Typing tool
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Typing tool
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Complete norovirus genomes
| MT474041 | GII.4 Sydney | |
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| GII.P31 |
ORF1: 1..4926
ORF2: 4907..6529
ORF3: 6529..7335
LOCUS MT474041 7335 bp RNA linear VRL 15-MAY-2020
DEFINITION Norovirus GII isolate JH21 nonstructural polyprotein (ORF1) gene,
partial cds; and VP1 (ORF2) and VP2 (ORF3) genes, complete cds.
ACCESSION MT474041
VERSION MT474041.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7335)
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JOURNAL Unpublished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 7335)
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..7335
/organism="Norovirus GII"
/mol_type="genomic RNA"
/strain="Hu/GII.Pe_GII.4/JH21/2015/PA/BRA"
/isolate="JH21"
/isolation_source="stool"
/host="Homo sapiens"
/db_xref="taxon:122929"
/country="Brazil: Belem, PA"
/lat_lon="1.448822 S 48.473166 W"
/collection_date="02-May-2015"
/note="genotype: GII.PE/GII.4"
gene <1..4926
/gene="ORF1"
CDS <1..4926
/gene="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="QJT97664.1"
/translation="PPTPELVKKIPPPPPNGEDELVVSYSTKGGVSGLPELTTVRQPE
ETNTAFSVPPLNQRESRDAKEPLTGTIIEMWDGEIYHYGLYVERGLILGVHKPPAAIS
LAKVELTPLSLFWRPVYTPQYLISPDTLRRLHGESFPYTAFDNNCYAFCCWVLDLNDS
WLSRRMIQRTTGFFRPYQDWNRKPLPTMDDSKLKKVANIFLCTLSSLFTRPIKDIIGK
LKPLNILNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPED
LAVELVPIVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFP
KKEEANEMAMVRSIENAVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARKLST
KSASPDIVGTINSLLARIAAARSLVHRAKEELSSRPRPVVVMISGRPGIGKTHLAREL
AKKIAASLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTC
PLTLNCDRIENKGKVFDSDAIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEK
AKRDFPGQPDMWKNAFSPDFSHIKLSLAPQGGFDKNGNTPHGKGVMKTLTTGSLIARA
SGLLHERLDEYELQGPALTTFNFDRNKILAFRQLAAENKYGLMDTMRVGKQLKDVKTM
SDLKQALKNIAIKKCQIVYNGSTYTLEADGKGSVKVDKVQSATVQTNNELAGALHHLR
CARIRYYVKCVQEALYSIIQIAGAAFVTTRIAKRMNIQNLWSKPQVEDTEEMTNKDGC
LKPKDDEEFVVSSDDIKTEGKKGKNKSGRGKKHTAFSSKGLSDEEYDEYKRIREERNG
KYSIEEYLQDRDRYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGLV
TGSEIRKRNPEDFKPKGKLWADDDRSVDYNEKLNFEAPPSIWSRIVNFGSGWGFWVSP
SLFITSTHVIPQGAKEFFGVPIKQIQIHKSGEFCRLRFPKPIRTDVTGMILEEGAPEG
TVATLLIKRPTGELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGD
CGCPYIYKRGNDYVVIGVHTAAARGGNTVICATQGSEGEATLEGGDSKGTYCGAPILG
PGSAPKLSTKTKFWRSSTTPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKPFTEP
RGKPPRPNVLEAAKKTIINVLEQTIDPPQKWSFAQACASLDKTTSSGHPHHMRKNDCW
