Typing tool
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Typing tool
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Complete norovirus genomes
| MG002630 | GII.4 Sydney | |
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| GII.P16 |
ORF1: 1..5083
ORF2: 5064..6686
ORF3: 6686..7492
LOCUS MG002630 7539 bp RNA linear VRL 03-NOV-2017
DEFINITION Norovirus GII strain Hu/GII.P16_GII.4_Sydney2012/BNE1/2017/AU
polyprotein gene, partial cds; and major capsid protein and minor
structural protein genes, complete cds.
ACCESSION MG002630
VERSION MG002630.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norovirus norwalkense.
REFERENCE 1 (bases 1 to 7539)
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JOURNAL Unpublished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 7539)
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..7539
/organism="Norovirus GII"
/mol_type="genomic RNA"
/strain="Hu/GII.P16_GII.4_Sydney2012/BNE1/2017/AU"
/isolation_source="feces"
/host="Homo sapiens"
/db_xref="taxon:122929"
/geo_loc_name="Australia"
/collection_date="19-May-2017"
/note="genotype: GII.P16_GII.4"
CDS <1..5083
/codon_start=2
/product="polyprotein"
/protein_id="ATL14553.1"
/translation="DATVAVACNNNNDKEKSSGEGLFTNMSSTLKKALGARPKQPAPR
NESQKPPRPPTPELVKRIPPPPPNGEEEEEPVIRYEVKSGISGLPELTTVPQPDVANT
AFSVPPLSLRENREAKEPLTGAILEMWDGEIYHYGLYVEKGLVLGVHKPPAAISMARV
ELTPLSLYWRVVYTPQYLISPETLRRLNGEAFPYTAFDNNCYAFCCWVLDLNDSWLSR
RMVQRTTGFFRPYQEWNRKPLPTMDDSKIKKVANIFLCSLSTLFTRPIKDLIGKIKPL
NILNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPEDLAVE
LVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFPKKEE
ANELAMVRAIEDAVLDLEAIENNHMTTLLKDKDSLATYMKTLDMEEEKARRLSTKSAS
PDIVGTINALLARIAAARSLVHRAKEELSSRMRPVVVMISGKPGIGKTHLAREVARKV
ASTLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRIQELADTCPLTL
NCDRIENKGKVFDSEVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEKAKRD
FPGQPDMWKDAFKSDFSHIKLQLAPQGGFDKNGNTPHGKGVMKTLTTGSLIARASGLL
HERMDEFELQGPTITTFNFDRNRITAFRQLAAENKYGLVDTMKVGNQLKGVKTMEELK
QAIRNVTIKRCRIIYGGSTYYLESDGKGKVLVEKVKNTSVQTNNELAGTLHHLKHARI
RYYVKCVQEAVYSIIQIAGAAFVTTRIARRMNIQELWSKPQLDQNESETKEETPKSED
DEFIISSKDIKEEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKYSIEE
YLQDRDRYYEELAIAKATEEDFCEEEEIKIRQRIFRPTRKQRKEERATLGLVTGSEIR
KRNPDDFKPKGKLWADDNRSVDYNEKLDFEAPPSIWSRIVSFGSGWGFWVSPSLFITS
THVIPAGITEAFGVPIKQIQIHKSGEFCRFRFPKPIRPDVTGMILEEGAPEGTVATVL
IKRPTGELMPLAARMGTHATMKIQGRMVGGQMGMLLTGSNAKGMDLGTTPGDCGCPYI
YKRGNDYIVIGVHTAAARGGNTVICATQGSEGEATLEGGDDKGTYCGAPILGPGGAPK
LSTKTKFWRSSNTPLPPGTYEPAYLGGRDPRVKGGPSLQQVMRDQLKPFTEPRGKPPR
PSVLEAAKQTIINVLEQTLDPPQKWSYAQACASLDKTTSSGHPHHVRKNEFWNGETFT
