Typing tool
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Typing tool
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Complete norovirus genomes
| MT474038 | GII.4 Sydney | |
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| GII.P31 |
ORF1: 1..5094
ORF2: 5075..6697
ORF3: 6697..7503
LOCUS MT474038 7503 bp RNA linear VRL 15-MAY-2020
DEFINITION Norovirus GII isolate JH16 nonstructural polyprotein (ORF1) gene,
partial cds; and VP1 (ORF2) and VP2 (ORF3) genes, complete cds.
ACCESSION MT474038
VERSION MT474038.1
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JOURNAL Unpublished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/JH16/2014/PA/BRA"
/isolate="JH16"
/isolation_source="stool"
/host="Homo sapiens"
/db_xref="taxon:122929"
/country="Brazil: Belem, PA"
/lat_lon="1.448822 S 48.473166 W"
/collection_date="10-Jan-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="QJT97655.1"
/translation="MASNDASAAAVANSNNDITKSSSDGVFSNMAVTFKRALGARPKQ
PPPKEIPPRPPRPPTPELAKKIPPPPPNGEDELVVSYSAKDGVSGLPDLTTVRQPEET
NTAFSVPPLNQRESRDAKEPLTGTIIEMWDGEIYHYGLYVERGLILGVHKPPAAISLA
KVELAPLSLFWRPVYTPQYLISPDTLRRLHGESFPYTAFDNNCYAFCCWVLDLNDSWL
SRRMIQRTTGFFRPYQDWNRKPLPTMDDSKLKKVANIFLCTLSSLFTRPIKDIIGKLK
PLNILNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPEDLA
VELVPIVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFPKK
EEANELAMVRSIEDAVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARKLSTKS
ASPDIVGTINSLLARIAAARSLVHRAKEELSSRPRPVVVMISGRPGIGKTHLARELAK
KIAASLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTCPL
TLNCDRIENKGKVFDSDAIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEKAK
RDFPGQPDMWKNAFSPDFSHIKLSLAPQGGFDKNGNTPHGKGVMKTLTTGSLIARASG
LLHERLDEYELQGPALTTFNFDRNKILAFRQLAAENKYGLMDTMRVGKQLKDVKTMSD
LKQALKNIAIKKCQIVYNGSTYTLEADGKGSVKVDKVQSATVQTNNELAGALHHLRCA
RIRYYVKCVQEALYSIIQIAGAAFVTTRIAKRMNIQNLWSKPQVEDTEEMTNKDGCLK
PKDDEEFVVSSDDIKTEGKKGKNKSGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKY
SIEEYLQDRDRYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGLVTG
SEIRKRNPEDFKPKGKLWADDDRSVDYNEKLNFEAPPSIWSRIVNFGSGWGFWVSPSL
FITSTHVIPQGAKEFFGVPIKQIQIHKSGEFCRLRFPKPIRTDVTGMILEEGAPEGTV
ATLLIKRPTGELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGDCG
CPYIYKRGNDYVVIGVHTAAARGGNTVICATQGSEGEATLEGGDSKGTYCGAPILGPG
SAPKLSTKTKFWRSSTTPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKPFTEPRG
KPPRPNVLEAAKKTIINVLEQTIDPPQKWSFVQACASLDKTTSSGHPHHMRKNDCWNG
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="QJT97656.1"
/translation="MKMASSDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ
QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
FEVQVILAGNAFTAGKVIFAAVPPNFPTEGLSPSQVTMFPHIVVDVRQLEPVLIPLPD
VRNNFYHYSQSNDPTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP
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="QJT97657.1"
/translation="MAGVFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA
SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQEMMRVKQAMLLEGGFSETDAARGAIN
APMTKALDWSGTRYWAPDTRTTTYNAGRFSTPQPSGALPGRANLRDAVPARGSSSKPS
NSSIATSVYSNQTTSTRLGSTAGSGTSVSSLPSTARTRSWVEDQSRNLSPFMRGAHNI
SFVTPPSSRSSSQGTVSTVPKEVLDSWTGAFNTRRQPLFAHIRKRGESRA"
ORIGIN
1 atggcgtcta acgacgcttc cgctgccgct gttgccaaca gcaacaacga catcacaaaa
61 tcttcaagtg acggtgtgtt ttctaacatg gctgtcactt ttaagcgggc cctcggggcg
121 cggcctaaac agccgccccc gaaggagata ccacccagac ccccgcgacc acccacacca
181 gaattggcca aaaagatccc tcctccccca cccaacgggg aggatgaact agtggtttct
241 tacagcgcca aagatggcgt ttccggactg cctgatctca ccactgtcag acaaccggaa