NGESFTGKLADQASKANLMFEEGKNMTPVYTGALKDELVKTDKVYGKIKKRLLWGSDL
ATMIRCARAFGGLMDELKAHCVTLPVRVGMNMNEDGPIIFEKHSRYRYHYDADYSRWD
STQQRDVLAAALEIMVKFSPEPHLAQVVAEDLLSPSVMDVGDFQISISEGLPSGVPCT
SQWNSIAHWLLTLCALSEVTDLSPDIIQANSLFSFYGDDEIVSTDIKLDPEKLTAKLK
EYGLKPTRPDKTEGPLVISEDLDGLTFLRRTVTRDPAGWFGKLEQSSILRQMYWTRGP
NHEDPFETMIPHSQRPIQLMSLLGEAALHGPAFYSKISKLVITELKEGGMDFYVPRQE
PMFRWMRFSDLSTWEGDRNLAPSFVNEDGVE"
mat_peptide <1..816
/gene="ORF1"
/product="p48"
mat_peptide 817..1914
/gene="ORF1"
/product="NTPase"
mat_peptide 1915..2451
/gene="ORF1"
/product="p22"
mat_peptide 2452..2850
/gene="ORF1"
/product="VPg"
mat_peptide 2851..3393
/gene="ORF1"
/product="Pro"
mat_peptide 3394..4923
/gene="ORF1"
/product="RdRp"
gene 4907..6529
/gene="ORF2"
CDS 4907..6529
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="QJT97665.1"
/translation="MKMASSDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ
QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
FEVQVILAGNAFTAGKVIFAAVPPNFPTEGLSPSQVTMFPHIVVDVRQLEPVLIPLPD
VRNNFYHYNQSNDPTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT
QLSPVNICTFRGDVTHITGSHNYTMNLASQNWNNYDPTEEIPAPLGTPDFVGKIQGVL
TQTTRTDGSTRGHKATLYTGSADFAPKLGRVQFETDTNHDFEANQNTKFTPVGVIQDG
STTHRNEPQQWVLPSYSGRNTHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD
CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV
IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRAV"
gene 6529..7335
/gene="ORF3"
CDS 6529..7335
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="QJT97666.1"
/translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVDFENNRKLQQA
SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQEMMKVKQAMLLEGGFSETDAARGAIN
APMTKALDWSGTRYWAPEARTTTYNAGRFSTPQPSGALPGRANLRDAVPARGSPSKSS
NSSTATSVYSNQTTSTRLGSTAGSGTSVSSLPSTARTRSWVEDQSRNLSPFMRGAHNI
SFVTPPSSRSSSQGTVSTVPKEVLDSWTGAFNTRRQPLFAHIRKRGESRA"
ORIGIN
1 ccacccacac cagaattggt caaaaagatc cctcctcccc cacccaacgg ggaggatgaa
61 ctagtggtct cttacagcac caaaggtggc gtttccggac tgcctgagct caccactgtc
121 agacaaccgg aagaaaccaa cacggcgttc agtgtccccc cactcaacca aagagagagc
181 agggacgcca aggagccact aactggaaca attattgaaa tgtgggatgg agaaatctac
241 cattacggcc tgtatgtgga acgaggtctt atacttggtg tgcacaaacc accggcagcc
301 atcagccttg ccaaggtcga gctaacacca ctctctttgt tttggagacc tgtatacacc
361 ccccagtatc tcatctctcc agacactctt aggagattac atggagagtc attcccctac
421 actgcatttg acaacaattg ctacgccttt tgttgttggg tattagacct aaacgactca
481 tggttaagca ggagaatgat tcagagaacg acaggtttct tcaggccgta ccaggattgg
541 aacaggaaac ccctccccac tatggatgat tccaaattaa agaaggtagc caacatattc
601 ttgtgcactt tgtcttcact attcaccaga cccatcaagg acataatagg gaagttgaaa
661 cctcttaaca tccttaacat tctggctaca tgtgattgga ccttcgcagg catagtggaa
