Typing tool
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Typing tool
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Complete norovirus genomes
| MT474049 | GII.4 Sydney | |
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| GII.P31 |
ORF1: 1..5094
ORF2: 5075..6697
ORF3: 6697..7503
LOCUS MT474049 7503 bp RNA linear VRL 15-MAY-2020
DEFINITION Norovirus GII isolate JH38 nonstructural polyprotein (ORF1) gene,
partial cds; and VP1 (ORF2) and VP2 (ORF3) genes, complete cds.
ACCESSION MT474049
VERSION MT474049.1
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JOURNAL Unpublished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/JH38/2013/AM/BRA"
/isolate="JH38"
/isolation_source="stool"
/host="Homo sapiens"
/db_xref="taxon:122929"
/country="Brazil: Manaus, AM"
/lat_lon="3.1325 S 59.9896 W"
/collection_date="02-Apr-2013"
/note="genotype: GII.PE/GII.4"
gene <1..5094
/gene="ORF1"
CDS <1..5094
/gene="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="QJT97685.1"
/translation="MASNDASAAAVANSNNDIAKSSSDGVFSNMAVTFKRALGARPKQ
PPPKEIPPRPPRPPTPELVKKIPPPPPNGEDELVVSYSAIDGVSGLPELTTVRQPEET
NTAFSVPPLNQRENRDAKEPLTGTIIEMWDGEIYHYGLYVERGLILGVHKPPAAISLA
KVELTPLSLFWRPVYTPQYLISPDTLRRLHGESFPYTAFDNNCYAFCCWVLDLNDSWL
SRRMIQRTTGFFRPYQDWNRKPLPTMDDSKLKKVANIFLCTLSSLFTRPIKDIIGKLK
PLNILNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPEDLA
VELVPIVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFPKK
EEANELAMVRSIEDAVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARKLSTKS
ASPDIVGTINSLLARIAAARSLVHRAKEELSSRPRPVVVMISGRPGIGKTHLARELAK
KIAASLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTCPL
TLNCDRIENKGKVFDSDAIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEKAK
RDFPGQPDMWKNAFSPDFSHIKLSLAPQGGFDKNGNTPHGKGVMKTLTTGSLIARASG
LLHERLDEYELQGPALTTFNFDRNKILAFRQLAAENKYGLMDTMRVGKQLKDVKTMSD
LKQALKNIAIKKCQIVYNGSTYTLEADGKGSVKVDKVQSATVQTNNELAGALHHLRCA
RIRYYVKCVQEALYSIIQIAGAAFVTTRIAKRMNIQNLWSKPQVEDTEEMTNKDGCLK
PKDDEEFVVSSDDIKTEGKKGKNKSGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKY
SIEEYLQDRDRYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGLVTG
SEIRKRNPEDFKPKGKLWADDDRSVDYNEKLNFEAPPSIWSRIVNFGSGWGFWVSPSL
FITSTHVIPQGAKEFFGVPIKQIQIHKSGEFCRLRFPKPIRTDVTGMILEEGAPEGTV
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="QJT97686.1"
/translation="MKMASSDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ
QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
FEVQVILAGNAFTAGKVIFAAVPPNFPTEGLSPSQVTMFPHIVVDVRQLEPVLIPLPD
VRNNFYHYNQSNDPTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT
QLSPVNICTFRGDVTHITGSRNYTMNLASQNWNNYDPTEEIPAPLGTPDFVGKIQGVL
TQTTRTDGSTRGHKATVYTGSADFAPKLGRVQFETDTDHDFEANQNTKFTPVGVIQDG
STTHRNEPQQWVLPSYSGRNTHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD
CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV
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="QJT97687.1"
/translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA
SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQEMMKVKQAMLLEGGFSETDAARGAIN
APMTKALDWSGTRYWAPDARTTTYNAGRFSTPQPSGALPGRANLRDAVPARGSSSKSS
NSSTATSVHSNQTTSTRLGSTAGSGTSVSSLPSTARTRSWVEDQSRNLSPFMRGAHNI
SFVTPPSSRSSSQGTVSTVPKEVLDSWTGAFNTHRQPLFAHIRKRGESRA"
ORIGIN
1 atggcgtcta acgacgcttc cgctgccgct gttgccaaca gcaacaacga catcgcaaaa
61 tcttcaagtg acggtgtgtt ttctaacatg gctgtcactt ttaagcgggc cctcggggcg
121 cggcctaaac agccgccccc gaaggaaata ccacccagac ccccgcgacc acccacacca
181 gaattggtca aaaagatccc tcctccccca cccaacgggg aggatgaact agtggtctct
241 tacagcgcca tagatggcgt ttccggactg cctgagctca ccactgtcag acaaccggaa
301 gaaaccaaca cggcgttcag tgtcccccca ctcaaccaaa gggagaacag ggacgccaag
361 gagccactaa ctggaacaat tattgaaatg tgggatggag agatctacca ttacggcctg
421 tacgtggaac gaggtcttat acttggtgtg cacaagccac cggcagccat cagccttgcc
481 aaggtcgagc taacaccgct ctctttgttc tggagacctg tatacacccc ccagtatctc
541 atctctccag acactcttag gagattacat ggagagtcat tcccctacac tgcatttgac
601 aacaattgct acgccttttg ttgttgggta ttagacctaa acgactcatg gttaagcagg
661 agaatgattc agagaacaac aggtttcttc aggccgtacc aggattggaa caggaaaccc
721 ctccccacta tggatgattc caaattaaag aaggtagcca acatattctt gtgcactttg
781 tcttcactat tcaccagacc cattaaggac ataataggga agttgaaacc tcttaacatc
841 cttaacattc tggctacatg tgattggacc tttgcaggca tagtggaatc tttaatactc
901 ttagcagaac tctttggagt tttctggaca cccccagatg tgtctgcgat gatcgccccc
961 ttgctaggtg attatgagct gcaaggacct gaggaccttg cagtggaact ggtcccaata
1021 gtgatggggg ggataggttt ggtgctagga tttaccaaag agaaaattgg aaagatgcta
1081 tcatccgctg catccacttt aagagcttgt aaagaccttg gtgcatacgg actggaaatc
1141 ttaaaattgg tcatgaagtg gttcttccca aagaaagagg aagcaaatga actggctatg
1201 gtgagatcca tcgaggatgc agtgctagac ctcgaggcaa ttgaaaacaa ccacatgacc
1261 accctactca aagacaaaga cagcttggca acctacatga gaacccttga ccttgaggag
1321 gagaaagcca gaaaactctc aaccaaatct gcttcacccg acattgtggg cacaatcaac
1381 tctcttctgg caagaatcgc tgctgcacgc tccctagtgc atcgggcgaa agaagagctc
1441 tccagcaggc cgagacctgt cgttgtgatg atatcgggaa gaccagggat agggaaaact
1501 caccttgcca gggagctggc caagaagatc gcggcctccc tcacagggga ccagcgtgtg
1561 ggtcttatcc cacgcaatgg tgtcgatcac tgggacgcat acaagggcga aagagttgtc
1621 ctatgggacg actatggaat gagcaacccc atccatgatg ccctcaggtt gcaggagctt
1681 gctgacactt gccccctcac gctaaattgt gacagaattg agaataaagg gaaagtcttt
1741 gacagtgatg ctataattat 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 tcagggttac tccatgagag gctagatgaa tatgaactgc aaggcccagc cctcaccact