GKLADQASKANLMFEEGKHMTPVYTAALKDELVKTEKIYGKIKKRLLWGSDLSTMIRC
ARSFGGLMDEMKAHCITLPVRVGMNMNEDGPIIFEKHSRYKYHYDADYSRWDSTQQRA
VLAAALEIMVRFSAEPQLAQIVAEDLLAPSVVDVGDFKITINEGLPSGVPCTSQWNSI
AHWLLTLCALSEVTKLSPDIIQANSMFSFYGDDEIVSTDIKLDPEQLTAKLKEYGLKP
TRPDKTEGPLIISEDLNGLTFLRRTVTRDPAGWFGKLDQSSILRQMYWTRGPNHEDPN
ETMIPHSQRPIQLMALLGEASLHGPSFYSKISKLVITELKEGGMDFYVPRQEPMFRWM
RFSDLSTWEGDRNLAPNFVNEDGVE"
CDS 5064..6686
/codon_start=1
/product="major capsid protein"
/protein_id="ATL14554.1"
/translation="MKMASSDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ
QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
FEVQVILAGNAFTAGKIIFAAVPPNFPTEGLSPSQVTMFPHIIVDVRQLEPVLIPLPD
VRNNFYHYNQSNDSTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT
QLSPVNICTFRGDVTHITGSRNYTMNLASQNWNNYDPTEEIPAPLGTPDFVGKIQGML
TQTTRTDGSTRGHKATVYTGSADFAPKLGRVQFETDTDHDFEANQNTKFTPVGVIQDG
STTHRNEPQQWVLPSYSGRNTHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD
CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV
IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRVV"
CDS 6686..7492
/codon_start=1
/product="minor structural protein"
/protein_id="ATL14555.1"
/translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA
SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQEMMRVKQAMLLEGGFSETDAARGAIN
APMTKALDWSGTRYWAPDARTTTYNAGRFSTPQPSGALPGRANLRDAVPARGPSNKSS
NSSTATSVYSNQTISTRLGSTAGSGTSVSSLPSTARTRSWVEDQSRNLSPFMRGAHNI
SFVTPPSSRSSSQGTVSTVPKEILDSWTGAFNTRRQPLFAHIRTRGESRV"
ORIGIN
1 cgacgctacc gttgccgttg cttgcaacaa caacaacgac aaggaaaaat cttcaggtga
61 aggcttattc acaaatatgt cttccacctt aaagaaagcc ctcggggcta ggcccaaaca
121 gcctgccccg agaaacgaat cacaaaagcc cccaagacca ccaactcccg agttggtcaa
181 gaggataccc cctcctccac ctaatggcga agaagaagaa gaaccagtca ttaggtatga
241 ggttaagagt gggatctctg gcctgcccga gctcacaaca gtcccccaac cggacgtggc
301 caacacagca ttcagtgtcc caccactgag cttgagagaa aacagggagg ccaaggaacc
361 gctaacaggg gcaatattag agatgtggga tggagagata taccactacg gcctgtacgt
421 ggagaaaggc ttagtgttgg gtgtgcacaa accacctgca gccataagca tggcaagagt
481 ggagctgaca ccgctgtcat tgtactggcg tgtggtgtac actccccaat acctcatctc
541 ccctgaaact ctcaggaggc tcaacggaga ggcattccct tacaccgcct tcgacaacaa
601 ctgctatgcc ttttgctgct gggtgttgga cctcaatgac tcatggctta gcaggaggat
661 ggtgcaaaga acaacgggct tcttcagacc ttaccaagag tggaacagaa aacccctgcc
721 taccatggat gactccaaaa ttaagaaggt agcaaatata ttcctatgtt cattgtccac
781 attattcacc agacccataa aagacctcat aggaaaaatt aaaccattaa acatattgaa
841 catcctggca acgtgtgact ggacgtttgc cggaatagtg gagtctctga tattacttgc
901 tgaactcttc ggagttttct ggacaccccc agatgtgtct gctatgatcg ctcccttact