721 tctttaatac tcttagcaga actctttgga gttttctgga cacccccaga cgtgtctgcg
781 atgatcgccc ccttgctagg tgattacgaa ctgcagggac ctgaggacct tgcagtggaa
841 ctggtcccaa tagtgatggg ggggataggt ttggtgctag gatttaccaa agagaaaatt
901 ggaaagatgc tatcatccgc tgcatccact ttaagagctt gtaaagatct tggtgcatac
961 gggctggaaa tcttaaaatt ggtcatgaag tggttcttcc caaagaaaga ggaagcaaat
1021 gaaatggcta tggtgagatc catcgagaac gcagtgctag acctcgaggc aattgaaaac
1081 aaccacatga ccaccctact taaggacaaa gacagcttgg caacctacat gagaaccctt
1141 gaccttgagg aggagaaagc cagaaaactc tcaaccaaat ctgcttcacc cgatattgtg
1201 ggcacaatca actctcttct agcaagaatc gctgctgcac gctccctagt gcatcgggcg
1261 aaagaagagc tctccagcag gccgagacct gtcgttgtga tgatatcggg aagaccaggg
1321 atagggaaaa ctcaccttgc cagggagctg gccaagaaga tcgcggcctc cctcacaggg
1381 gaccagcgtg tgggtcttat cccacgcaat ggtgtcgatc actgggacgc atacaagggc
1441 gaaagagttg tcctatggga cgactatgga atgagcaacc ccatccatga tgccctcagg
1501 ttgcaggagc ttgctgacac ttgccccctc acgctaaatt gtgacagaat tgagaacaaa
1561 gggaaagtct ttgatagtga tgccataatt atcaccacca atctggccaa cccagcacca
1621 ctggattatg tcaactttga agcgtgctcg agacgtattg acttcctcgt gtacgcagaa
1681 gcccctgagg tggagaaggc aaagcgcgac ttcccaggtc aacctgacat gtggaagaac
1741 gctttcagtc ctgacttctc acacataaaa ctgtcattgg ctccacaggg tggttttgac
1801 aagaacggca acaccccgca tggaaaaggg gtcatgaaga ccctcaccac tggctccctc
1861 atcgcccgag cgtcagggtt gctccatgag aggctagatg aatatgaact tcaaggccca
1921 gccctcacca ctttcaactt tgaccgcaac aagatacttg cttttagaca gcttgctgct
1981 gaaaacaagt atgggctgat ggacacaatg agagttggaa aacagctcaa ggatgttaag
2041 accatgtcag acctcaaaca ggcactcaag aacatcgcga tcaagaagtg ccagatagtg
2101 tacaatggta gcacctacac acttgaggcc gatggcaagg gtagtgtgaa agttgacaaa
2161 gtgcaaagtg ccactgtgca gaccaacaat gaactagccg gtgccctaca ccacctaagg
2221 tgcgctagaa tcaggtacta tgttaagtgc gtccaggagg cactgtattc catcatccaa
2281 atcgctgggg ccgcattcgt caccacgcgc atcgctaagc gcatgaatat acagaatctc
2341 tggtccaaac cacaggtgga agacacagaa gagatgacca ataaagatgg ttgcctaaaa
2401 cccaaagacg atgaagagtt tgtcgtctca tccgacgaca tcaaaactga gggcaagaaa
2461 gggaagaaca agtccggccg tggtaaaaag cacacagcct tctcaagcaa agggctcagt
2521 gatgaggaat acgatgagta caagagaatt agagaagaaa ggaatggtaa gtattccata
2581 gaagagtacc ttcaggacag agacaggtac tacgaggagg tggccattgc cagggcaacc
2641 gaagaggact tctgtgagga agaagaggcc aaaatccggc agagaatctt tagaccaaca
2701 aggaaacaac gcaaggaaga gagggcctct ctcggcttag tcacaggctc tgaaatcagg
2761 aagagaaacc cagaagactt caaacccaag ggaaagctgt gggctgatga tgacagaagt
2821 gttgactaca atgagaaact caattttgag gccccaccaa gcatctggtc gcggatagtc
2881 aactttggtt caggctgggg cttctgggtc tcccccagtc tgtttataac atcaacccat
