Typing tool
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Typing tool
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Complete norovirus genomes
| MT474034 | GII.4 Sydney | |
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| GII.P31 |
ORF1: 1..5094
ORF2: 5075..6697
ORF3: 6697..7503
LOCUS MT474034 7503 bp RNA linear VRL 15-MAY-2020
DEFINITION Norovirus GII isolate JH13 nonstructural polyprotein (ORF1) gene,
partial cds; and VP1 (ORF2) and VP2 (ORF3) genes, complete cds.
ACCESSION MT474034
VERSION MT474034.1
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JOURNAL Unpublished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/JH13/2014/AM/BRA"
/isolate="JH13"
/isolation_source="stool"
/host="Homo sapiens"
/db_xref="taxon:122929"
/country="Brazil: Manaus, AM"
/lat_lon="3.1325 S 59.9896 W"
/collection_date="04-Jun-2014"
/note="genotype: GII.PE/GII.4"
gene <1..5094
/gene="ORF1"
CDS <1..5094
/gene="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="QJT97649.1"
/translation="MASNDASAAAVANSNNDIAKSSSDGVFSNMAVTFKRALGARPKQ
PPPKEIPPRPPRPPTPELVKKIPPPPPNGEDELVVSYSAKDGVSGLPELTTVRQPEET
NTAFSVPPLNQRESRDAKEPLTGTIIEMWDGEIYHYGLYVERGLILGVHKPPAAISLA
KVELTPLSLFWRPVYTPQYLISPDTLRRLHGESFPYTAFDNNCYAFCCWVLDLNDSWL
SRRMIHRTTGFFRPYQDWNRKPLPTMDDSKLKKVANIFLCTLSSLFTRPIKDIIGKLK
PLNILNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPEDLA
VELVPIVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFPKK
EEANELAMVRSIEDAVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARKLSTKS
ASPDIVGTINSLLARIAAARSLVHRAKEELSSRPRPVVVMISGRPGIGKTHLARELAK
KIAASLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTCPL
TLNCDRIENKGKVFDSDAIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEKAK
RDFPGQPDMWKNAFSPDFSHIKLSLAPQGGFDKNGNTPHGKGVMKTLTTGSLIARASG
LLHERLDEYELQGPSLTTFNFDRNKILAFRQLAAENKYGLMDTMRVGKQLKDVKTMSD
LKQALKNIAIKKCQIVYNGSTYTLEADGKGSVKVDKVQSATVQTNNELVGALHHLRCA
RIRYYVKCAQEALYSIIQIAGAAFVTTRIAKRMNIQNLWSKPQVEDTEEMTNKDGCLK
PKDDEEFVVSSDDIKTEGKKGKNKSGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKY
SIEEYLQDRDRYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGLVTG
SEIRKRNPEDFKPKGKLWADDDRSVDYNEKLNFEAPPSIWSRIVNFGSGWGFWVSPSL
FITSTHVIPQGAKEFFGVPIKQIQIHKSGEFCRLRFPKPIRTDVTGMILEEGAPEGTV
ATLLIKRPTGELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGDCG
CPYIYKRGNDYVVIGVHTAAARGGNTVICATQGSEGEATLEGGDSKGTYCGAPILGPG
SAPKLSTKTKFWRSSTTPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKPFTEPRG
KPPRPNVLEAAKKTVINVLEQTIDPPQKWSFAQACASLDKTTSSGHPHHMRKNDCWNG
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="QJT97650.1"
/translation="MKMASSDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ
QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
FEVQVILAGNAFTAGKVIFAAVPPNFPTEGLSPSQVTMFPHIVVDVRQLEPVLIPLPD
VRNNFYHYNQSNDPTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFSVPVLTVEEMTNSRFPIPLERLFTGPSSAFVVQPQNGRCTTDGVLLGTT
QLSPVNICTFRGDVTHITGSHNYTMNLASQNWNNYDPTEEIPAPLGTPDFVGKIQGVL
TQTTRTDGSTRGHKATVYTGSAEFAPKLGRVQFETDTNHDFEANQNTKFTPVGVIQDG
