Typing tool
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Typing tool
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Complete norovirus genomes
| MG002631 | GII.4 Sydney | |
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| GII.P16 |
ORF1: 1..5082
ORF2: 5063..6685
ORF3: 6685..7491
LOCUS MG002631 7522 bp RNA linear VRL 08-NOV-2017
DEFINITION Norovirus GII strain Hu/GII.P16_GII.4_Sydney2012/BNE2/2017/AU
polyprotein gene, partial cds; and major capsid protein and minor
structural protein genes, complete cds.
ACCESSION MG002631
VERSION MG002631.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norovirus norwalkense.
REFERENCE 1 (bases 1 to 7522)
AUTHORS Huang,B., McMahon,J., Hewitson,G. and Warrilow,D.
TITLE Characterization of norovirus strains from cases in Brisbane,
Queensland, Australia
JOURNAL Unpublished
REFERENCE 2 (bases 1 to 7522)
AUTHORS Huang,B., McMahon,J., Hewitson,G. and Warrilow,D.
TITLE Direct Submission
JOURNAL Submitted (26-SEP-2017) Public Health Virology, Forensic and
Scientific Services, 39 Kessels Road, Coopers Plains, Queensland
4108, Australia
COMMENT ##Assembly-Data-START##
Assembly Method :: Geneious v. 8.1
Sequencing Technology :: Illumina
##Assembly-Data-END##
FEATURES Location/Qualifiers
source 1..7522
/organism="Norovirus GII"
/mol_type="genomic RNA"
/strain="Hu/GII.P16_GII.4_Sydney2012/BNE2/2017/AU"
/isolation_source="feces"
/host="Homo sapiens"
/db_xref="taxon:122929"
/geo_loc_name="Australia"
/collection_date="11-Jul-2017"
/note="genotype: GII.P16_GII.4"
CDS <1..5082
/codon_start=1
/product="polyprotein"
/protein_id="ATL14556.1"
/translation="DATVAVACNNNNDKEKSSGEGLFTNMSSTLKKALGARPKQPAPR
DKSQKPPRPPTPELVKRIPPPPPNGEEGEEPVIRYEVKSGISGLPELTTVPQPDVANT
AFSVPPLSLRENREAKEPLTGAILEMWDGEIYHYGLYVEKGLVLGVHKPPAAISMARV
ELTPLSLYWRVVYTPQYLISPETLRRLNGEAFPYTAFDNNCYAFCCWVLDLNDSWLSR
RMVQRTTGFFRPYQEWNRKPLPTIDDSKIKKVANIFLCSLSTLFTRPIKDLIGKIKPL
NILNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPEDLAVE
LVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFPKKEE
ANELAMVRAIEDAVLDLEAIENNHMTTLLKDKDSLATYMKTLDMEEEKARRLSTKSAS
PDIVGTINALLARIAAARSLVHRAKEELSSRMRPVVVMISGKPGIGKTHLAREVARKV
ASTLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRIQELADTCPLTL
NCDRIENKGKVFDSEVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEKAKRD
FPGQPDMWKDAFKSDFSHIKLQLAPQGGFDKNGNTPHGKGVMKTLTTGSLIARASGLL
HERMDEFELQGPTITTFNFDRNRITAFRQLAAENKYGLVDTMKVGNQLKGVKTMEELK
QAIRNVTIKRCRIIYGGSTYDLESDGKGKVLVEKVKNTSVQTNNELAGALHHLKHARI
RYYVKCVQEAVYSIIQIAGAAFVTTRIARRMNIQELWSKPQLDQNESETKEEAPKSED
DEFIISSKDIKEEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKYSIEE
YLQDRDRYYEELAIAKATEEDFCEEEEIKIRQRIFRPTRKQRKEERATLGLVTGSEIR
