Typing tool
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Typing tool
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Complete norovirus genomes
| KY887599 | GII.4 Sydney | |
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| GII.P16 |
ORF1: 1..5083
ORF2: 5064..6686
ORF3: 6686..7492
LOCUS KY887599 7538 bp RNA linear VRL 15-JUL-2017
DEFINITION Norovirus GII isolate Hu/UK/2016/GII.P16_GII.4_Sydney2012/NOR-2559,
partial genome.
ACCESSION KY887599
VERSION KY887599.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norovirus norwalkense.
REFERENCE 1 (bases 1 to 7538)
AUTHORS Ruis,C., Roy,S., Brown,J.R., Allen,D.J., Goldstein,R.A. and
Breuer,J.
TITLE The emerging GII.P16-GII.4 Sydney 2012 norovirus lineage is
circulating worldwide, arose by late-2014 and contains polymerase
changes that may increase virus transmission
JOURNAL PLoS ONE 12 (6), E0179572 (2017)
PUBMED 28662035
REMARK Publication Status: Online-Only
REFERENCE 2 (bases 1 to 7538)
AUTHORS Ruis,C., Roy,S., Brown,J.R., Allen,D.J., Goldstein,R.A. and
Breuer,J.
TITLE Direct Submission
JOURNAL Submitted (03-APR-2017) Infection and Immunity, University College
London, Gower Street, London WC1E6BT, United Kingdom
COMMENT ##Assembly-Data-START##
Assembly Method :: CLC Genomics Workbench v. 8.5
Sequencing Technology :: Illumina
##Assembly-Data-END##
FEATURES Location/Qualifiers
source 1..7538
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="Hu/UK/2016/GII.P16_GII.4_Sydney2012/NOR-2559"
/host="Homo sapiens"
/db_xref="taxon:122929"
/geo_loc_name="United Kingdom: London"
/collection_date="07-Jan-2016"
/note="genotype: GII.P16_GII.4_Sydney2012"
CDS <1..5083
/codon_start=2
/product="non-structural polyprotein"
/protein_id="ASK12137.1"
/translation="DATVAVACNNNNDKEKSSGEGLFTNMSSTLKKALGARPKQPAPR
DEPQKPPRPPTPELVKRIPPPPPNGEGEEEPVIRYEVKSGISGLPELTTVPQPDVANT
AFSVPPLSLRENREAKEPLTGAILEMWDGEIYHYGLYVEKGLVLGVHKPPAAISMARV
ELTPLSLYWRVVYTPQYLISPETLRRLNGEAFPYTAFDNNCYAFCCWVLDLNDSWLSR
RMVQRTTGFFRPYQEWNRKPLPTMDDSKIKKVANIFLCSLSTLFTRPIKDLIGKIKPL
NILNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPEDLAVE
LVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFPKKEE
ANELAMVRAIEDAVLDLEAIENNHMTTLLKDKDSLATYMKTLDMEEEKARRLSTKSAS
PDIVGTINALLARIAAARSLVHRAKEELSSRIRPVVVMISGKPGIGKTHLAREVARKV
ASTLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRIQELADTCPLTL
NCDRIENKGKVFDSEVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEKAKRD
FPGQPDMWKDAFKSDFSHIKLQLAPQGGFDKNGNTPHGKGVMKTLTTGSLIARASGLL
HERMDEFELQGPTITTFNFDRNRITAFRQLAAENKYGLVDTMKVGNQLKGVKTMEELK
QAIRNVTIKRCRIIYGGSTYDLESDGKGKVLVEKVKNTSVQTNNELAGALHHLKHARI
RYYVKCVQEAVYSIIQIAGAAFVTTRIARRMNIQELWSKPQLDQNESETKEEAPKSED
DEFIISSKDIKEEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKYSIEE
YLQDRDRYYEELAIAKATEEDFCEEEEIKIRQRIFRPTRKQRKEERATLGLVTGSEIR
KRNPDDFKPKGKLWADDNRSVDYNEKLDFEAPPSIWSRIVSFGSGWGFWVSPSLFITS
THVIPAGITEAFGVPIKQIQIHKSGEFCRFRFPKPIRPDVTGMILEEGAPEGTVATVL
IKRPTGELMPLAARMGTHATMKIQGRMVGGQMGMLLTGSNAKGMDLGTTPGDCGCPYI
