Typing tool
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Typing tool
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Complete norovirus genomes
| MT474040 | GII.4 Sydney | |
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| GII.P31 |
ORF1: 1..5094
ORF2: 5075..6697
ORF3: 6697..7503
LOCUS MT474040 7503 bp RNA linear VRL 15-MAY-2020
DEFINITION Norovirus GII isolate JH19 nonstructural polyprotein (ORF1) gene,
partial cds; and VP1 (ORF2) and VP2 (ORF3) genes, complete cds.
ACCESSION MT474040
VERSION MT474040.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7503)
AUTHORS Hernandez,J.M., Silva,L.D., Souza Junior,E.C., Cardoso,J.F.,
Reymao,T.K., Portela,A.C.R., Lima,C.P., Teixeira,D.M., Lucena,M.S.,
Nunes,M.R. and Gabbay,Y.B.
TITLE Evolutionary and Molecular Analysis of Complete Genome Sequences of
Norovirus from Brazil: Emerging Recombinant Strain GII.P16-GII.4
JOURNAL Unpublished
REFERENCE 2 (bases 1 to 7503)
AUTHORS Hernandez,J.M., Silva,L.D., Souza Junior,E.C., Cardoso,J.F.,
Reymao,T.K., Portela,A.C.R., Lima,C.P., Teixeira,D.M., Lucena,M.S.,
Nunes,M.R. and Gabbay,Y.B.
TITLE Direct Submission
JOURNAL Submitted (14-MAY-2020) Virology, Evandro Chagas Institute, BR316,
Ananindeua, PARA 67030000, Brazil
COMMENT ##Assembly-Data-START##
Assembly Method :: IDBA-UD v. 1
Sequencing Technology :: Illumina
##Assembly-Data-END##
FEATURES Location/Qualifiers
source 1..7503
/organism="Norovirus GII"
/mol_type="genomic RNA"
/strain="Hu/GII.Pe_GII.4/JH19/2015/AM/BRA"
/isolate="JH19"
/isolation_source="stool"
/host="Homo sapiens"
/db_xref="taxon:122929"
/country="Brazil: Manaus, AM"
/lat_lon="3.1325 S 59.9896 W"
/collection_date="03-Aug-2015"
/note="genotype: GII.PE/GII.4"
gene <1..5094
/gene="ORF1"
CDS <1..5094
/gene="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="QJT97661.1"
/translation="MASNDASAAAVANSNNDIAKSSSDGVFSNMAVTFKRALGARPKQ
PPPKEIPPRPPRPPTPELVKKIPPPPPNGEDELVVSYSARDGVSGLPELTTVRQPEET
NTAFSVPPLNQRESRDAKEPLTGTIIEMWDGEIYHYGLYVERGLILGVHKPPAAISLA
KVELTPLSLFWRPVYTPQYLISPDTLRRLHGESFPYTAFDNNCYAFCCWVLDLNDSWL
SRRMIQRTTGFFRPYQEWNKKPLPTMDDSKLKKVANIFLCTLCSLFTRPIKDIIGKLK
PLNILNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPEDLA
VELVPIVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFPKK
EEANELAMVRSIEDAVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARKLSTKS
ASPDIVGTINALLARIAAARSLVHRAKEELSSRPRPVVVMISGRPGIGKTHLARELAK
KIAASLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTCPL
TLNCDRIENKGKVFDSDAIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEKAK
RDFPGQPDMWKNAFSPDFSHIKLSLAPQGGFDKNGNTPHGKGVMKTLTTGSLIARASG
LLHERLDEYELQGPALTTFNFDRNKVLAFRQLAAENKYGLMDTMRVGKQLKDVKTTSD
LKQALKNIAIKKCQIVYNGSTYTLEADGKGSVKVDKVQSATVQTNNELAGALHHLRCA