KRNPDDFKPKGKLWADDNRSVDYNEKLDFEAPPSIWSRIVSFGSGWGFWVSPSLFITS
THVIPAGITEAFGVPIKQIQIHKSGEFCRFRFPKPIRPDVTGMILEEGAPEGTVATVL
IKRPTGELMPLAARMGTHATMKIQGRMVGGQMGMLLTGSNAKGMDLGTTPGDCGCPYI
YKRGNDYIVIGVHTAAARGGNTVICATQGSEGEATLEGGDDKGTYCGAPILGPGGAPK
LSTKTKFWRSSNTPLPPGTYEPAYLGGRDPRVKGGPSLQQVMRDQLKPFTEPRGKPPR
PSVLEAAKQTIINVLEQTLDPPQKWTYAQACASLDKTTSSGHPHHVRKNEFWNGETFT
SKLADQASKANLMFEEGKHMTPVYTAALKDELVKTEKIYGKIKKRLLWGSDLSTMIRC
ARSFGGLMDEMKAHCISLPVRVGMNMNEDGPIIFEKHSRYRYHYDADYSRWDSTQQRA
VLAAALEIMVRFSAEPQLAQIVAEDLLAPSVVDVGDFKITINEGLPSGVPCTSQWNSI
AHWLLTLCALSEVTKLSPDIIQANSMFSFYGDDEIVSTDIKLDPEQLTAKLKEYGLKP
TRPDKTEGPLIISKDLNGLTFLRRTVTRDPAGWFGKLDQSSILRQMYWTRGPNHEDPN
ETMIPHSQRPIQLMALLGEASLHGPSFYSKISKLVITELKEGGMDFYVPRQEPMFRWM
RFSDLSTWEGDRNLAPNFVNEDGVE"
CDS 5063..6685
/codon_start=1
/product="major capsid protein"
/protein_id="ATL14557.1"
/translation="MKMASSDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ
QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
FEVQVILAGNAFTAGKIIFAAVPPNFPTEGLSPSQVTMFPHIIVDVRQLEPVLIPLPD
VRNNFYHYNQSNDSTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT
QLSPVNICTFRGDVTHITGSHNYTMNLASQNWNNYDPTEEIPAPLGTPDFVGKIQGVL
TQTTRTDGSTRGHKATVYTGSADFAPKLGRVQFETDTNHDFEANQNTKFTPVGVIQDG
GTTHRNEPQQWVLPSYSGRNTHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD
CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV
IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRVV"
CDS 6685..7491
/codon_start=1
/product="minor structural protein"
/protein_id="ATL14558.1"
/translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA
SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQEMMKVKQAMLLEGGFSETDAARGAIN
APMTKALDWSGTRYWAPDARTTTHNAGRFSTLQSSGTLPGRINLRDAVPARGPPSKSS
NSSTVTSVYSNQTTSTRLGSTAGSGTSVSSLPSTARTRSWVEDQSRNLSPFMRGAHNI
SFVTPPSSRSSSQGTVSTVPKEILDSWTGAFNTRRQPLFAHIRRRGESRV"
ORIGIN
1 gacgctaccg ttgccgttgc ttgcaacaac aacaacgaca aggaaaaatc ttcaggtgaa
61 ggcttattca caaatatgtc ttccacctta aagaaagccc tcggggctag gcccaaacag
121 cctgccccga gagacaaatc acaaaagccc ccaagaccac caactcccga gttggtcaag
181 aggatacccc ctcctccgcc taatggcgaa gaaggagaag aaccagtcat taggtatgag
241 gttaagagtg ggatctctgg cctgcccgag ctcacaacag tcccccaacc ggacgtggcc
301 aacacagcat tcagcgttcc accactgagc ttgagagaaa acagggaggc caaggaaccg
361 ctaacagggg caatattaga gatgtgggat ggagagatat accactacgg tctgtacgtg
421 gagaaaggct tagtgttggg tgtgcacaaa ccacctgcag ccataagcat ggcaagagtg
481 gagctgacgc cgttgtcatt gtactggcgt gtggtgtaca ctccccaata cctcatctcc
541 cctgaaactc tcaggaggct caacggagag gcattccctt acaccgcctt tgacaacaac
601 tgctatgcct tttgctgctg ggtgttagac ctcaatgact catggcttag caggaggatg
661 gtgcaaagaa caacgggctt cttcagacct taccaagagt ggaatagaaa acccctgcct
721 accatagatg actccaaaat taaaaaggta gcaaacatat tcctatgttc attgtccaca