YKRGNDYIVIGVHTAAARGGNTVICATQGSEGEATLEGGDDKGTYCGAPILGPGGAPK
LSTKTKFWRSSNTPLPPGTYEPAYLGGRDPRVKGGPSLQQVMRDQLKPFTEPRGKPPR
PSVLEAAKQTIINVLEQTLDPPQKWTYAQACASLDKTTSSGHPHHVRKNEFWNGETFT
GKLADQASKANLMFEEGKHMTPVYTAALKDELVKTEKIYGKIKKRLLWGSDLSTMIRC
ARSFGGLMDEMKAHCISLPVRVGMNMNEDGPIIFEKHSRYKYHYDADYSRWDSTQQRA
VLAAALEIMVRFSAEPQLAQIVAEDLLAPSVVDVGDFKITINEGLPSGVPCTSQWNSI
AHWLLTLCALSEVTKLSPDIVQANSMFSFYGDDEIVSTDIKLDPEQLTAKLKEYGLKP
TRPDKTEGPLIISEDLNGLTFLRRTVTRDPAGWFGKLDQSSILRQMYWTRGPNHEDPN
ETMIPHSQRPIQLMALLGEASLHGPSFYSKISKLVITELKEGGMDFYVPRQEPMFRWM
RFSDLSTWEGDRNLAPNFVNEDGVE"
CDS 5064..6686
/codon_start=1
/product="VP1"
/protein_id="ASK12138.1"
/translation="MKMASSDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ
QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
FEVQVILAGNAFTAGKIIFAAVPPNFPTEGLSPSQVTMFPHVIVDVRQLEPVLIPLPD
VRNNFYHYNQSNDPTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT
QLSPVNICTFRGDVTHITGSRNYTMNLASQNWNNYDPTEEIPAPLGTPDFVGKIQGML
TQTTRTDGSTRGHKAIVYTGSADFAPKLGRVQFETDTDHDFEANQNTKFTPVGVIQDG
STTHRNEPQQWVLPSYSGRNTHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD
CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV
IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRAV"
CDS 6686..7492
/codon_start=1
/product="VP2"
/protein_id="ASK12139.1"
/translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA
SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQEMMKVKQAMLLEGGFSETDAARGAIN
APMTKALDWSGTRYWAPDARTTTYNAGRFSTPQPSGALPGRANLRDAVPARGPSNKSS
NSSTATSVYSNQTISTRLGSTAGSGTSVSSLPSTARTKSWVEDQSRNLSPFMRGAHNI
SFVTPPSSRSSSQGTVSTVPKEILDSWTGAFNTRRQPLFAHIRKRGESRV"
ORIGIN
1 cgacgctacc gttgccgttg cttgcaacaa caacaacgac aaggaaaaat cttcaggtga
61 aggcttattc acaaatatgt cttccacctt aaagaaagcc ctcggggcta ggcccaaaca
121 gcctgccccg agagacgaac cacaaaagcc cccaagacca ccaactcccg agttggtcaa
181 gaggataccc cctcctccac ctaatggcga aggagaagaa gaaccagtca ttaggtatga
241 ggttaagagt gggatctctg gcctgcccga gctcacaaca gtcccccaac cggacgtggc
301 caacacagca ttcagtgttc caccactgag cttgagagaa aacagggagg ccaaggaacc
361 gctaacaggg gcaatattag agatgtggga tggagagata taccactatg gcctgtacgt
421 ggagaaaggc ttagtgttgg gtgtgcacaa accacctgca gccataagca tggcaagagt
481 ggagttgacg ccgctgtcat tgtactggcg tgtggtgtac actccccaat acctcatctc
541 ccctgaaact ctcaggaggc tcaacggaga ggcgttccct tacaccgcct ttgacaacaa
601 ctgctatgcc ttttgctgct gggtgttaga cctcaatgac tcatggctta gcaggaggat
661 ggtgcaaaga acaacgggct tcttcagacc ttaccaagag tggaacagaa aacccctgcc
721 taccatggat gactccaaaa ttaagaaggt agcaaatata ttcctatgtt cattgtccac
781 actattcacc agacccataa aagacctcat aggaaaaatt aaaccattaa acatattgaa
841 catcctggca acgtgtgact ggacgtttgc cggaatagtg gagtctctga tattacttgc
901 cgaactcttc 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 tcaacgccct
1381 gctggctcga atagcagcgg ccaggtcatt agtccacagg gccaaggaag agctgtctag
1441 caggataaga ccagtagttg ttatgatatc tggcaaacca 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 caatccagcc ccacttgatt atgtcaactt