301 gaaaccaaca cggcgttcag cgtcccccca ctcaaccaaa gggagagcag ggacgccaag
361 gagccactaa ctggaacaat tattgaaatg tgggatggag aaatctacca ttacggcctg
421 tacgtggaac gaggtcttat acttggtgtg cacaagccac cggcagccat cagcctcgcc
481 aaggtcgagc tagcaccgct ctctttgttc tggagacctg tatacacccc ccagtatctc
541 atctctccag atactcttag gagactacat ggagagtcat tcccctacac tgcatttgac
601 aacaattgct acgccttttg ttgttgggta ttagacctaa acgactcatg gctaagcagg
661 agaatgattc agagaacaac aggtttcttc aggccgtacc aggattggaa caggaaaccc
721 ctccccacta tggatgattc caaattaaag aaggtggcca acatattctt gtgcactttg
781 tcttcattat tcaccagacc cattaaggac ataataggga agttgaaacc tcttaacatc
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 aagagcttgt aaagaccttg gtgcatacgg actggaaatc
1141 ttaaaattgg tcatgaagtg gttcttccca aagaaagagg aagcaaatga actggctatg
1201 gtgagatcca tcgaggatgc agtactagac ctcgaggcaa ttgaaaacaa ccacatgacc
1261 accctactca aagacaaaga cagcttggca acctacatga gaacccttga ccttgaggag
1321 gagaaagcca gaaaactctc aaccaaatct gcttcacccg atattgtggg cacaatcaac
1381 tctcttctgg caagaatcgc tgctgcacgc tccctagtgc atcgggcgaa agaagagctc
1441 tccagcaggc cgagacctgt ggttgtgatg atatcgggga gaccagggat agggaaaact
1501 caccttgcca gggagctggc caagaagatc gcggcctccc tcacagggga ccagcgtgtg
1561 ggtcttatcc cacgcaatgg tgtcgatcac tgggacgcat acaaaggcga aagagttgtc
1621 ctatgggatg actatggaat gagcaacccc atccatgatg ccctcaggtt gcaggagctt
1681 gctgacacct 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 tcagggttac tccatgagag gctagatgaa tatgaactgc aaggcccagc cctcaccact
2101 ttcaactttg accgaaacaa gatacttgct tttagacagc 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 actagccggt gccctacacc acctaaggtg cgctagaatc
2401 agatactatg tcaagtgcgt ccaggaggca ctgtattcca tcatccaaat cgctggggct
2461 gcattcgtca ccacgcgcat cgctaagcgc atgaatatac agaatctctg gtccaagcca
2521 caggtggaag acacagaaga gatgaccaac aaagatggtt gcctaaaacc caaagatgat
2581 gaagagtttg ttgtctcatc cgacgacatc aaaactgagg gcaagaaagg gaagaacaag
2641 tccggccgtg gcaagaagca cacagccttt tcaagcaaag ggctcagtga tgaggagtac
2701 gatgagtaca agagaatcag agaagaaagg aatggtaagt actccataga agagtacctt
2761 caggacagag acaggtacta cgaggaggtg gccattgcca gggcaaccga agaggacttc
2821 tgtgaagaag aggaggccaa 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 ccccagtctg tttataacat caacccatgt cataccccaa
3121 ggtgcaaaag agttcttcgg agtccctatc aagcaaatcc agatacacaa atcaggtgaa
3181 ttctgccggt tgagattccc aaagccaatc agaactgatg tgacgggcat gattctagaa
3241 gaaggtgcgc ccgaggggac cgtggccaca ctgctcatca agagaccaac tggagagctc
3301 atgcctctgg cagccagaat ggggacccat gcaaccatga aaattcaggg gcgcacagtt
3361 ggagggcaaa tgggtatgct cctgacaggc tccaacgcca agagtatgga cctaggcaca
3421 acaccaggcg actgcggctg cccctacatc tacaagaggg ggaatgacta cgtggtcata
3481 ggagtccata cggccgctgc ccgtggagga aacactgtca tatgtgccac ccagggaagt
3541 gagggagaag ccacacttga aggaggtgac agtaaaggga catactgtgg cgcaccaatc
3601 ttgggcccag ggagcgctcc gaagctcagt accaagacca agttttggag atcatccaca
3661 acaccactcc cacctggcac ctacgaacca gcctacctcg gtggcaaaga ccccagagtc
3721 aaaggtggcc cttcattgca acaagttatg agggaccagc taaagccatt cacagaaccc
3781 agaggcaaac caccaagacc aaatgtgttg gaagctgcca agaaaaccat catcaatgtc
3841 cttgagcaaa caattgatcc accccaaaaa tggtcatttg tgcaggcttg cgcatccctt
3901 gacaaaacca catccagcgg ccacccgcac cacatgcgga aaaacgattg ttggaatggg
3961 gagtccttca caggaaaatt ggctgatcaa gcctccaagg ccaacctaat gtttgaagag
4021 ggaaagaaca tgactccagt ctacacaggt gcacttaaag atgagttggt aaagaccgat
4081 aaagtttatg gtaagatcaa gaagaggctc ctgtggggtt cagatctggc gaccatgata
4141 cgatgcgccc gagcttttgg aggccttatg gatgaactca aggcgcactg tgtcacactt
