcatg gtcaggttct ctgcagagcc acaattggca
4381 cagatagtcg ctgaggatct gctggccccc agtgtggtag atgtaggaga ctttaaaatt
4441 tcaataaatg aagggctccc ctctggtgta ccatgcactt ctcaatggaa ttccatcgca
4501 cactggctgc taaccctctg tgccttgtct gaagtcacca aactgtcccc tgacattgta
4561 caggcaaatt ccatgttctc attttacggt gatgacgaga ttgtcagcac cgatataaaa
4621 ttggaccctg aaaagttaac caccaaattg aaggagtacg gcctgaaacc aactcgccca
4681 gacaaaaccg agggacccct gatcatcagt gaggatttga acggactcac tttcctccgg
4741 aggacggtga ctcgtgaccc agctggctgg tttggaaaac tggaccaaag ctcaatactg
4801 aggcagatgt actggactag aggaccaaat catgaagatc ccaatgagac aatgataccc
4861 cactctcaaa gacccataca gctcatggca ctgcttggtg aggcctccct tcacggaccc
4921 tctttctata gcaaaattag taaattggtc ataactgaac tcaaagaagg tgggatggac
4981 ttttacgtgc caaggcagga acccatgttc aggtggatga ggttttctga cttgagcacg
5041 tgggagggcg atcgcaatct ggctcccaat tttgtgaatg aagatggcgt cgaatgacgc
5101 tgctccatct aatgatggtg ccgccggcct cgtaccagag atcaataatg aggcaatggc
5161 gctagatcca gtggcgggtg cagcgatagc agcacccctt actggccagc aaaatataat
5221 agatccctgg attatgaata attttgtgca agcacctggt ggtgagttta cagtgtcacc
5281 taggaactcc cctggtgaag tacttctaaa tttagaatta ggcccagaaa taaatcccta
5341 tctggcgcat cttgctagga tgtacaatgg ttatgcaggt gggtttgagg tgcaggtggt
5401 cctggctgga aatgcgttta cagcaggaaa agtgatcttt gcagctatac cccccaattt
5461 cccaactgac aatttgagtg cagcgcagat cacaatgtgt cctcatgtga ttgtggatgt
5521 caggcagttg gaaccaatca acctcccgat gcctgatgtc cgcaacaatt tctttcatta
5581 caatcaaggt tctgattcga ggttacgctt aattgcaatg ttgtatacac cccttagggc
5641 aaataattct ggagatgatg tttttactgt gtcatgtagg gtgttgacta ggcccagtcc
5701 tgatttctca ttcaatttcc tcgtcccacc cactgtggaa tcaaagacaa aactttttac
5761 cctccctatc ttgactatct ctgagatgtc taattctaga tttccagtgc caattgactc
5821 tctgcacacc agtccaactg acaacattgt tgtccagtgc caaaatgggc gcgtcaccct
5881 tgatggtgag ctaatgggca ccacccaact cttgccgagt cagatatgtg cttttagggg
5941 tgtgctcacc agatcaacaa gcagagccag tgaccaagct gacacagcaa cccccagact
6001 cttcaactac tattggcaca tacaactgga caacctaaat gggaccccgt atgatcctgc
6061 agaggacata ccagctcctc tggggacgcc agactttcgg ggcaaagtct ttggcgtagc
6121 cagccagaga aaccctgaca gcacaacaag ggcacatgag gcaaaagtgg acacaacatc
6181 tggccgcttc accccaaaat taggctccct agaaatatcc actgaatctg gtgactttga
6241 ccaaaatcaa ccgacaagat tcaccccagt tggcattgga gttgacaatg aggcagactt
6301 tcaacaatgg accttacctg attattccgg tcagttcacc cacaacatga acctggcccc
6361 agctgtcgct cccaattttc ccggtgaaca gcttcttttc ttccgctcac agttgccatc
6421 ctctggcggg cggtccaatg gtattctaga ctgcctggtc ccccaggaat gggtccaaca
6481 cttctaccag gaatccgccc ctgcccaaac gcaggtggct ctggttaggt atgtcaaccc
6541 tgacactggt agggtgttat ttgaggctaa gctgcacaag ctaggctaca tgactatagc
6601 taagagtggt gattctccaa taactgtgcc tccaaatgga tactttaggt ttgaatcttg
6661 ggtgaacccc ttttacacat ttgcccccat gggaactggg aatgggcgta gaaggattca
6721 ataatggctg gagcctttat agcaggattg gctggtgaca tgctcacaaa cactgtaggg
6781 tctttagtta atgcaggggc tggtgctatt aatcaaaaag ttgattttga aaataataaa
6841 tatctacaaa atgcatcttt taatcatgat aaggagatgt taaatgcaca agttgaggca
6901 acaaagaggc tacaggctga catgattgct atcaaacaag gggttttgac cgctggcggt
6961 ttctccccca ctgatgcagc ccgtggggct attaacgccc ccataacaaa agttctggac
7021 tggagtggaa ccaggtactg ggcaccaaat gccacctcca caacctcaat gtcaggtggc
7081 ttcacaggtc aagctgtgca cagagctaca ccaaatttta aaaccaatca agccccaaaa
7141 tccacaccca gcagtgggtc ttcagtgagg tcaagctcaa cccaactcac caacctgagc
7201 tcacactcat ctgggtcttc tcgatccagc ggatccacga tggtcagctc gttaccatct
7261 tccagcagga ctagagactg ggttaaccaa cagaatttta atttggaacc acacatgcct
7321 ggatctctca ggacagcttt tgttactcca ccatctagta cagcctctag cttagacacg
7381 gtctcaaccg tgcccaagag tgttttggac tcctggacat ctgcgtttaa cacgcgcaga
7441 cagccgcttt tcgcacacct tcgcagaagg ggggagtcaa atgtttagtg aaaagattat
7501 tcttaaattt ggtttgtaat tggatttaaa ttagaatctt ttaaa
//