Typing tool
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Typing tool
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Complete norovirus genomes
| KY887600 | GII.4 Sydney | |
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| GII.P16 |
ORF1: 1..5099
ORF2: 5080..6702
ORF3: 6702..7508
LOCUS KY887600 7562 bp RNA linear VRL 15-JUL-2017
DEFINITION Norovirus GII isolate Hu/UK/2016/GII.P16_GII.4_Sydney2012/NOR-2558,
partial genome.
ACCESSION KY887600
VERSION KY887600.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norovirus norwalkense.
REFERENCE 1 (bases 1 to 7562)
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 7562)
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..7562
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="Hu/UK/2016/GII.P16_GII.4_Sydney2012/NOR-2558"
/host="Homo sapiens"
/db_xref="taxon:122929"
/geo_loc_name="United Kingdom: London"
/collection_date="06-Jan-2016"
/note="genotype: GII.P16_GII.4_Sydney2012"
CDS <1..5099
/codon_start=3
/product="non-structural polyprotein"
/protein_id="ASK12140.1"
/translation="KMASNDATVAVACNNNNDKEKSSGEGLFTNMSSTLKKALGARPK
QPASRDESQKPPRPPTPELVKRIPPPPPNGEEEEEPVIRYEVKSGISGLPELTTVPQP
DVANTAFSVPPLSLRENREAKEPLTGAILEMWDGEIYHYGLYVEKGLVLGVHKPPAAI
SMARVELTPLSLYWRVVYTPQYLISPETLRRLNGEAFPYTAFDNNCYAFCCWVLDLND
SWLSRRMVQRTTGFFRPYQEWNRKPLPTMDDSKIKKVANIFLCSLSTLFTRPIKDLIG
KIKPLNILNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPE
DLAVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFF
PKKEEANELAMVRAIEDAVLDLEAIENNHMTTLLKDKDSLATYMKTLDMEEEKARRLS
TKSASPDIVGTINALLARIAAARSLVHRAKEELSSRIRPVVVMISGKPGIGKTHLARE
VARKVASTLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRIQELADT
CPLTLNCDRIENKGKVFDSEVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVE
KAKRDFPGQPDMWKDAFKPDFSHIKLQLAPQGGFDKNGNTPHGKGVMKTLTTGSLIAR
ASGLLHERMDEFELQGPTITTFNFDRNRITAFRQLAAENKYGLVDTMKVGNQLKGVKT
MEELKQAIRNVTIKRCRIIYGGSTYDLESDGKGKVLVEKVKNTSVQTNNELAGALHHL
KHARIRYYVKCVQEAVYSIIQIAGAAFVTTRIARRMNIQELWSKPQLDQNESETKEEA
PKSEDDEFIISSKDIKEEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNGK
YSIEEYLQDRDRYYEELAIAKATEEDFCEEEEIKIRQRIFRPTRKQRKEERATLGLVT
GSEIRKRNPDDFKPKGKLWADDNRSVDYNEKLDFEAPPSIWSRIVSFGSGWGFWVSPS
LFITSTHVIPAGITEAFGVPIKQIQIHKSGEFCRFRFPKPIRPDVTGMILEEGAPEGT
VATVLIKRPTGELMPLAARMGTHATMKIQGRMVGGQMGMLLTGSNAKGMDLGTTPGDC
GCPYIYKRGNDYIVIGVHTAAARGGNTVICATQGSEGEATLEGGDDKGTYCGAPILGP
GGAPKLSTKTKFWRSSNTPLPPGTYEPAYLGGRDPRVKGGPSLQQVMRDQLKPFTEPR
GKPPRPSVLEAAKQTIINVLEQTLDPPQKWTYAQACASLDKTTSSGHPHHVRKNEFWN
GETFTGKLADQASKANLMFEEGKHMTPVYTAALKDELVKTEKIYGKIKKRLLWGSDLS
TMIRCARSFGGLMDEMKAHCISLPVRVGMNMNEDGPIIFEKHSRYKYHYDADYSRWDS