RIRYYVKCVQEALYSIIQIAGAAFVTTRITKRMNIQNLWSKPQVEDTEEMTNKDGCLK
PKDDEEFVVSSDDIKTEGKKGKNKSGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKY
SIEEYLQDRDKYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGLVTG
SEIRKRNPEDFKPKGKLWADDDRSVDYNEKLNFEAPPSIWSRIVNFGSGWGFWVSPSL
FITSTHVIPQGAKEFFGVPIKQIQVHKSGEFCRLRFPKPIRTDVTGMILEEGAPEGTV
ATLLIKRPTGELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGDCG
CPYIYKRGNDYVVIGVHTAAARGGNTVICATQGSEGEATLEGGDSKGTYCGAPILGPG
SAPKLSTKTKFWRSSTTPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKPFTEPRG
KPPRPNVLEAAKKTIINVLEQTIDPPQKWSFAQACASLDKTTSSGHPHHMRKNDCWNG
ESFTGKLADQASKANLMFEEGKNMTPVYTGALKDELVKTDKVYGKIKKRLLWGSDLAT
MIRCARAFGGLMDELKAHCVTLPVRVGMNMNEDGPIIFEKHSRYRYHYDADYSRWDST
QQRDVLAAALEIMVKFSPEPHLAQVVAEDLLSPSVMDVGDFQISISEGLPSGVPCTSQ
WNSIAHWLLTLCALSEVTDLSPDIIQANSLFSFYGDDEIVSTDIKLDPEKLTAKLKEY
GLKPTRPDKTEGPLVISEDLDGLTFLRRTVTRDPAGWFGKLEQSSILRQMYWTRGPNH
EDPFETMIPHSQRPIQLMSLLGEAALHGPAFYSKISKLVIAELKEGGMDFYVPRQEPM
FRWMRFSDLSTWEGDRNLAPSFVNEDGVE"
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..3018
/gene="ORF1"
/product="VPg"
mat_peptide 3019..3561
/gene="ORF1"
/product="Pro"
mat_peptide 3562..5091
/gene="ORF1"
/product="RdRp"
gene 5075..6697
/gene="ORF2"
CDS 5075..6697
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="QJT97662.1"
/translation="MKMASSDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ
QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
FEVQVILAGNAFTAGKVIFAAVPPNFPTEGLSPSQVTMFPHIVVDVRQLEPVLIPLPD
VRNNFYHYNQSNDPTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT
QLSPVNICTFRGDITHITGSRNYTMNLASQNWNNYDPTEEIPAPLGTPDFVGKVQGVL
TQTTRTDGSTRGHKATVYTGSADFAPKLGRVQFETDTDHDFEANQNTKFTPVGVIQDG
STTHRNEPQQWVLPSYSGRSTHNVHLAPAVAPTFPGEQILFFRSTMPGCSGYPNMDLD
CLLPQEWIQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV
IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRAV"
gene 6697..7503
/gene="ORF3"
CDS 6697..7503
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="QJT97663.1"
/translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA
SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQEMMKVKQAVLLEGGFSETDAARGAIN
APMTKVLDWSGTRYWAPDARTTTYNAGRFSTPQPSGALPGRANLRDAVPARGSSSKSS
NFSTATSVYSNQTTSTRLGSTAGSGTSVSSLPSTARTRSWVEDQSRSLSPFMKGAHNI
SFVTPPSSRSSSQGTVSTVPKEILDSWTGVFNTRRQPLFAHIRKRGESRV"
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 gagatggcgt ttccggactg cctgagctca ccactgtcag gcaaccggaa
301 gaaaccaaca cggcgttcag tgtcccccca ctcaaccaaa gggagagcag ggacgccaag
361 gagccactaa ctgggacaat tattgaaatg tgggatggag aaatctacca ttacggcctg
421 tacgtggaac gaggtcttat acttggtgta cacaagccac cggcagccat tagccttgcc
481 aaggtcgagc taacaccgct ctctttgttc tggagacctg tgtacacccc ccagtacctc