2941 gtcatacccc aaggtgcaaa agagttcttc ggagtcccta tcaagcaaat tcagatacac
3001 aaatcaggtg aattctgccg attgagattc ccaaagccaa tcaggactga tgtgacgggc
3061 atgattctag aagaaggtgc gcctgagggg accgtggcca cactgctcat caagagacca
3121 actggagagc tcatgccact ggcagccaga atggggaccc atgcaaccat gaaaattcag
3181 gggcgcacag ttggagggca aatgggtatg ctcctgacag gatccaacgc caagagcatg
3241 gacctaggca caacaccagg cgattgcggc tgcccctaca tctacaagag ggggaatgac
3301 tacgtggtca taggagtcca tacggccgct gcccgtggag gaaacactgt catatgtgcc
3361 acccagggga gtgagggaga agccacactt gaaggaggtg acagtaaagg gacatactgt
3421 ggcgcaccaa tcttgggccc agggagcgct ccgaagctca gtaccaagac taagttttgg
3481 agatcatcca caacaccact cccacctggc acctacgaac cagcctacct cggtggtaaa
3541 gaccccagag ttaaaggtgg cccttcattg caacaagtta tgagggacca gctaaagcca
3601 ttcacagaac ccagaggcaa accaccaaga ccaaatgtgt tggaagctgc caagaaaacc
3661 atcatcaatg tccttgagca aacaattgac ccaccccaaa aatggtcatt tgcgcaagct
3721 tgcgcatccc ttgacaaaac cacctccagc ggccacccgc accacatgcg gaaaaacgat
3781 tgttggaatg gggaatcctt cacgggaaaa ttggctgatc aagcctccaa ggccaaccta
3841 atgtttgaag agggaaagaa catgactcca gtttacacag gtgcacttaa agatgagttg
3901 gtaaagaccg ataaagttta tggtaagatc aagaagaggc ttctgtgggg ttcagacctg
3961 gcgaccatga tacggtgcgc ccgagctttc ggaggcctta tggatgaact caaggcgcac
4021 tgtgtcacac ttcctgtcag agttggtatg aacatgaatg aggatggccc catcatcttt
4081 gagaagcact ccaggtatag ataccactat gatgctgact attcccggtg ggactcaaca
4141 cagcaaaggg atgtgctagc agcagcacta gaaatcatgg ttaagttctc tccagaacca
4201 cacctggccc aggtagttgc agaagacctc ctttccccta gcgtgatgga tgtaggtgac
4261 tttcaaatat caataagtga gggtcttccc tctggggtac cttgtacttc ccagtggaat
4321 tccatcgccc actggctcct cactctttgt gcactctctg aagtcacgga tctgtcccct
4381 gacatcatcc aggccaactc ccttttctcc ttttatggtg atgatgagat tgtaagcaca
4441 gacataaagt tggacccaga gaagctgaca gcaaaactca aggagtacgg gttgaaacca
4501 acccgccccg acaaaactga gggacccctt gttatctctg aagacctgga tggcctgaca
4561 ttcctccgga gaactgtgac ccgtgatccg gctggctggt ttggaaaatt ggaacaaagt
4621 tcaattctca gacaaatgta ctggaccagg ggtcccaacc atgaagatcc atttgaaaca
4681 atgataccac actcccaaag acccatacaa ctgatgtcct tgctgggcga ggctgcactc
4741 cacggcccgg cattttatag caaaatcagc aaattagtca ttacagagtt gaaggaaggt
4801 ggcatggatt tttacgtgcc cagacaagag ccaatgttca gatggatgag attctcagat
4861 ctgagcacgt gggagggcga tcgcaatctg gctcccagtt ttgtgaatga agatggcgtc
4921 gagtgacgcc aacccatctg atgggtccgc agccaacctc gtcccagagg tcaacaatga
4981 ggttatggct ctggagcccg ttgttggtgc cgccattgcg gcacctgtag cgggccagca
5041 aaatgtaatt gacccctgga ttagaaataa ttttgtacaa gcccctggtg gagagtttac
5101 agtatcccct agaaacgctc caggtgaaat actatggagc gcacccttgg gccctgatct