1801 tgaggcctgt tccaggagaa ttgatttcct ggtgtacgct gaggcaccag aagtagaaaa
1861 ggcaaaacgg gactttcctg gtcagccaga tatgtggaag gacgccttca agtcggactt
1921 ctcacacatc aagctacagc ttgcacctca gggcggcttt gacaagaatg gcaacacccc
1981 acatgggaaa ggagtgatga agaccctcac taccggttct ctgattgccc gtgcgtcagg
2041 cctactgcat gagaggatgg atgaatttga actccaaggt cccacaatca ccaccttcaa
2101 tttcgaccgg aacagaatca cagcattcag acaattggct gcagaaaaca agtatggatt
2161 ggtggatacc atgaaagttg gcaatcaact aaaaggagtg aaaaccatgg aagaactcaa
2221 acaagcaatc aggaatgtga ccatcaagag gtgccggatc atctacggtg gctccacgta
2281 tgaccttgaa tctgatggca agggcaaagt tttggtggaa aaggtcaaga acacctctgt
2341 acagaccaac aacgagttgg ccggggccct gcaccatctc aaacacgccc gaatcaggta
2401 ctatgtcaaa tgtgtgcaag aagcagtcta ttccatcata caaattgccg gcgctgcgtt
2461 tgtcaccacg cgcattgcac gccgcatgaa catacaagaa ctctggtcga agccacaatt
2521 agatcaaaat gaatcagaaa ctaaggaaga ggcccccaag tcagaagatg acgagttcat
2581 catatcttct aaggacatca aggaggaagg aaagaagggc aaaaacaaaa ctggccgtgg
2641 caagaaacac actgcattct ccagtaaggg cttgagcgat gaggagtatg acgagtacaa
2701 gaggataaga gaagagagaa atgggaagta ctctatagag gagtatcttc aagatagaga
2761 caggtactat gaggagctcg ccattgccaa ggccacggaa gaagacttct gtgaagagga
2821 ggagatcaaa atccgtcaga gaattttccg tcccaccagg aaacaaagaa aggaagagag
2881 ggccacatta gggctagtaa caggttcaga aatcagaaaa agaaaccctg atgacttcaa
2941 acccaaaggg aagctgtggg ccgatgacaa cagaagtgtt gattacaatg agaaactgga
3001 ctttgaggcc cccccaagca tatggtctag gattgtgagc tttggttctg gctggggctt
3061 ctgggtatca ccaagcctgt tcataacatc aactcatgta atccccgcag 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 acaccgtcat ctgtgccaca cagggaagtg agggtgaggc
3541 aactcttgag ggtggagatg acaaaggaac atactgtggg gcacccattc taggccctgg
3601 gggtgcacca aaattgagca ccaaaaccaa attttggagg tcatcgaaca cgccccttcc
3661 accagggaca tatgagcctg cctacctcgg tggccgtgat ccgcgtgtta agggtgggcc
3721 ctccttgcag caggtaatga gagaccagtt gaagccattc actgaaccca ggggcaaacc
3781 tccaagacca agtgtattgg aagcagccaa acaaaccatt atcaacgtcc tcgaacaaac
3841 cctggatcct ccacaaaaat ggacatacgc acaggcgtgt gcctcacttg acaaaaccac
3901 ctccagcggg catccccatc acgtccgaaa gaatgaattc tggaatggtg agaccttcac
3961 tggtaaattg gcagaccaag catcaaaagc aaacctaatg tttgaggaag ggaaacacat
4021 gacaccagtg tatacagcag cactcaagga cgagctagtc aagactgaga aaatctatgg
4081 aaagatcaag aagagactac tctggggctc tgacttgtcc accatgatcc ggtgcgctag
4141 gtcatttggt gggctcatgg acgagatgaa ggcacactgc atatcactcc cagtacgagt
4201 tggcatgaat atgaatgaag atggcccaat aatatttgag aaacattcca gatacaaata
4261 ccactatgat gcagactact ctcgttggga ttcaacacaa cagagggcag tgctagcagc
4321 agccttggaa atcatggtca gattctctgc agaaccacaa ttggcacaaa tagtcgctga
4381 ggatctgctg gcccctagtg tagtagatgt aggagacttt aaaatcacaa taaatgaagg
4441 gctcccatct ggtgtgccat gcacttctca atggaactcc atcgcacact ggctgctaac
4501 tctctgtgct ttgtctgaag tcaccaaact gtcccctgac attgtacaag caaattccat
4561 gttctcattt tacggtgatg acgagattgt cagcaccgac ataaaattgg accctgaaca