541 atctctccag acactcttag gagattacat ggagagtcat tcccctacac tgcatttgac
601 aacaattgct acgccttttg ttgttgggta ttagacctaa acgactcatg gctaagcagg
661 agaatgattc agagaacaac aggtttcttc agaccgtacc aggagtggaa caagaaaccc
721 ctccccacta tggatgattc caaattaaag aaggtagcca acattttctt gtgcactttg
781 tgttcactat tcaccagacc cattaaggac ataataggga agttgaagcc tctcaacatc
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 aagagcctgt aaagaccttg gtgcatacgg actggaaatc
1141 ttaaaattgg tcatgaagtg gttcttccca aagaaagagg aagcaaatga actggctatg
1201 gtgagatcca tcgaggatgc agtgctagac ctcgaggcaa ttgaaaacaa ccacatgacc
1261 accctactca aagacaaaga cagcttggca acctatatga gaacccttga ccttgaggag
1321 gagaaagcca gaaaactctc aaccaagtct gcttcacccg atattgtggg cacaatcaac
1381 gctcttctgg caagaattgc tgctgcacgc tccctagtgc atcgggcgaa agaagagctc
1441 tccagcaggc cgagacctgt cgttgtgatg atatcgggaa gaccagggat agggaaaact
1501 catcttgcca gggagctggc caagaagatc gcggcctccc tcacagggga ccagcgtgtg
1561 ggtcttatac cacgcaatgg tgtcgatcac tgggacgcgt acaagggcga aagagttgtc
1621 ctgtgggacg actatggaat gagcaacccc atccatgatg ccctcaggtt gcaggagctt
1681 gctgatactt gccccctcac gctaaattgt gacagaattg agaacaaagg gaaagtcttt
1741 gacagtgatg ccataattat caccaccaat ctggccaacc cagcaccact ggattatgtc
1801 aactttgaag cgtgctcgag acgtattgac ttcctcgtgt acgcagaagc ccctgaggtt
1861 gagaaggcaa agcgcgactt cccaggtcaa cctgacatgt ggaagaacgc tttcagtcct
1921 gacttctcac acataaaact gtcattggct ccacagggtg gttttgacaa gaacggcaac
1981 accccgcatg gaaaaggggt catgaagacc ctcaccactg gctccctcat cgcccgagca
2041 tcagggttgc tccatgagag gctagatgaa tatgaactgc aaggcccagc cctcaccact
2101 ttcaactttg accgcaacaa ggtgcttgct tttagacagc ttgctgctga aaacaagtat
2161 gggctgatgg acacaatgag agttggaaaa cagcttaagg atgtcaagac cacgtcagac
2221 ctcaagcaag cactcaaaaa catcgcgatc aagaagtgcc agatagtgta caatggtagc
2281 acctacacac ttgaggccga tggcaaaggt agtgtgaaag ttgacaaagt gcaaagtgcc
2341 accgtgcaga ccaacaatga actagccggt gccctacacc acctaaggtg cgctagaatc
2401 agatactatg ttaaatgcgt ccaggaggca ctgtattcca tcatccaaat cgctggggct
2461 gcattcgtca ccacgcgcat cactaagcgc atgaatatac agaatctctg gtccaagcca
2521 caggtggaag acacagaaga gatgaccaac aaagatggtt gcctaaaacc taaagatgat
2581 gaagagtttg tcgtctcatc tgacgacatc aaaactgagg gcaagaaagg gaagaacaag
2641 tccggtcgtg gcaagaagca cacagccttt tcaagtaaag ggctcagtga tgaggagtac
2701 gacgagtaca aaagaatcag ggaagaaagg aatggcaagt actccataga agagtacctt
2761 caggacagag acaagtacta cgaggaggtg gccattgcca gggcaaccga agaggacttc
2821 tgtgaagaag aagaggccaa aatccggcag agaattttta gaccaacaag gaaacaacgc
2881 aaagaagaga gggcctctct cggcttggtc acaggctctg aaatcaggaa gagaaaccca
2941 gaagacttca aacccaaggg aaagctgtgg gctgatgatg acagaagtgt tgactacaat