4201 cccgtcagag ttggtatgaa catgaatgag gatggcccca tcatctttga gaagcactcc
4261 agatatagat atcactatga tgctgattat tcccggtggg actcaacaca acaaagggat
4321 gtactagcag cagcactaga aatcatggtt aagttctctc cagaaccaca cctggcccag
4381 gtagttgcag aagacctcct ttcccctagc gtgatggatg taggtgactt tcaaatatca
4441 ataagtgagg gtcttccctc tggggtacct tgtacctccc agtggaattc catcgcccac
4501 tggctcctca ctctttgtgc actctctgaa gtcacggacc tgtcccctga tatcattcag
4561 gccaactccc ttttctcctt ctatggtgat gatgagattg taagcacaga cataaagttg
4621 gacccagaga agctgacagc aaaactcaag gagtacgggc tgaaaccaac ccgccccgac
4681 aaaactgaag gaccccttgt tatctctgaa gacctggatg gcctgacatt cctccggaga
4741 actgtgaccc gtgatccagc tggctggttt ggaaaattgg aacaaagttc aattctcaga
4801 caaatgtatt ggaccagggg tcctaaccat gaagatccat ttgaaacaat gataccacac
4861 tcccaaagac ccatacagtt 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 gcccttgggc cctgatctaa atccctacct
5341 atcccatttg gccagaatgt acaatggtta tgcaggtggt tttgaagtgc aggtaattct
5401 cgcggggaac gcgttcaccg ccgggaaggt catatttgca gcagtcccac caaattttcc
5461 aactgaaggc ttgagcccca gccaggtcac tatgttcccc catatagtag tagatgttag
5521 gcaactagaa cctgtgttga ttcccttacc cgatgttagg aataatttct atcattatag
5581 tcaatcaaat gaccccacca ttaagttgat agcaatgttg tatacaccac ttagggctaa
5641 taatgctggg gatgatgtct tcacagtttc ttgccgagtt cttacgagac catcccccga
5701 ttttgatttc atatttctag tgccacccac agttgaatca agaactaaac cattttctgt
5761 cccagtttta actgttgagg agatgaccaa ttcaagattc cccattcctt tggaaaagtt
5821 gttcacgggt cccagcagtg cctttgttgt ccaaccacaa aacggcaggt gcacgactga
5881 tggcgtgctc ctaggcacca cccaactgtc tcctgtcaac atctgcacct tcagaggaga
5941 tgtcacccac atcacaggca gtcgtaacta cacaatgaat ttggcttctc aaaattggaa
6001 caattacgac ccaacagaag aaatcccagc ccctctagga actccagact ttgtggggaa
6061 gattcaaggc gtgctcaccc aaaccacaag gacagatggt tcaacacgcg gccacaaagc
6121 cacagtgtac actgggagcg ccgactttgc tccaaaactg ggtagagttc aatttgaaac
6181 tgacacagac catgattttg aagctaacca aaacacaaag ttcaccccag tcggtgtcat
6241 ccaagatggt agcaccaccc accgaaatga accccaacag tgggtgctcc caagttactc
6301 aggcagaaac actcataatg tgcatctggc ccccgctgta gcccccactt ttccgggtga
6361 gcaactcctc ttcttcagat ccaccatgcc cggatgcagc gggtacccca acatggattt
6421 ggactgtctg ctcccccagg aatgggtgca gtacttctac caagaggcag ccccagcaca
6481 atctgatgtg gctctgctga gatttgtgaa tccagacaca ggtagggttt tgtttgagtg
6541 taagcttcat aaatcaggct atgttacagt ggctcacact ggccaacatg atttggttat
6601 tccccccaat ggttatttta gatttgattc ctgggtcaac cagttctaca cgcttgcccc
6661 catgggaaat ggaacggggc gtagacgtgc agtataatgg ctggagtttt ctttgctgga
6721 ttggcatctg atgtccttgg ctctggactt ggttccctta tcaatgctgg ggctggggcc
6781 atcaaccaaa aagttgaatt tgaaaataac agaaaattgc aacaagcatc cttccaattt
6841 agcagcaatc tacaacaggc ttcctttcaa catgacaaag agatgctcca agcacaaatt
6901 gaggccacca aaaagctaca acaggaaatg atgagagtta agcaggcaat gctcctagag
6961 ggtgggttct ctgagacaga tgcagcccgc ggggcaatca acgcccccat gacaaaagct
7021 ttggactgga gcgggacaag gtactgggct cccgatacta ggactacaac atacaatgca
7081 ggccgctttt ccacccctca gccatcgggg gcactgccag gaagagctaa tcttagggat
7141 gctgtccctg ctcggggttc ctccagtaaa ccttctaact cttctattgc tacttctgtg
7201 tactcaaatc aaactacttc aacgagactt ggttctacag ctggttctgg caccagtgtc
7261 tcgagtctcc catcaactgc aaggactagg agctgggttg aggatcaaag taggaatttg
7321 tcacctttca tgaggggggc ccacaacata tcgtttgtca ccccaccatc tagcagatcc
7381 tctagccaag gcacagtctc aaccgtgcct aaagaggttt tggactcctg gactggcgct
7441 ttcaacacgc gcaggcagcc actcttcgct cacattcgta agcgagggga gtcacgggca
7501 taa
//