961 cggggactac gagttgcaag ggccagaaga cctcgccgtt gaactcgtac ctgtggtaat
1021 gggagggatt ggtttggtgt tgggattcac caaagagaaa attggcaaaa tgttgtcctc
1081 agcagcatca acactcaggg cttgcaaaga tcttggtgcc tatggcttag agatactcaa
1141 attggtcatg aagtggttct tcccaaagaa agaggaggcc aatgagctag ccatggtgag
1201 ggccatagag gatgccgtac tagatcttga ggcaatagaa aataaccaca tgacaaccct
1261 gttgaaagac aaagacagct tagcaacata catgaaaaca ctggacatgg aggaggagaa
1321 agccagaagg ttgtccacaa aatctgcatc ccctgacata gttgggacaa tcaacgctct
1381 gctggctcga atagcagcgg ccaggtcatt agtccacagg gccaaggaag agctatctag
1441 caggatgaga ccagtagttg ttatgatatc tggtaaacca ggaataggca aaactcatct
1501 ggccagggag gtggcaagaa aggtggcatc cactctcaca ggggatcaaa gagtcggact
1561 cataccaaga aacggtgtgg accattggga tgcatacaaa ggtgagagag tcgtgctgtg
1621 ggacgactat ggcatgagta accccattca tgatgctctt cgcatacaag aattggctga
1681 tacgtgtccc cttaccttaa attgtgacag aattgaaaat aagggaaaag tttttgacag
1741 tgaagtcata ataattacaa caaaccttgc caacccagcc ccactcgatt atgtcaactt
1801 tgaggcctgt tccaggagaa ttgattttct ggtgtacgct gaggcaccag aagtggaaaa
1861 ggcaaaacgg gactttcctg gtcagccaga tatgtggaag gacgccttca agtcggactt
1921 ttcacacatc aagctacagc ttgcacctca gggcggcttt gacaagaatg gcaacacccc
1981 acatgggaaa ggagtgatga agaccctcac taccggttct ctgattgccc gtgcatcagg
2041 cctactgcat gagaggatgg atgaatttga actccaaggt cccacaatca ccaccttcaa
2101 tttcgaccgg aatagaatca cagcattcag acaattggct gcagaaaaca agtatggatt
2161 ggtggatacc atgaaagttg gcaatcaact aaaaggagtg aaaaccatgg aagaactcaa
2221 acaagcaatc aggaatgtga ccatcaagag gtgccggatc atatacggtg gctccacgta
2281 ttaccttgaa tctgatggca agggcaaagt tttggtggaa aaggtcaaga acacctctgt
2341 acagaccaac aacgagttgg ccgggaccct gcaccatctc aaacacgccc gaatcaggta
2401 ctatgtcaaa tgtgtgcaag aagcagtcta ttccatcata caaattgccg gcgctgcgtt
2461 tgtcaccacg cgcattgcac gccgcatgaa catacaagaa ctctggtcga agccacaatt
2521 agatcaaaat gaatcagaga ctaaggaaga gacccccaag tcagaagatg acgagttcat
2581 catatcttct aaggatatca aggaggaagg aaagaagggc aaaaacaaaa ctggccgtgg
2641 caagaaacac actgcattct ccagcaaggg cttgagcgat gaggagtatg acgagtacaa
2701 aaggataaga gaagagagaa atgggaagta ctctatagag gagtatcttc aagacagaga
2761 caggtactat gaggagctcg ccattgccaa ggccacggag gaagacttct gtgaagagga
2821 ggagatcaaa atccgtcaga gaattttccg tcccaccagg aaacaaagga aggaagagag
2881 ggccacatta gggctagtga caggttcaga aatcagaaaa agaaaccctg atgacttcaa
2941 acccaaaggg aagctgtggg ccgatgacaa cagaagtgtt gattacaatg agaagctgga
3001 ctttgaggcc cccccaagca tatggtctag gattgtgagc tttggttctg gctggggctt
3061 ctgggtatca ccaagcctgt tcataacatc aactcatgta atccccgctg gcataacaga
3121 agcatttgga gtccccatca aacaaattca gatccacaaa tcaggtgaat tttgccgatt