3001 gagaaactca actttgaggc cccaccaagc atctggtcgc ggatagtcaa ctttggttca
3061 ggctggggct tctgggtctc ccccagtctg tttataacat caacccatgt cataccccaa
3121 ggtgcaaaag agttcttcgg agtccctatc aagcaaattc aggtacacaa gtcaggtgaa
3181 ttctgccggt tgaggttccc aaagccaatt agaactgatg tgacgggcat gattctagaa
3241 gaaggtgcgc ccgaggggac tgtggccaca ctgctcatca agagaccaac tggagagctc
3301 atgcctctgg cagccagaat ggggacccac gcaaccatga aaattcaggg gcgcacagtt
3361 ggagggcaaa tgggtatgct cctgacagga tctaacgcca agagtatgga cctaggcaca
3421 acaccaggcg actgcggctg cccttacatt tacaagaggg ggaatgacta tgtggtcata
3481 ggagtccata cggccgctgc ccgtggagga aacactgtca tatgtgccac ccaggggagt
3541 gagggagaag ccacacttga aggaggtgac agtaaaggga catattgtgg cgcaccaatt
3601 ttgggcccag ggagcgctcc gaagctcagt actaagacta agttttggag gtcatccaca
3661 acaccactcc cacctggcac ctatgaacca gcctacctcg gtggcaagga tcccagagtc
3721 aaaggtggcc cttcattgca acaagttatg agggaccagc taaagccatt tacagaaccc
3781 agaggcaaac caccaagacc aaatgtgttg gaagctgcca agaaaaccat catcaatgtc
3841 cttgagcaaa caattgaccc accccaaaaa tggtcatttg cgcaggcttg cgcatccctt
3901 gacaaaacca cctccagcgg tcacccgcac cacatgcgaa aaaatgattg ttggaatggg
3961 gagtccttca caggaaaatt ggctgatcaa gcctccaagg ccaacctaat gtttgaagag
4021 ggaaagaaca tgactccagt ctacacaggt gcacttaaag atgagctggt gaagaccgat
4081 aaagtttatg gtaagatcaa gaagaggctt ctgtggggtt cagacctggc gaccatgata
4141 cggtgcgccc gagcttttgg aggccttatg gatgaactca aggcgcactg tgtcacactt
4201 cctgtcagag ttggtatgaa catgaatgag gatggcccca tcatctttga gaagcactcc
4261 agatataggt accactacga tgctgattat tcccggtggg actcaacaca acaaagggat
4321 gtgctagcag cagcactaga gatcatggtt aagttctctc cagaaccaca cctggcccag
4381 gtggttgcag aagacctcct ttcccccagc gtaatggatg tgggtgactt tcaaatatca
4441 ataagtgagg gtcttccctc tggggtacct tgtacctccc agtggaattc catcgcccac
4501 tggctcctca ctctttgtgc actctctgaa gtcacggatc tgtcccctga catcattcag
4561 gccaactccc ttttctcctt ctatggtgat gatgagattg tgagcacaga cataaaatta
4621 gacccagaga agctgacagc aaaactcaag gagtacgggc tgaaaccaac ccgccccgac
4681 aaaactgaag gacctcttgt tatctctgaa gacctggatg gtctgacatt cctccggaga
4741 actgtgaccc gtgatccagc tggctggttt ggaaaattgg aacaaagttc aattctcaga
4801 caaatgtact ggaccagggg tcccaaccat gaagatccat ttgaaacaat gataccacac
4861 tcccaaagac ccatacaatt gatgtccctg ctgggcgagg ctgcactcca cggcccggca
4921 ttttatagca aaattagcaa attagtcatt gcagagttga aggaaggtgg catggatttt
4981 tacgtgccca gacaagagcc aatgttcaga tggatgagat tctcagatct gagcacgtgg
5041 gagggcgatc gcaatctggc tcccagtttt gtgaatgaag atggcgtcga gtgacgccaa
5101 cccatctgat gggtccgcag ccaacctcgt cccagaggtc aacaatgagg ttatggctct
5161 ggagcccgtt gttggtgccg ctattgcggc acctgtagcg ggccaacaaa atgtaattga
5221 cccctggatt agaaataatt ttgtacaagc ccctggtgga gagtttacag tatcccctag