781 ttattcacca gacccataaa agacctcata ggaaaaatca aaccattaaa catattgaat
841 atcctggcaa cgtgtgactg gacgtttgcc ggaatagtgg agtctctgat attacttgct
901 gaactcttcg gagttttctg gacaccccca gatgtgtctg ctatgatcgc tcccttactc
961 ggggactacg agttgcaagg gccagaagac ctcgccgttg aactcgtgcc tgtggtaatg
1021 ggagggattg gtttggtgtt gggattcacc aaagagaaaa ttggcaaaat gttgtcctca
1081 gcagcatcaa cactcagggc ttgcaaagat cttggtgcct atggcttaga gatactcaaa
1141 ttggtcatga agtggttctt cccgaagaaa gaggaggcca atgagctagc catggtgagg
1201 gccatagagg atgctgtact agatcttgag gcaatagaaa ataaccacat gacaaccctg
1261 ttgaaagaca aagacagctt agcaacatac atgaaaacac tggacatgga ggaggagaaa
1321 gccagaaggt tgtccacaaa atctgcatcc cctgacatag tcgggacaat caacgccctg
1381 ctggctcgaa tagcagcggc caggtcatta gtccacaggg ccaaggaaga gctatctagc
1441 aggatgagac cagtggttgt tatgatatct ggcaaaccag gaataggaaa aactcatctg
1501 gccagggagg tggcaagaaa ggtggcatcc actctcacag gggaccaaag agtcggactc
1561 ataccaagaa acggtgtcga ccattgggat gcatacaaag gtgagagagt cgtgctgtgg
1621 gacgactatg gcatgagtaa ccccattcat gatgctctcc gcatacaaga gttggctgat
1681 acgtgtcccc ttaccttaaa ttgtgacaga attgaaaata agggaaaagt ttttgacagt
1741 gaagtcataa taattacaac aaacctcgcc aatccagccc cacttgatta cgtcaacttt
1801 gaggcctgtt ccaggagaat tgatttcctg gtgtacgctg aggcaccaga agtagaaaag
1861 gcaaaacggg actttcctgg tcagccagat atgtggaagg acgccttcaa gtcggacttt
1921 tcacacatca agctacagct tgcaccacag ggcggctttg acaagaatgg caacacccca
1981 catgggaaag gagtgatgaa gaccctcacc accggttctc tgattgcccg tgcatcaggc
2041 ctactgcacg agaggatgga tgaatttgaa ctccagggtc ccacaatcac caccttcaac
2101 ttcgaccgga acagaatcac agcattcaga caattggctg cagaaaacaa gtatggattg
2161 gtggatacca tgaaagttgg caatcaacta aaaggagtga aaaccatgga agaactcaaa
2221 caagcaatca ggaatgtgac cattaagagg tgccggatca tctacggtgg ttccacgtat
2281 gaccttgaat ctgatggcaa gggcaaagtt ctggtggaaa aggtcaagaa cacctctgta
2341 cagaccaaca acgagttggc cggggccctg caccatctca aacacgcccg aatcaggtac
2401 tatgtcaaat gtgtgcaaga agcagtctat tccatcatac aaattgccgg cgctgcgttt
2461 gtcaccacgc gcattgcacg ccgcatgaac atacaagaac tctggtcgaa gccacagtta
2521 gatcaaaatg aatcagagac taaggaagag gcccccaagt cagaagatga cgagttcatc
2581 atatcttcta aggacatcaa ggaagaagga aagaagggca aaaacaaaac tggccgtggc
2641 aagaaacaca ctgcattctc cagcaagggc ttgagcgatg aggagtatga cgagtacaag
2701 agaataagag aagagagaaa tgggaagtac tctatagagg agtatcttca agacagagac
2761 aggtactatg aggagctcgc cattgccaaa gccacggaag aagacttctg tgaagaggag
2821 gagatcaaaa tccgtcagag aattttccgt cccaccagga aacaacgaaa ggaagagagg
2881 gccacattag ggctagtaac aggttcagaa atcagaaaaa gaaaccctga tgacttcaaa
2941 cccaaaggga agctgtgggc cgatgataac agaagtgttg actacaatga gaaactggac