TQQRAVLAAALEIMVRFSAEPQLAQIVAEDLLAPSVVDVGDFKITINEGLPSGVPCTS
QWNSIAHWLLTLCALSEVTKLSPDIIQANSMFSFYGDDEIVSTDIKLDPEQLTAKLKE
YGLKPTRPDKTEGPLIISEDLNGLTFLRRTVTRDPAGWFGKLDQSSILRQMYWTRGPN
HEDPNETMIPHSQRPIQLMALLGEASLHGPSFYSKISKLVITELKEGGMDFYVPRQEP
MFRWMRFSDLSTWEGDRNLAPNFVNEDGVE"
CDS 5080..6702
/codon_start=1
/product="VP1"
/protein_id="ASK12141.1"
/translation="MKMASSDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ
QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
FEVQVILAGNAFTAGKIIFAAVPPNFPTEGLSPSQVTMFPHIIVDVRQLEPVLIPLPD
VRNNFYHYNQSNDSTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT
QLSPVNICTFRGDVTHITGSRNYTMNLASQNWNNYDPTEEIPAPLGTPDFVGKIQGML
TQTTRTDGSTRGHKATVYTGSADFAPKLGRVQFETDTDHDFEANQNTKFTPVGVIQDG
STTHRNEPQQWVLPSYSGRNTHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD
CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV
IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRVV"
CDS 6702..7508
/codon_start=1
/product="VP2"
/protein_id="ASK12142.1"
/translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA
SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQEMMKVKQAMLLEGGFSETDAARGAIN
APMTKALDWSGTRYWAPDARTTTYNAGRFSTPQPSGALPGRANLRDAVPARGPSNKSS
NSSTATSVYSNQTISTRLGSTAGSGTSVSSLPSTARTRSWVEDQSRNLSPFMRGAHNI
SFVTPPSSRSSSQGTVSTVPKEILDSWTGAFNTRRQPLFAHIRKRGESRA"
ORIGIN
1 tgaagatggc gtctaacgac gctaccgttg ccgttgcttg caacaacaac aacgacaagg
61 aaaaatcttc aggtgaaggc ttattcacaa atatgtcttc caccttaaag aaagccctcg
121 gggctaggcc caaacagcct gcctcgagag acgaatcaca aaagccccca agaccaccaa
181 ctcccgagtt ggtcaagagg ataccccctc ctccacctaa tggcgaagaa gaagaagaac
241 cagtcattag gtatgaggtt aagagtggga tctctggcct gcccgagctc acaacagtcc
301 cccaaccgga cgtggccaac acagcattca gtgttccacc actgagcttg agagaaaaca
361 gggaggccaa ggaaccgcta acaggggcaa tattagagat gtgggatgga gagatatacc
421 actatggcct gtacgtggag aaaggcttag tgttgggtgt gcacaaacca cctgcagcca
481 taagcatggc aagagtggag ctgacgccgc tgtcattgta ctggcgtgtg gtgtacactc
541 cccaatacct catctcccct gaaactctca ggaggctcaa cggagaggcg ttcccttaca
601 ccgccttcga caacaactgc tatgcctttt gctgctgggt gttagacctc aatgactcat
661 ggcttagcag gaggatggtg caaagaacaa cgggcttctt cagaccttac caagagtgga
721 acagaaaacc cctgcctacc atggatgact ccaaaattaa gaaggtagca aatatattcc
781 tatgttcatt gtccacatta ttcaccagac ccataaaaga cctcatagga aaaattaaac
841 cattaaacat attgaacatc ctggcaacgt gtgactggac gtttgccgga atagtggagt
901 ctctgatatt acttgctgaa ctcttcggag ttttctggac acccccagat gtgtctgcta
961 tgatcgctcc cttactcggg gactacgagt tgcaagggcc agaagacctc gccgttgaac
1021 tcgtacctgt ggtaatggga gggattggtt tggtgttggg attcaccaaa gagaaaattg