5281 aaacgctcca ggtgaaatac tatggagcgc acccttgggt cctgatttaa atccctacct
5341 atcccatttg gccagaatgt acaatggtta tgcaggtggt tttgaagtgc aggtaattct
5401 cgcggggaat gcgttcaccg ccgggaaagt catatttgca gcagtcccac caaattttcc
5461 aactgagggc ttgagcccca gccaggtcac tatgttcccc catatagtag tagatgttag
5521 gcaactagaa cctgtgttga ttcccttacc cgatgttagg aataacttct atcattataa
5581 tcaatcaaat gaccctacca ttaagttaat agcaatgttg tatacaccac ttagggccaa
5641 taatgctggg gatgatgtct tcacagtttc ttgccgagtt ctcacgagac catcccccga
5701 ttttgatttc atatttctag tgccacccac agttgagtca agaactaaac cattctctgt
5761 cccagtctta actgttgagg agatgaccaa ttcaagattc cccattcctt tggaaaagtt
5821 gttcacgggt cccagtagtg cctttgttgt ccaaccacaa aacggcaggt gcacgactga
5881 tggcgtgctc ctaggcacta cccaactgtc ccctgtcaat atctgcacct tcagaggaga
5941 tatcacccat atcacaggta gtcgtaacta cacaatgaat ttggcttctc aaaattggaa
6001 caattatgac ccaacagaag aaatcccagc ccctctagga actccagact ttgtggggaa
6061 ggttcaaggc gtgctcaccc aaaccacgag gacagatggc tcaacacgcg gccacaaagc
6121 cacagtgtac actgggagcg ccgactttgc tccaaaactg ggtagggttc agtttgaaac
6181 tgacacagat catgattttg aagctaacca aaacacaaag ttcaccccag tcggtgtcat
6241 ccaagatggt agtaccaccc accgaaatga accccaacag tgggtgctcc caagttactc
6301 aggcagaagt actcacaatg tgcatctggc ccctgctgta gcccccactt ttccgggtga
6361 gcaaatcctc ttcttcagat ccaccatgcc cggatgcagc gggtacccca acatggattt
6421 ggactgtctg ctcccccagg agtggataca gtacttctac caagaggcag ccccagcaca
6481 atctgatgtg gctctgctaa gatttgtaaa tccagacaca ggtagggttt tgtttgagtg
6541 taagctccat aaatcaggct atgttacagt ggctcacact ggtcaacatg atttggttat
6601 tccccccaat ggttatttta gatttgattc ctgggtcaac cagttctaca cgcttgcccc
6661 catgggaaat ggaacggggc gtagacgtgc agtataatgg ctggagcttt ctttgctgga
6721 ttggcatctg atgtccttgg ctctggactt ggttccctta tcaatgctgg ggctggggcc
6781 atcaaccaaa aagttgagtt tgaaaataac agaaaattgc aacaagcatc cttccaattt
6841 agcagcaatc tacaacaagc ttcctttcaa catgacaaag agatgctcca agcacaaatt
6901 gaggccacta aaaagttaca acaggaaatg atgaaagtta agcaggcagt gctcctagag
6961 ggtgggttct ctgagacgga tgcagcccgc ggggcaatca acgcccccat gacaaaagtt
7021 ttggactgga gcgggacaag gtactgggct cccgatgcta gaactacaac ttacaatgca
7081 ggccgttttt ccacccctca accatcgggg gcactgccag gaagggctaa tcttagggat
7141 gctgtccccg ctcggggttc ctctagtaaa tcttctaact tttctactgc tacttctgtg
7201 tattcaaatc aaaccacttc aacgagactt ggttctacag ctggttctgg caccagtgtc
7261 tcgagcctcc cgtcaactgc aaggactagg agctgggttg aggatcaaag taggagtttg
7321 tcacctttca tgaagggggc ccacaacata tcgttcgtca ccccaccatc tagcagatcc
7381 tctagccaag gcacagtctc aaccgtgcct aaagagattt tggactcctg gactggcgtt
7441 ttcaacacgc gcaggcagcc actcttcgct cacattcgta agcgagggga gtcacgggtg
7501 taa
//