3001 tttgaggctc ctccaagcat atggtccagg attgtgagct ttggttctgg ctggggcttc
3061 tgggtatcac caagcctgtt tataacatct actcatgtaa tccccgcagg cataacagaa
3121 gcatttggag tccccatcaa acaaattcag atccacaaat caggtgaatt ttgccgattt
3181 agattcccaa aaccaattag accagatgtg acaggaatga tcttggaaga aggtgcgcct
3241 gagggcaccg tggcaactgt gctcatcaaa cgccccaccg gagagctcat gcctcttgca
3301 gctagaatgg gaactcacgc aaccatgaaa attcaaggcc gcatggttgg tggacagatg
3361 ggtatgttgc tcactggatc aaatgctaaa ggaatggatt taggaacaac tcctggtgac
3421 tgtggctgtc cttacatcta taaaaggggc aatgactata tagtcattgg ggtgcacact
3481 gcagcagccc gtggtggaaa caccgtcatc tgtgccacac agggaagtga gggtgaggca
3541 actcttgaag gtggagatga caaaggaaca tactgtgggg cacccattct aggtcctggg
3601 ggtgcaccaa aattgagcac caaaaccaaa ttttggaggt catcgaacac gccccttcca
3661 ccagggacat atgagcctgc ctacctcggt ggccgtgatc cgcgtgttaa gggtgggccc
3721 tccttgcaac aggtaatgag agaccaattg aagccattca ctgaacccag gggcaaacct
3781 ccaagaccaa gtgtattgga agcagccaaa caaaccatca tcaatgtcct cgaacaaacc
3841 ctggaccctc cacaaaaatg gacatatgca caggcgtgtg cctcacttga caaaaccacc
3901 tccagcgggc atccccatca cgtccgaaag aatgaattct ggaatggtga gaccttcact
3961 agcaaattgg cagaccaagc atcaaaagca aacttaatgt ttgaggaagg gaaacacatg
4021 acaccagtgt atacagcagc actcaaggac gagctagtca agactgagaa aatctatgga
4081 aagatcaaga agagactgct ctggggctct gacttgtcca ccatgatccg gtgcgctagg
4141 tcatttggtg ggctcatgga cgagatgaag gcacactgca tatcactccc agtccgagtc
4201 ggcatgaata tgaatgaaga tggcccaata atatttgaga aacattccag atacagatat
4261 cactatgatg cagactactc tcgttgggat tcaacacaac agagggcagt actagcagca
4321 gccttggaaa tcatggtcag attctctgca gaaccacaat tggcacaaat agtcgctgag
4381 gacctgctag cccccagtgt agtagatgtg ggagacttta aaataacaat aaatgaaggg
4441 ctcccctctg gtgtgccatg cacttctcaa tggaactcca tcgcacattg gctgctaact
4501 ctatgtgctt tgtctgaagt caccaaactg tcccctgaca ttatacaggc aaattccatg
4561 ttctcatttt acggtgatga cgagattgtc agcaccgaca taaaactgga ccctgaacag
4621 ctaaccgcta aattgaagga gtacggcctg aaaccaaccc gcccagacaa aaccgaggga
4681 cccctgatca tcagtaaaga tttgaacgga ctcactttcc tccggaggac ggtgactcgt
4741 gacccagctg gctggtttgg gaaactggat caaagctcaa ttttgaggca gatgtactgg
4801 actagaggac caaatcatga agaccccaat gagacaatga taccccattc tcaaagaccc
4861 atacagctca tggcactgct tggcgaagcc tctcttcacg gaccctcttt ttacagtaaa
4921 attagcaaat tggtcataac tgaactcaaa gaaggtggga tggactttta cgtgccaagg
4981 caggaaccca tgttcaggtg gatgaggttt tctgacttga gcacgtggga gggcgatcgc
5041 aatctggctc ccaattttgt gaatgaagat ggcgtcgagt gacgccaacc catctgatgg
5101 gtccgcagcc aacctcgtac cagaggtcaa caatgaggtt atggctttgg agcccgttgt
5161 tggtgccgct atcgcggcac ctgtagcggg ccaacaaaat gtaattgacc cctggattag
5221 aaataatttt gtacaggccc ctggtggaga gtttacagtg tcccctagaa acgctccagg