1081 gcaaaatgtt gtcctcagca gcatcaacac tcagggcttg caaagatctt ggtgcctatg
1141 gcttagagat actcaaattg gtcatgaagt ggttcttccc aaagaaagag gaggccaacg
1201 agctagccat ggtgagggcc atagaggatg ccgtactaga tcttgaggca atagaaaata
1261 accacatgac aaccctgttg aaagacaaag acagcttagc aacatacatg aaaacactgg
1321 acatggagga ggagaaagcc agaagattgt ccacaaaatc tgcatcccct gacatagttg
1381 ggacaatcaa cgccctgctg gctcgaatag cagcggccag gtcattagtc cacagggcca
1441 aggaagagct atctagcagg ataagaccag tagttgttat gatatctggc aaaccaggaa
1501 taggcaaaac tcatctggcc agggaggtgg caagaaaggt ggcatccact ctcacagggg
1561 atcaaagagt cggactcata ccaagaaacg gtgtggacca ttgggatgca tacaaaggtg
1621 agagagtcgt gctgtgggac gactatggca tgagtaaccc cattcatgat gctcttcgca
1681 tacaagaatt ggctgatacg tgtcccctta ccttaaattg tgacagaatt gaaaataagg
1741 gaaaagtttt tgacagtgaa gtcataataa ttacaacaaa ccttgccaat ccagccccac
1801 ttgattatgt caactttgag gcctgttcca ggagaattga tttcctggtg tacgctgagg
1861 caccagaagt agaaaaggca aaacgggact ttcctggtca gccagatatg tggaaggacg
1921 ccttcaagcc ggacttttca cacatcaagc tacagcttgc acctcagggc ggctttgaca
1981 agaatggcaa caccccacac gggaaaggag tgatgaagac cctcactacc ggttctctga
2041 ttgcccgtgc atcaggccta ctgcatgaga ggatggatga atttgaactc caaggtccca
2101 caatcaccac cttcaatttc gaccggaaca gaatcacagc attcaggcaa ttggctgcag
2161 aaaacaagta tggattggtg gataccatga aagttggcaa tcaactaaaa ggagtgaaaa
2221 ccatggaaga actcaaacaa gcaattagga atgtgaccat caagaggtgc cggatcatct
2281 acggtggctc cacgtatgac cttgaatctg atggcaaggg caaagttttg gtggaaaagg
2341 tcaagaacac ctctgtgcag accaacaacg agttggccgg ggccctgcac catctcaaac
2401 acgcccgaat caggtactat gtcaaatgtg tgcaagaagc agtctattcc atcatacaaa
2461 tcgccggcgc tgcgtttgtc accacgcgca ttgcacgccg catgaacata caagaactct
2521 ggtcgaagcc acaattagat caaaatgaat cagagactaa ggaagaggcc cccaagtcag
2581 aagatgacga gttcatcata tcttctaagg acatcaagga ggaaggaaag aagggcaaaa
2641 acaaaactgg ccgtggcaag aaacacactg cattctccag caagggtttg agcgatgagg
2701 agtatgacga gtacaagagg ataagagaag agagaaatgg gaagtactct atagaggagt
2761 atcttcaaga cagagacagg tactatgagg agctcgccat tgccaaggcc acggaagagg
2821 atttctgtga agaggaggag atcaaaatcc gccagagaat tttccgtccc accaggaaac
2881 aaagaaagga agagagggcc acattagggc tagtaacagg ttcggaaatc agaaaaagaa
2941 accctgatga cttcaaaccc aaagggaagc tgtgggccga tgacaacaga agtgttgact
3001 acaatgagaa actggacttt gaggcccccc caagcatatg gtctaggatt gtgagctttg
3061 gttctggctg gggcttctgg gtatcaccaa gcctgttcat aacatcaact catgtaatcc
3121 ccgcaggcat aacagaagcg tttggagtcc ccatcaaaca aattcagatc cacaaatcag
3181 gtgaattttg ccgattcaga ttcccaaaac caattagacc agatgtgaca ggaatgatct