4621 gttaaccgcc aaattgaagg agtacggcct gaaaccaacc cgcccagaca agaccgaggg
4681 acccctgatc atcagtgaag atttgaacgg actcactttc ctccgaagga cggtgactcg
4741 tgacccagct ggctggtttg gaaaactgga ccaaagctca attttgagac agatgtactg
4801 gactagagga ccaaatcatg aagaccccaa tgagacaatg ataccccatt ctcaaagacc
4861 catacagctc atggcactgc ttggtgaagc ctctcttcac ggaccctctt tctacagtaa
4921 aatcagtaaa ttggtcataa ctgaactcaa 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 tgtacaagcc cctggtgggg agtttacagt atcccctaga aacgctccag
5281 gtgaaatact atggagcgcg cccctaggcc ctgacctaaa tccctaccta tcccatttgg
5341 ccagaatgta caatggttat gcaggtggtt ttgaagtgca ggtaattctc gcggggaacg
5401 cgttcaccgc cgggaagatc atatttgcag cagtcccacc aaattttcca actgaaggct
5461 taagtcctag ccaggtcact atgttccccc atgtaatagt ggatgttaga caattagaac
5521 ctgtgctgat tcccttaccc gatgtcagga ataatttcta tcattacaat cagtcaaatg
5581 atcccactat taagttgata gcaatgttgt atacaccact tagggctaat aatgctgggg
5641 atgatgtttt cacagtttcg tgccgagttc tcacgagacc atcccccgat tttgatttca
5701 tatttttagt gccacccaca gttgagtcaa gaactaaacc attctctgtc ccagttttga
5761 ctgttgagga gatgaccaat tcaagattcc ccattccttt ggaaaagttg ttcacgggcc
5821 ccagcagtgc ctttgttgtt caaccacaaa acggcaggtg cacaactgat ggcgtgcttc
5881 taggcaccac ccaactgtct cctgtcaaca tctgcacctt cagaggggat gtcacccaca
5941 tcacaggtag tcgcaactac acaatgaatt tggcttctca aaattggaac aactatgacc
6001 caacagaaga aatcccagcc cctctaggaa ctccagattt tgtggggaag atccaaggca
6061 tgctcaccca aaccacaagg acagatggtt caacacgcgg ccacaaagct atagtgtaca
6121 ctgggagcgc cgactttgct ccaaaactgg gtagagttca atttgaaact gacacagacc
6181 atgattttga agctaaccaa aacacaaagt tcaccccagt cggtgtcatc caagatggta
6241 gcaccaccca ccgaaacgaa ccccaacagt gggtgctccc aagttactca ggcagaaata
6301 cccacaatgt acatctggcc cctgctgtag cccccacctt tccgggtgag caacttctct
6361 tcttcagatc caccatgccc ggatgcagcg ggtaccccaa catggatttg gactgtctgc
6421 tcccccagga atgggtgcag tacttctacc aagaggcagc cccagcacaa tctgatgtgg
6481 ctctgctaag atttgtgaat ccagacacag gtagggtttt gtttgagtgc aagcttcaca
6541 aatcaggcta tgttacagtg gctcacactg gccaacatga tttggttatc ccccccaatg
6601 gttactttag gtttgattcc tgggtcaacc agttctacac gcttgccccc atgggaaatg
6661 gaacggggcg tagacgtgca 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 tgaaagttaa gcaggcaatg ctcctagagg gagggttctc
6961 tgagacagat gcagcccgcg gggcaatcaa cgcccccatg acaaaagctt tggactggag
7021 cgggacaagg tactgggctc ccgatgctag gactacaaca tacaatgcag gccgcttttc
7081 cacccctcaa ccatcggggg cactgccagg aagagctaat cttagggatg ctgtccctgc
7141 tcggggaccc tccaacaaat cttctaactc ttctactgcc acctctgtgt attcaaatca
7201 aactatctca acgagacttg gttctacagc tggttctgga accagtgtct cgagcctccc
7261 gtcaactgca aggactaaga gctgggttga ggatcaaagt aggaatttgt cacctttcat
7321 gaggggggcc cacaacatat catttgtcac cccaccatct agcagatcct ctagccaagg
7381 cacagtctca accgtgccta aagagatttt ggactcctgg actggcgctt tcaacacgcg
7441 caggcagcct ctcttcgctc acattcgtaa gcgaggggag tcacgggtgt aatgtgaaaa
7501 gacaaaactg attatctttc tttttcttta gtgtcttt
//