2101 ttcaactttg accgcaacaa gatacttgct tttagacagc ttgctgctga aaacaagtat
2161 gggctgatgg acacaatgag agttggaaaa cagctcaagg atgtcaaaac 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 cgccaagcgc atgaatatac agaatctctg gtccaagcca
2521 caggtggaag acacagaaga gatgaccaac aaggatggtt gcctaaaacc caaagatgat
2581 gaagagtttg tcgtctcatc cgacgacatc aaaactgagg gcaagaaagg gaagaacaag
2641 tccggccgtg gcaagaagca cacagccttt tcaagcaaag ggctcagtga tgaggagtac
2701 gatgagtaca agagaatcag agaagaaagg aatggcaagt actccataga agagtacctt
2761 caggacagag acaggtacta cgaggaggtg gccattgcca gggcaaccga agaggacttc
2821 tgtgaagaag aagaggccaa aatccggcag agaattttca 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 ccctagtctg tttataacat caacccatgt cataccccaa
3121 ggtgcaaaag agttcttcgg agtccctatc aagcaaatcc agatacacaa atcaggtgaa
3181 ttctgccggc tgagattccc aaagccaatc agaactgatg tgacgggcat gattctagaa
3241 gaaggtgcgc ccgaggggac cgtggccaca ctgctcatca agagaccaac tggagagctc
3301 atgcctctgg cagccagaat ggggacccat gcaaccatga aaattcaggg gcgcacagtt
3361 ggagggcaaa tgggtatgct cctgacagga tccaacgcca agagtatgga cctaggcaca
3421 acaccaggcg attgcggctg cccctacatc tacaagaggg ggaatgacta cgtggtcata
3481 ggagtccata cggccgctgc ccgtggagga aacactgtca tatgtgccac ccaggggagt
3541 gagggagaag ccacacttga aggaggtgac agtaaaggga catactgtgg tgcaccaatc
3601 ttgggcccag ggagcgctcc gaagctcagt accaagacta agttttggag atcatccaca
3661 acaccgctcc cacctggcac ctacgaacca gcctacctcg gtggcaaaga ccccagagtc
3721 aaaggtggcc cttcattgca acaagttatg agggaccagc taaagccatt cacagaaccc
3781 agaggcaaac caccaagacc aaatgtgttg gaagctgcca agaaaaccat catcaatgtc
3841 cttgagcaga caattgatcc accccaaaaa tggtcatttg cgcaagcttg cgcatccctt
3901 gacaaaacca cctccagcgg ccacccgcac cacatgcgga aaaacgattg ttggaatggg
3961 gagtccttca caggaaaatt ggctgatcaa gcctccaagg ccaacctaat gtttgaagag
4021 ggaaagaaca tgactccagt ctacacaggt gcacttaaag atgagttggt aaagaccgat
4081 aaagtttatg gtaagatcaa gaagaggctt ctgtggggtt cagacctggc gaccatgata
4141 cggtgcgccc gagcttttgg aggccttatg gatgaactca aggcgcactg tgtcacactt
4201 cctgtcagag ttggtatgaa catgaatgag gatggcccca tcatctttga gaagcactcc
4261 agatatagat atcactatga tgctgattat tcccggtggg actcaacaca acaaagggat
4321 gtgctagcag cagcactaga aatcatggtt aagttctctc cagaaccaca cctggcccag
4381 gtagttgcag aagacctcct ttcccctagc gtaatggatg taggtgactt tcaaatatca
4441 ataagtgagg gtcttccctc cggggtacct tgtacctccc agtggaattc tatcgcccac
4501 tggctcctca ctctttgtgc actctctgaa gtcacggacc tgtcccctga catcattcag
4561 gccaactccc ttttctcctt ctatggtgat gatgagattg taagcacaga cataaagttg
4621 gacccagaga agctgacagc aaaactcaag gagtacgggc tgaaaccaac ccgccccgac
4681 aaaactgaag gaccccttgt tatctctgaa gacctggatg gcctgacgtt cctccggaga
4741 actgtgaccc gtgatccagc tggctggttt ggaaaattgg aacaaagttc aattcttaga