3241 tggaagaagg tgcgcctgaa ggcaccgtgg caactgtgct catcaaacgc cccaccggag
3301 agctcatgcc tcttgcagcc agaatgggaa cacacgcaac catgaaaatt caaggccgca
3361 tggttggcgg acagatgggt atgttgctca ctggatcaaa tgctaaagga atggacttgg
3421 gaacaactcc tggtgactgt ggctgtcctt acatctataa aaggggcaat gactatatag
3481 tcattggggt gcacactgca gcagcccgtg gtggaaacac cgtcatttgt gccacacagg
3541 gaagtgaggg tgaggcaact cttgagggtg gagatgacaa aggaacatac tgtggggcac
3601 ccattctagg ccctgggggt gcaccaaaat tgagcaccaa aaccaaattt tggaggtcat
3661 cgaacacgcc ccttccacca gggacatatg agcctgccta cctcggtggc cgtgacccgc
3721 gtgttaaggg tgggccctcc ttgcagcagg taatgagaga ccagttgaag ccattcactg
3781 aacccagggg caaacctcca agaccaagtg tattggaagc agccaaacaa accattatca
3841 atgtcctcga acaaaccctg gaccctccac aaaaatggac atacgcacag gcgtgtgcct
3901 cacttgacaa aaccacctcc agcgggcatc cccatcacgt ccgaaagaat gaattctgga
3961 atggtgagac cttcactggt aaattggcag accaagcatc aaaagcaaac ctaatgtttg
4021 aggaagggaa acacatgaca ccagtgtata cagcagcact caaggacgag ctagtcaaga
4081 ctgagaaaat ctatggaaag atcaagaaga gactgctctg gggctctgac ttgtccacca
4141 tgatccggtg cgctaggtca tttggtggac tcatggacga gatgaaggca cactgcatat
4201 cactcccagt acgagttggc atgaatatga atgaagatgg cccaataata tttgagaaac
4261 attccagata caaataccac tatgatgcag actactctcg ttgggattca acacaacaga
4321 gggcagtgct agcagcagcc ttggaaatca tggtcagatt ctctgcagaa ccacaattgg
4381 cacaaatagt cgctgaggat ctgctggccc ctagtgtagt agatgtagga gactttaaaa
4441 tcacaataaa tgaagggctc ccatctggtg tgccatgcac ttctcaatgg aactccatcg
4501 cacactggct gctaactctc tgtgccttgt ctgaagtcac caaactgtcc cctgacatta
4561 tacaagcaaa ttccatgttc tcattttacg gtgatgacga gattgtcagc accgacataa
4621 aattggaccc tgaacagtta accgccaagt tgaaggagta cggcctgaaa ccaacccgcc
4681 cagacaagac cgagggaccc ctgatcatca gtgaagattt gaacggactc actttcctcc
4741 gaaggacggt gactcgtgac ccagctggct ggtttggaaa actggaccaa agctcgattt
4801 tgaggcagat gtactggact agaggaccaa atcatgaaga ccccaatgag acaatgatac
4861 cccattctca aagacccata cagctcatgg cactgcttgg tgaagcctct cttcacggac
4921 cctctttcta cagtaagatc agtaaattgg tcataactga actcaaagaa ggtgggatgg
4981 acttttacgt gccaaggcag gaacccatgt tcaggtggat gaggttttct gacttgagca
5041 cgtgggaggg cgatcgcaat ctggctccca atttcgtgaa tgaagatggc gtcgagtgac
5101 gccaacccat ctgatgggtc cgcagccaac ctcgtaccag aggtcaacaa tgaggttatg
5161 gctttggagc ccgttgttgg tgccgctatt gcggcacctg tagcgggcca acaaaatgta
5221 attgacccct ggattagaaa taattttgta caagcccctg gtggggagtt tacagtatcc
5281 cctagaaacg ctccaggtga aatactatgg agcgcgcccc taggccctga cctaaatccc
5341 tacctatccc atttggccag aatgtacaat ggttatgcag gtggttttga agtgcaagta