STTHRNEPQQWVLPSYSGRNTHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD
CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYITVAHTGQHDLV
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="QJT97651.1"
/translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA
SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQEMMKVKQAMLLEGGFSETDAARGAIN
APMTKALDWSGTRYWAPDARTTTYNAGRFSTPQPSGALPGRANLRDAVPARGSSSKFS
NSSTATTVYSNQTASTRLGSTAGSGTSVSNLPSAARTRSWVEDQSRNLSPFMRGAHNI
SFVTPPSSRSSSQGTVSTVPKEVLDSWTGAFNTRRQPLFAHIRKRGESRA"
ORIGIN
1 atggcgtcta acgacgcttc cgctgccgct gttgccaaca gcaacaacga catcgcaaaa
61 tcttcaagtg acggtgtgtt ctctaacatg 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 gaaaccaaca cggcgttcag tgtcccccca ctcaatcaaa gggagagcag ggacgccaag
361 gagccactaa ctggaacaat tattgaaatg tgggatggag aaatttacca ttacggcctg
421 tacgtggaac gaggtcttat acttggtgtg cacaagccac cggcagccat cagccttgcc
481 aaggtcgagc taacaccgct ctctttgttc tggagacctg tatacacccc ccagtatctc
541 atctctccag acactcttag gagattacat ggagagtcat tcccctacac tgcatttgac
601 aacaattgtt acgccttttg ttgttgggtg ttagacctaa acgactcatg gctaagcagg
661 agaatgattc atagaacaac aggtttcttc aggccgtacc aggattggaa caggaaaccc
721 ctccccacta tggatgattc caaattaaag aaggtggcca acatattctt gtgcactttg
781 tcttcactat tcaccagacc cattaaggac ataataggga agttgaaacc ccttaacatt
841 cttaacattc tggctacatg tgactggacc ttcgcaggca tagtggaatc tttaatactc
901 ttagcagaac tctttggagt tttctggaca cccccagatg tgtctgcgat gatcgccccc
961 ttgctaggtg attatgaact gcaaggacct gaggaccttg cagtggaact agtcccaata
1021 gtgatggggg ggataggttt ggtgctagga tttaccaaag agaaaattgg aaagatgcta
1081 tcatccgctg cgtccacttt aagagcttgt aaagaccttg gtgcatacgg actggaaatc
1141 ttaaaattgg ttatgaagtg gttcttccca aagaaagagg aagcaaatga actggctatg
1201 gtgagatcca tcgaggatgc agtgctagac ctcgaggcaa ttgaaaacaa ccacatgacc
1261 accctactca aagacaaaga cagcttggca acctatatga gaacccttga ccttgaggag
1321 gagaaagcca ggaaactctc aaccaaatct gcttcacccg atattgtggg cacaatcaac
1381 tctcttctgg caagaatcgc tgctgcacgc tccctagtgc atcgggcgaa agaagagctc
1441 tccagcaggc cgagacctgt cgttgtgatg atatcgggaa gaccagggat agggaagact
1501 caccttgcta gggagctggc caagaagatc gcggcctccc tcacagggga ccagcgtgtg
1561 ggtcttatcc cacgcaatgg tgtcgatcac tgggacgcat acaagggcga aagagttgtc
1621 ctatgggacg actatggaat gagcaacccc atccatgatg ccctcaggtt gcaggagctt
1681 gctgacactt gccccctcac gctaaattgt gacagaattg agaacaaagg gaaagtcttt
1741 gacagtgatg ccataattat caccaccaat ctggccaacc cagcaccact ggattatgtc
1801 aactttgaag cgtgctcgag acgtattgac ttcctcgtgt acgcagaagc ccctgaggtg
1861 gagaaggcaa agcgcgactt cccaggtcaa cctgacatgt ggaagaacgc tttcagtcct
1921 gacttctcac acataaaact gtcattggct ccacagggtg gttttgacaa gaacggcaac
1981 accccgcatg gaaaaggggt catgaagacc ctcaccactg gctccctcat cgcccgagca
2041 tcagggttgc tccatgagag gttagacgaa tacgaactgc aaggcccatc cctcaccact
2101 ttcaactttg accgcaacaa gatacttgct tttaggcagc ttgctgctga aaacaagtat
2161 gggctgatgg acacaatgag agttggaaaa cagctcaagg atgtcaagac catgtcagac
2221 ctcaaacaag cactcaagaa catcgcgatc aagaagtgcc agatagtgta caatggtagc