4801 caaatgtact ggaccagggg tcccaaccat gaagatccat ttgaaacaat gataccacac
4861 tcccaaagac ccatacaatt gatgtccttg 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 ccattgcggc acctgtagcg ggccaacaaa atgtaattga
5221 cccctggatt agaaacaatt ttgtacaagc ccctggtgga gagtttacag tatcccctag
5281 aaacgctcca ggtgaaatac tatggagcgc gcccctgggc cctgatctaa atccctacct
5341 atcccatttg gccagaatgt acaatggtta tgcaggtggt tttgaagtgc aggtaattct
5401 cgcggggaac gcgttcaccg ccgggaaggt catatttgca gcagtcccac caaattttcc
5461 aactgaaggc ttaagcccca gccaggtcac tatgttcccc catatagtag tagatgttag
5521 gcaactagaa cctgtgttga ttcccttacc cgatgttagg aataattttt atcattataa
5581 tcaatcaaat gaccccacca ttaagttgat agcaatgttg tatacaccac ttagggctaa
5641 taatgctggg gatgatgtct tcacagtttc ttgccgagtt ctcacgagac catcccccga
5701 ttttgatttc atatttctag tgccacccac agttgagtca agaactaaac cattctctgt
5761 cccagtttta actgttgagg agatgaccaa ttcaagattc cccattcctt tggaaaagtt
5821 gttcacgggt cccagcagtg cctttgttgt ccaaccacaa aacggcaggt gcacgactga
5881 tggcgtgctc ctaggcacca cccaactgtc tcctgtcaac atctgcacct tcagaggaga
5941 tgtcacccat atcacaggta gtcgtaacta cacaatgaat ttggcttctc aaaattggaa
6001 caattatgac ccaacagaag aaatcccagc ccctctagga actccagact ttgtggggaa
6061 gattcaaggc gtactcaccc aaaccacaag gacagatggc tcaacacgcg gccacaaagc
6121 cacagtgtac actgggagcg ccgactttgc tccaaaactg ggtagagttc aatttgaaac
6181 tgacacagac catgattttg aagctaacca aaacacaaag ttcaccccag tcggtgtcat
6241 ccaagatggt agcaccaccc accgaaatga accccaacag tgggtgctcc caagttactc
6301 aggcagaaat actcataatg tgcatctggc ccccgctgta gcccccactt ttccgggtga
6361 gcaacttctc ttcttcagat ccaccatgcc cggatgcagc gggtacccca acatggattt
6421 ggactgtcta ctcccccagg aatgggtgca gtacttctac caagaggcag ccccggcaca
6481 atctgatgtg gctctgctaa gatttgtgaa tccagacaca ggtagggttt tgtttgagtg
6541 taagcttcat aaatcaggct atgttacagt ggctcacact ggccaacatg atttggttat
6601 tccccccaat ggttatttta gatttgactc 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 tacaacaggc ttcctttcaa catgacaaag agatgctcca agcacaaatt
6901 gaggccacca aaaagctaca acaggaaatg atgaaagtta agcaggcaat gctcctagag
6961 ggtgggttct ctgagacaga tgcagcccgc ggggcaatca acgcccccat gacaaaagct
7021 ttggactgga gcgggacaag gtactgggct cccgatgcta ggaccacaac atacaatgca
7081 ggccgctttt ccacccctca accatcgggg gcactgccag gaagagctaa tctcagggat
7141 gctgtccctg ctcggggttc ctccagtaaa tcttctaact cttctactgc tacttctgtg
7201 cactcaaatc aaaccacttc aacgagactt ggttctacag ctggttctgg taccagtgtc
7261 tcgagcctcc cgtcaactgc aaggactagg agctgggtag aggatcaaag taggaatttg
7321 tcacctttca tgaggggggc ccacaacata tcgtttgtca ccccaccatc tagcagatcc
7381 tctagccaag gcacagtctc aaccgtgcct aaagaggttt tggactcctg gactggcgct
7441 ttcaacacgc acaggcagcc actcttcgct cacattcgta agcgagggga gtcacgggcg
7501 taa
//