3181 cagattccca aaaccaatta gaccagatgt gacaggaatg atcttggaag aaggtgcgcc
3241 tgaaggcacc gtggcaactg tgctcatcaa acgccccacc ggagagctca tgcctcttgc
3301 agccagaatg ggaacacacg caaccatgaa aattcaaggc cgcatggttg gcggacagat
3361 gggtatgttg ctcactggat caaatgctaa aggaatggat ttgggaacaa ctcctggtga
3421 ctgtggctgt ccttacatct ataaaagggg caatgactat atagtcattg gggtgcacac
3481 tgcagcagcc cgtggtggaa acaccgttat ctgtgccaca cagggaagtg agggtgaggc
3541 aactcttgag ggtggagatg acaaaggaac atactgtggg gcacccattc taggccctgg
3601 gggtgcacca aaattgagca ccaaaaccaa attttggagg tcgtcgaaca cgccccttcc
3661 accagggaca tatgagcctg cctacctcgg tggccgtgat ccgcgtgtta agggtgggcc
3721 ctccttgcag caggtaatga gagaccagtt gaagccattc actgaaccca ggggcaaacc
3781 tccaagacca agtgtattgg aagcagccaa acaaaccatt atcaatgtcc tcgaacaaac
3841 cctggaccct ccacaaaaat ggtcatatgc gcaggcgtgt gcctcacttg acaaaaccac
3901 ctccagcggg catccccatc acgtccgaaa gaatgaattc tggaatggtg agaccttcac
3961 tggtaaattg gcagatcaag catcaaaagc aaacctgatg tttgaggaag ggaaacatat
4021 gacaccagtg tatacagcag cactcaagga cgagctagtc aagactgaga aaatctatgg
4081 aaagatcaag aagagactgc tctggggctc tgacttgtcc accatgatcc ggtgcgctag
4141 gtcatttggt gggctcatgg acgagatgaa ggcacactgc ataacactcc cagtacgcgt
4201 tggcatgaat atgaatgaag atggcccaat aatatttgag aaacattcca gatacaaata
4261 tcactatgat gcagactact ctcgttggga ttcaacacaa cagagggcag tgctagcagc
4321 agccttggaa atcatggtca gattctctgc agaaccacaa ttggcacaaa tagtcgctga
4381 ggatctgctg gcccctagtg tagtagatgt aggagacttt aaaatcacaa taaatgaagg
4441 gctcccatct ggtgtaccgt gcacttccca atggaactcc atcgcacact ggctgttaac
4501 tctctgtgcc ttgtctgaag tcaccaaact gtcccctgac attatacaag caaattccat
4561 gttctcattt tacggtgatg acgagattgt cagcaccgac ataaaattgg accctgaaca
4621 gttaaccgcc aaattgaagg agtacggcct gaaaccaacc cgcccagaca agaccgaggg
4681 acccctgatc atcagtgaag atctgaacgg actcactttc ctccgaagga cggtgactcg
4741 cgacccagct ggctggtttg gaaaactgga ccaaagctca attttgaggc agatgtactg
4801 gactagagga ccaaatcatg aagaccccaa tgagacaatg ataccccatt ctcaaagacc
4861 catacagctc atggcactgc ttggtgaagc ctctctccac ggaccctctt tctacagtaa
4921 aatcagtaaa ttggtcataa ctgagctcaa agaaggtggg atggactttt acgtgccaag
4981 gcaggaaccc atgttcaggt ggatgaggtt ttctgacttg agcacgtggg agggcgatcg
5041 caatctggct cccaattttg tgaatgaaga tggcgtcgag tgacgccaac ccatctgatg
5101 ggtccgcagc caacctcgta ccagaggtca acaatgaggt tatggctttg gagcccgttg
5161 ttggtgccgc tattgcggca cctgtagcgg gccaacaaaa tgtaattgac ccctggatta
5221 gaaataattt tgtacaagct cctggtgggg agtttacagt atcccctaga aacgctccag
5281 gtgaaatact atggagcgcg cccctaggcc ctgacctaaa tccctaccta tcccatttgg