5281 tgaaatacta tggagcgcgc ccctaggccc tgacctgaat ccctacctat cccatttggc
5341 cagaatgtac aatggttatg caggtggttt tgaagtgcag gtaatcctcg cggggaacgc
5401 gttcaccgcc gggaagatta tatttgcagc agtcccacca aattttccaa ccgaaggctt
5461 aagtcctagc caggtcacta tgttccccca tataatagta gatgttagac aattagaacc
5521 tgtgctgatt cccttacccg atgttaggaa taatttctat cactataatc aatcaaatga
5581 ctccactatt aagttgatag caatgttata tacaccactt agggctaaca atgctgggga
5641 cgatgtcttc acagtttcgt gccgagttct cacgagacca tcccccgact ttgatttcat
5701 attcttagtg ccacccacag ttgagtcaag aaccaaacca ttctctgtcc cagtcttaac
5761 tgttgaggag atgaccaatt caagatttcc cattcctttg gaaaagttgt tcacgggccc
5821 cagcagtgcc tttgttgttc aaccacaaaa cggcaggtgc acaactgatg gcgtgctcct
5881 aggcaccacc caactgtctc ctgtcaacat ctgcaccttc agaggggacg tcacccacat
5941 cacaggtagt cacaactaca cgatgaattt ggcttctcaa aattggaaca attatgaccc
6001 aacagaagaa atccctgccc ctctaggaac tccagatttt gtggggaaga ttcaaggcgt
6061 gctcacccaa accacaagga cagatggttc aacacgcggc cacaaagcta cagtgtacac
6121 tgggagcgcc gactttgctc caaaactggg tagagttcaa tttgaaactg acacaaacca
6181 tgattttgag gccaaccaaa acacaaagtt caccccagtc ggtgtcatcc aagatggtgg
6241 caccacccac cgaaatgaac cccaacagtg ggtgctccca agttactcag gcagaaacac
6301 tcacaatgta catctggccc ccgctgtagc acccaccttt ccgggtgaac agcttctctt
6361 ctttagatcc accatgcccg gatgcagcgg gtaccccaac atggatttgg actgtctgct
6421 cccccaggaa tgggtacagt acttctacca agaggcagcc ccagcacaat ctgatgtggc
6481 tctgctaaga tttgtgaatc cagacacagg tagggttttg tttgaatgca agcttcacaa
6541 gtcaggctat gttacagtgg ctcacactgg ccaacatgat ttggttatcc cccccaatgg
6601 ttactttagg tttgattcct gggtcaacca gttctacaca cttgccccca tgggaaatgg
6661 aacggggcgt agacgtgtag tataatggct ggagctttct ttgctggatt ggcatctgat
6721 gtccttggct ctggacttgg ttcccttatc aatgctgggg ctggggccat caatcaaaaa
6781 gttgagtttg aaaataacag aaaattgcaa caagcatcct tccaatttag cagcaatctg
6841 caacaggctt cctttcaaca tgacaaagag atgctccaag cacaaattga ggccaccaaa
6901 aagttacaac aggaaatgat gaaggtcaag caggcaatgc tcctagaggg tgggttctct
6961 gagacagatg cagcccgcgg ggcaattaac gcccccatga caaaagctct agactggagc
7021 gggacaaggt attgggctcc cgatgctagg actacaacac acaatgcagg ccgcttttcc
7081 acccttcaat catcggggac attgccagga agaattaatc ttagggatgc cgttcctgct
7141 cggggacccc ccagtaaatc ttctaactct tctactgtca cctctgtgta ctcaaatcaa
7201 accacttcaa cgagacttgg ttctacagct ggttctggaa ccagtgtttc gagcctcccg
7261 tcgactgcaa ggactaggag ctgggttgag gaccaaagta ggaatttgtc acctttcatg
7321 aggggggccc acaacatatc atttgtcacc ccaccatcta gcaggtcctc tagccaaggc
7381 acagtctcaa ccgtgcctaa agagattttg gactcctgga ctggcgcttt taacacgcgc
7441 aggcagcctc tcttcgctca cattcgtagg cgaggggagt cacgggtgta atgtgaaaag
7501 acaaaattga ttacctttct tt
//