5161 aaatccctac ctatcccatc tggccagaat gtacaatggt tatgcaggtg gttttgaagt
5221 gcaggtaatt ctcgcgggga acgcgttcac cgccgggaag gtcatttttg cagcagtccc
5281 accaaatttt ccaactgaag gcttgagccc cagccaggtc actatgttcc cccatatagt
5341 agtagatgtt aggcaactag aacctgtgtt gattccttta cccgatgtta ggaataattt
5401 ctatcattat aatcaatcaa atgaccccac cattaagttg atagcaatgt tgtatacacc
5461 acttagggct aataatgctg gggatgatgt cttcacagtt tcttgccggg ttctcacgag
5521 accatccccc gattttgatt tcatatttct agtgccaccc acagttgagt caagaactaa
5581 accattctct gtcccagttt taactgttga ggagatgacc aattcaagat tccccattcc
5641 tttggaaaag ttgttcacgg gtcccagcag tgcctttgtt gtccaaccac aaaacggcag
5701 gtgcacgact gatggcgtgc tcctaggcac cactcaactg tctcctgtca acatctgtac
5761 cttcagagga gatgtcaccc atatcacagg tagtcataac tacacaatga atttggcttc
5821 acaaaattgg aacaattatg acccaacaga agaaatccca gcccctctag gaactccaga
5881 ctttgtgggg aagattcaag gcgtgctcac tcaaaccaca agaacagatg gctcaacacg
5941 cggccacaaa gccacattgt acactgggag cgccgacttt gctccaaaac tgggtagagt
6001 tcaatttgaa actgacacaa accatgattt tgaagccaac caaaacacaa agttcacccc
6061 agtcggtgtc atccaagatg gtagcaccac ccaccgaaat gaaccccaac agtgggtgct
6121 cccaagttac tcaggcagaa atactcataa tgtgcatctg gcccccgctg tagcccccac
6181 ttttccgggt gagcaacttc tcttcttcag atccaccatg cccggatgca gcgggtaccc
6241 caacatggat ttggactgtc tgctccccca ggaatgggtg cagtacttct accaagaggc
6301 agccccagca caatctgatg tggctctgct aagatttgtg aatccagaca caggtagggt
6361 tttgtttgag tgtaagcttc ataaatcagg ctatgttaca gtggctcaca ctggccaaca
6421 tgatttggtt attcccccca atggttattt tagatttgat tcctgggtca accagttcta
6481 cacgcttgcc cccatgggaa atggaacggg gcgtagacgt gcagtataat ggctggagct
6541 ttctttgctg gattggcatc tgatgtccta ggctctggac ttggttccct tatcaatgct
6601 ggggctgggg ccatcaacca aaaagttgat tttgaaaata acagaaaatt gcaacaggca
6661 tccttccaat ttagcagcaa tttacaacag gcttcctttc aacatgacaa agagatgctc
6721 caagcacaaa ttgaggccac caaaaagcta caacaggaaa tgatgaaagt taagcaggca
6781 atgctcctag agggtgggtt ctctgagaca gatgcagccc gcggggcaat caacgccccc
6841 atgacaaaag ctttggactg gagcgggaca aggtactggg ctcccgaagc taggaccaca
6901 acatacaatg caggccgctt ttccacccct caaccatcgg gggcactgcc aggaagagct
6961 aatcttaggg atgctgtccc tgctcggggt tcccctagta aatcttctaa ctcttccact
7021 gctacttctg tgtactcaaa tcaaaccact tcaacgagac ttggttctac agctggttct
7081 ggcaccagtg tctcgagcct cccgtcaact gcaaggacca ggagctgggt tgaggatcaa
7141 agtaggaatt tgtcaccttt catgaggggg gcccacaaca tatcgtttgt caccccacca
7201 tctagcagat cctctagcca aggcacagtc tcaaccgtgc ctaaagaggt tttggactcc
7261 tggactggcg ctttcaacac gcgcaggcag ccactcttcg ctcacattcg taagcgaggg
7321 gagtcacggg cgtaa
//