5341 ccagaatgta taatggttat gcaggtggtt ttgaagtgca ggtaattctc gcggggaacg
5401 cgttcaccgc cgggaagatc atatttgcag cagtcccacc aaattttcca actgaaggct
5461 taagtcctag ccaggtcact atgttccccc atataatagt agatgttaga caattagaac
5521 ctgtgctgat tcccttaccc gatgtcagga ataatttcta tcattacaat cagtcaaatg
5581 actccactat taagttgata gcaatgttgt atacaccact tagggctaat aatgctgggg
5641 atgatgtttt cacagtttcg tgccgagttc tcacgagacc atcccccgat tttgatttca
5701 tatttttagt gccacccaca gttgaatcaa gaactaaacc attctctgtc ccagttttaa
5761 ctgttgagga gatgaccaat tcaagattcc ccattccttt ggaaaagttg ttcacgggcc
5821 ccagcagtgc ctttgttgtt caaccacaaa acggcaggtg cacaactgat ggcgtgctcc
5881 taggcaccac ccaactgtcc cctgtcaaca tctgcacctt cagaggggat gtcacccaca
5941 tcacaggtag tcgcaactac acaatgaact tggcttctca aaattggaat aactatgacc
6001 caacagaaga aatcccagcc cctctaggaa ctccagattt tgtggggaag attcaaggca
6061 tgctcaccca aactacaagg acagatggtt caacacgcgg ccacaaagct acagtgtaca
6121 ctgggagcgc cgattttgct ccaaaactgg gtagagttca atttgaaact gacacagacc
6181 atgattttga agctaatcaa aacacaaagt tcactccagt cggtgtcatc caagatggta
6241 gcaccaccca ccgaaacgaa cctcaacagt gggtgctccc aagttactca ggcagaaata
6301 ctcacaatgt acatctggcc cccgctgtag cccccacctt tccaggtgag caacttctct
6361 tctttagatc caccatgccc ggatgcagcg ggtaccctaa catggatttg gactgtctgc
6421 tcccccagga atgggtgcag tacttctatc aagaggcagc cccagcacaa tctgatgtgg
6481 ctctgctaag atttgtgaat ccagacacag gtagggtttt gtttgagtgc aagcttcaca
6541 agtcaggcta tgttacagtg gctcacactg gccaacatga tttggttatc ccccccaatg
6601 gttactttag gtttgattcc tgggtcaacc agttctacac gcttgccccc atgggaaatg
6661 gaacggggcg tagacgtgta gtataatggc tggagctttc tttgctggat tggcatctga
6721 tgtccttggc tctggacttg gttcccttat caatgctggg gctggggcca tcaaccaaaa
6781 agttgagttt gaaaataaca gaaaattgca acaagcatcc ttccaattta gcagcaatct
6841 gcaacaggct tcctttcaac atgataaaga gatgctccaa gcacaaattg aggccaccaa
6901 aaagctacaa caggaaatga tgagagttaa gcaggcaatg ctcctagagg gtgggttctc
6961 tgagacagat gcagcccgcg gggcaattaa cgctcccatg acaaaagctt tggactggag
7021 cgggacaagg tactgggctc ccgatgctag gactacaaca tacaatgcag gccgcttttc
7081 cacccctcaa ccatcggggg cactgccagg aagagctaac cttagggatg ctgtccctgc
7141 tcggggaccc tccaacaaat cttctaactc ttctactgcc acctctgtgt actcaaatca
7201 aaccatttca acgagacttg gttctacagc tggttctgga accagtgtct cgagcctccc
7261 gtcaactgca aggactagga gctgggttga ggatcaaagt aggaatttgt cacctttcat
7321 gaggggggcc cacaacatat catttgtcac cccaccatct agcagatcct ctagccaagg
7381 cacagtctca accgtgccta aagagatttt ggactcctgg actggcgctt tcaacacgcg
7441 caggcagcct ctcttcgctc acattcgtac gcgaggggag tcacgggtgt aatgtgaaaa
7501 gacaaaactg attatttttc tttttcttta gtgtctttt
//