5401 attctcgcgg ggaacgcgtt caccgccggg aagatcatat ttgcagcagt cccaccaaat
5461 tttccaactg aaggcttaag tcctagccag gtcactatgt tcccccatat aatagtagat
5521 gttagacaat tagaacctgt gctgattccc ttacccgatg ttaggaataa tttctatcat
5581 tataatcagt caaatgactc cactattaag ttgatagcaa tgttgtatac accacttagg
5641 gctaataatg ctggggatga tgttttcaca gtttcgtgcc gagttctcac gagaccatcc
5701 cccgattttg atttcatatt tttagtgcca cctacagttg agtcaagaac taaaccattc
5761 tctgtcccag ttttaactgt tgaggagatg accaattcaa gattccccat tcctttggaa
5821 aagttgttca cgggccccag cagtgccttt gttgttcaac cacaaaacgg caggtgcaca
5881 actgatggcg tgctcctagg caccacccaa ctgtctcctg tcaacatctg caccttcaga
5941 ggggatgtca cccacatcac aggtagtcgc aactacacaa tgaatttggc ttctcaaaat
6001 tggaacaact atgacccaac agaagaaatc ccagcccctc taggaactcc agattttgtg
6061 ggaaagattc aaggcatgct cacccaaacc acaaggacag atggttcaac acgcggccac
6121 aaagctacag tgtacactgg gagcgccgac tttgctccaa aactgggtag agttcaattt
6181 gaaactgaca cagaccatga ttttgaagct aatcaaaaca caaagttcac cccagtcggt
6241 gtcatccaag atggtagcac cacccaccga aacgaacccc aacagtgggt gctcccaagt
6301 tactcaggca gaaatactca caatgtacat ctggcccccg ctgtagcccc cacctttccg
6361 ggtgagcaac ttctcttctt cagatccacc atgcccggat gcagcgggta ccccaacatg
6421 gatttggact gtctgctccc ccaggaatgg gtgcagtact tctaccaaga ggcagcccca
6481 gcacaatctg atgtggctct gctaagattt gtgaatccag acacaggtag ggttttgttt
6541 gagtgcaagc ttcacaaatc aggctatgtc acagtggctc acactggcca acatgatttg
6601 gttatccccc ccaatggtta ctttaggttt gattcctggg tcaaccagtt ctacacgctt
6661 gcccccatgg gaaatggaac ggggcgtaga cgtgtagtat aatggctgga gctttctttg
6721 ctggattggc atctgatgtc cttggctctg gacttggttc ccttatcaat gctggggctg
6781 gggccatcaa ccaaaaagtt gagtttgaaa ataacagaaa attgcaacaa gcatccttcc
6841 aatttagcag caatctgcaa caggcttcct ttcaacatga taaagagatg ctccaagcac
6901 aaattgaggc caccaaaaag ctacaacagg aaatgatgaa agttaagcag gcaatgctcc
6961 tagagggtgg gttctctgag acagatgcag cccgcggggc aattaacgcc cccatgacaa
7021 aagctttgga ctggagcggg acaaggtatt gggctcccga tgctaggact acaacataca
7081 atgcaggccg cttttccacc cctcaaccat cgggggcact gccaggaaga gctaatctta
7141 gggatgctgt ccctgctcgg ggaccctcca ataaatcttc taactcttct actgccacct
7201 ctgtgtactc aaatcaaact atttcaacga gacttggttc tacagctggt tctggaacca
7261 gtgtctcgag cctcccgtca actgcaagga ctaggagctg ggttgaggac caaagtagga
7321 atctgtcacc tttcatgagg ggggcccaca acatatcatt tgtcacccca ccatctagca
7381 gatcctctag ccaaggcaca gtctcaaccg tgcctaaaga gattttggac tcctggactg
7441 gcgctttcaa cacgcgcagg cagcctctct tcgctcacat tcgtaagcga ggggagtcac
7501 gggcgtaatg tgaaaagaca aaactgatta tctttctttt tctttagtgt cttttaaaaa
7561 aa
//