2281 acctacacac ttgaggccga tggcaagggt agtgtgaaag ttgacaaagt gcaaagtgcc
2341 actgtgcaga ccaacaatga gctagtcggt gccctacacc acctaaggtg cgctagaatc
2401 agatactatg ttaaatgcgc ccaggaggca ctgtattcca tcatccaaat cgctggggct
2461 gcattcgtca ccacgcgcat cgctaagcgc atgaatatac aaaatctctg gtccaagcca
2521 caggtggaag acacagaaga gatgaccaac aaagatggtt gcctaaaacc caaagatgat
2581 gaagagtttg tcgtctcatc cgatgacatc aaaactgagg gcaagaaagg gaagaacaag
2641 tccggccgtg gcaagaagca cacagccttt tcaagcaaag ggctcagtga tgaggagtac
2701 gatgagtaca agagaatcag agaagaaagg aatggtaagt actccataga agagtacctt
2761 caggacagag acaggtacta cgaggaggtg gccatagcca gggcaaccga agaggacttc
2821 tgtgaagaag aagaggccaa aatccggcag agaattttta gaccaacaag gaaacaacgc
2881 aaagaggaga gggcctctct cggcttggtc acaggctctg aaatcaggaa gagaaaccca
2941 gaagacttca aacccaaggg aaagctgtgg gctgatgatg acagaagtgt tgactacaat
3001 gaaaaactca actttgaggc cccaccaagc atctggtcgc ggatagttaa ctttggctca
3061 ggctggggct tctgggtctc ccccagtctg tttataacat caacccatgt cataccccaa
3121 ggtgcaaaag agttcttcgg agtccctatc aagcagatcc agatacacaa atcaggtgaa
3181 ttctgccggt tgagattccc aaagccaatc agaactgatg tgacgggcat gattctagaa
3241 gaaggtgcgc ccgaggggac cgtggccaca ctgctcatca agagaccaac tggagaactc
3301 atgcctctgg cagccagaat ggggacccat gcaaccatga aaattcaggg gcgcacagtt
3361 ggagggcaaa tgggtatgct cctgacagga tccaacgcca agagtatgga cctaggcaca
3421 acaccaggcg actgcggctg cccctacatc tacaagaggg ggaatgacta cgtggtcata
3481 ggagtccata cggccgctgc ccgtggagga aacactgtca tatgtgccac ccaggggagt
3541 gagggagaag ccacacttga aggaggtgac agtaaaggga catactgtgg cgcaccaatc
3601 ttgggcccag ggagcgctcc gaagctcagt accaagacta agttttggag atcatccaca
3661 acaccactcc cacctggcac ctacgaacca gcctacctcg gtggcaaaga tcccagagtc
3721 aaaggtggcc cttcattgca acaagttatg agggaccagc taaagccatt cacagaaccc
3781 agaggcaaac caccaagacc aaatgtgttg gaagctgcca agaaaaccgt catcaatgtc
3841 cttgagcaaa caattgatcc accccaaaaa tggtcatttg cgcaagcttg cgcatccctt
3901 gacaaaacca cctccagcgg ccacccacac cacatgcgga aaaacgattg ttggaatggg
3961 gagtccttca caggaaaatt ggctgatcaa gcctccaagg ccaacctaat gtttgaagag
4021 ggaaagaaca tgactccagt ctacacaggt gcacttaaag atgagttggt aaagaccgat
4081 aaagtttatg gtaagatcaa gaagaggctt ctgtggggtt cagatctggc gaccatgata
4141 cggtgcgccc gggcttttgg aggccttatg gatgaactca aggcgcactg tgtcacactt
4201 cctgtcagag ttggtatgaa catgaatgag gatggcccca tcatatttga gaagcactcc
4261 agatatagat atcactatga tgctgattat tcccggtggg actcaacaca acaaagggat
4321 gtgctagcag cagcactaga aatcatggtt aagttctctc cagaaccaca cctggcccag
4381 gtagttgcag aagacctcct ttcccctagc gtaatggatg taggcgactt tcaaatatca
4441 ataagtgagg gccttccctc tggggtacct tgcacctccc agtggaattc catcgcccac
4501 tggctcctca ctctttgtgc actctctgaa gtcacggacc tgtcccctga catcattcag
4561 gccaactccc ttttctcctt ttatggtgat gatgagattg tgagcacaga cataaagttg
4621 gacccagaga agctgacagc aaagctcaag gagtacgggc tgaaaccaac ccgccccgat
4681 aaaactgaag gaccccttgt tatctctgaa gacctggatg gcctgacatt cctccggaga
4741 actgtgaccc gtgatccagc tggctggttt ggaaaattgg aacaaagttc aattctcaga
4801 caaatgtact ggaccagggg tcccaaccat gaagatccat ttgaaacaat gataccacac
4861 tcccaaagac ccatacaatt gatgtccttg ctgggcgagg ctgcactcca cggcccggca
4921 ttttatagca agattagcaa 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 ccattgcggc acctgtagcg ggccaacaga atgtaattga
5221 cccctggatt agaaataatt ttgtacaagc ccctggtgga gagtttacag tatcccctag
5281 aaacgctcca ggtgaaatac tatggagcgc gcccttggga cctgatctaa atccctacct
5341 atctcatttg gccagaatgt acaatggtta tgcaggtggt tttgaagtgc aggtaattct
5401 cgcggggaac gcgttcaccg ccgggaaggt catatttgca gcagtcccac caaattttcc
5461 aactgaaggc ttgagcccca gccaggtcac tatgttcccc catatagtag tggatgttag
5521 gcaactagaa cctgtgttaa ttcccttacc cgatgttagg aataatttct atcattataa
5581 tcaatcaaat gaccccacca ttaagttgat agcaatgttg tatactccac tcagggctaa
5641 taatgctggg gatgatgtct tcacagtttc ttgccgagtt ctcacgagac catcccccga
5701 ttttgatttt atatttctag tgccacccac agttgagtca agaactaaac cattctctgt
5761 cccagtttta actgttgagg agatgaccaa ttcaagattc cccattcctt tagaaaggct
5821 gttcacgggt cccagcagtg catttgttgt ccaaccacaa aacggcaggt gcacgactga
5881 tggcgtgctc ctaggcacca cccaactgtc tcctgtcaac atctgcacct tcagaggaga
5941 tgtcacccac attacaggta gtcataacta cacaatgaat ttggcttctc aaaattggaa
6001 caattatgac ccaacagaag aaatcccagc ccccctagga actccagact ttgtggggaa
6061 gattcaaggc gtgctcaccc aaaccacaag gacagatggc tcaacacgcg gccacaaagc
6121 cacagtgtac actgggagcg ccgaatttgc tccaaaactg ggtagagttc aatttgaaac
6181 tgacacaaac catgattttg aagctaacca aaacacaaag ttcaccccag tcggtgtcat
6241 ccaagatggt agcaccaccc accgaaatga accccaacag tgggtgctcc caagttactc
6301 aggtagaaac actcataatg tgcatctggc ccccgctgta gcccccacct ttccgggtga
6361 gcaacttctc ttcttcagat ccaccatgcc cggatgcagc gggtacccca acatggattt
6421 ggactgtctg ctcccccagg aatgggtgca gtacttctac caagaggcag ccccagcaca
6481 atctgatgtg gctctgctaa gatttgtgaa tccagacaca ggtagggttt tgtttgagtg
6541 taaacttcat aaatcaggct atatcacagt ggctcacact ggccaacatg atttggttat
6601 tccccccaat ggttacttta gatttgattc ctgggtcaac cagttctaca cgcttgcccc
6661 catgggaaat ggaacggggc gtagacgtgc agtataatgg ctggagcttt ctttgctgga
6721 ttggcatctg atgtccttgg ctctggactt ggttccctta tcaatgctgg ggctggggcc
6781 atcaaccaaa aagttgagtt tgagaacaac agaaaattgc aacaagcatc cttccaattt
6841 agcagcaatc tacaacaggc ttcctttcaa catgacaaag agatgctcca agcacaaatt
6901 gaggccacca aaaagctaca acaggaaatg atgaaagtta agcaggcaat gctcctagag
6961 ggtgggttct ctgagacaga tgcagcccgc ggggcaatca acgcccccat gacaaaagct
7021 ttggactgga gcgggacaag gtactgggct cccgatgcta ggactacaac atacaatgca
7081 ggccgcttct ccacccctca accatcgggg gcactgccag gaagagctaa tcttagggat
7141 gccgtccctg ctcggggttc ctccagtaaa ttttctaact cttctactgc tactactgtg
7201 tattcaaatc agactgcttc aacgagactt ggttctacag ctggttctgg taccagtgtc
7261 tcgaacctcc cgtcagctgc aaggactagg agctgggttg aggatcaaag taggaatttg
7321 tcacctttca tgaggggggc acacaacata tcgtttgtca ccccaccatc tagcagatcc
7381 tctagccaag gcacagtctc aaccgtgcct aaagaggttt tggactcctg gactggcgct
7441 ttcaacacgc gcaggcagcc actcttcgct cacattcgta agcgagggga gtcacgggcg
7501 taa
//