Typing tool
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Typing tool
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Complete norovirus genomes
| MH218591 | GII.17 | |
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| GII.P16 |
ORF1: 5..5101
ORF2: 5082..6704
ORF3: 6704..7480
LOCUS MH218591 7535 bp RNA linear VRL 11-JUN-2018
DEFINITION Norovirus GII isolate NORO_121_30_11_2014, complete genome.
ACCESSION MH218591
VERSION MH218591.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7535)
AUTHORS Brown,J.R., Roy,S., Shah,D., Williams,C.A., Williams,R., Dunn,H.,
Hartley,J., Harris,K. and Breuer,J.
TITLE Norovirus transmission dynamics in a paediatric hospital using full
genome sequences
JOURNAL Clin. Infect. Dis. (2018) In press
PUBMED 29800111
REMARK Publication Status: Available-Online prior to print
REFERENCE 2 (bases 1 to 7535)
AUTHORS Brown,J.R., Roy,S., Shah,D., Williams,C.A., Williams,R., Dunn,H.,
Hartley,J., Harris,K. and Breuer,J.
TITLE Direct Submission
JOURNAL Submitted (17-APR-2018) Division of Infection and Immunity,
University College London, 90 Gower St, London, London WC1E 6BT,
United Kingdom
COMMENT ##Assembly-Data-START##
Assembly Method :: CLC Genomics Workbench v. 10.1
Sequencing Technology :: Illumina
##Assembly-Data-END##
FEATURES Location/Qualifiers
source 1..7535
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="NORO_121_30_11_2014"
/host="Homo sapiens"
/db_xref="taxon:122929"
/country="United Kingdom"
/collection_date="30-Nov-2014"
/note="genotype: GII.P16_GII.17"
gene 5..5101
/gene="ORF1"
CDS 5..5101
/gene="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="AWR17431.1"
/translation="MKMASNDATVAVACNNNNDKEKSSGEGLFTNMSSTLKKALGARP
KQPAPRDNSQKPPRPPTPELVKRIPPPPPNGEEEEPAIRFEVNSGISGLPELTTVVQP
DATNTAFSVPPLSLRENREAKEPLTGAILEMWDGEIYHYGLYVEKGLVLGVHKPPAAI
SMAKVEMTPLSLYWRVVYTPQYLISPDTLKRLNGEAFPYTAFDNNCYAFCCWVLDLND
SWLSRRMVQRTTGFFRPYQEWNRKPLPTMDDSKIKKVANIFLCSLSTLFTRPIKDIIG
KIKPLNILNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGEYELQGPE
DIAVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFF
PKKEEASELAMVRAIEDAVLDLEAIENNHMTTLLKDKDSLATYMKTLDLEEEKARKLS
TKSASPDIVGTINALLARIAAARSLVHRAKEELSSRIRPVVVMISGKPGIGKTHLARE
VAKKVASTLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRIQELADT
CPLTLNCDRIENKGKVFDSDVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVE
KAKRDFPGQPDMWKDAFKADFSHIKLQLAPQGGFDKNGNTPHGKGVMKTLTTGSLIAR
ASGLLHERMDEFELQGPTVTTFNFDRNRITAFRQLAAENKYGLVDTMRVGNQLKGVKT
MEELKQAIKNVSIKRCQIIYNGSTFDLESDGKGKVLVEKVKSTSVQTNNELAGALHHL
RSARIRYYVKCIQEAVYSILQIAGAAFVTTRIARRMNIQELWSRPPLDQSEPETKEET
PKLEDDEFIISSKEIKEEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNGK
YSIEEYLQDRDRYYEELAIAKATEEDFCEEEEIKIRQRIFRPTRKQRKEERATLGLVT
GSEIRKRNPDDFKPKGKLWADDNRSVDYNEKLDFEAPPSIWSRIVSFGSGWGFWVSPS
LFITSTHVIPAGITEAFGVPIKQVQVHKSGEFCRFRFPKPIRPDVTGMILEEGAPEGT
VATVLIKRPTGELMPLAARMGTHATMRIQGRMVGGQMGMLLTGSNAKGMDLGTTPGDC
GCPYIYKRGNDYIVIGVHTAAARGGNTVICATQGSEGEATLEGGDDKGTYCGAPILGP
GGAPKLSTKTKFWRSSNTPLPPGTYEPAYLGGRDPRVKGGPSLQQVMRDQLKPFTEPR
GKPPRPSVLEAAKQTIINVLEQTLDPPQKWTYAQACASLDKTTSSGHPHHARKNEFWN
GETFIGKLADQASKANLMYEEGKHMTPVYTAALKDELVKTDKIYGKIKKRLLWGSDLS
TMVRCARAFGGLMEEMKAHCISLPVRVGMNMNEDGPIIFEKHSRYKYHYDADYSRWDS
TQQRAVLAAALEIMVRFSAEPQLAQTVAEDLLAPSVVDVGDFKISINEGLPSGVPCTS
QWNSITHWLLTLCALSEVTNLSPDIVQANSMFSFYGDDEIVSTDIKLDPEKLTTKLKE
YGLKPTRPDKTEGPLIISEDLDGLTFLRRTVSRDPAGWFGKLDQSSILRQMYWTRGPN
HEDPSETMIPHSQRPIQLMALLGEASLHGPSFYSKISKLVITELKEGGMDFYVPRQEP
MFRWMRFSDLSTWEGDRNLAPSFVNEDGVE"
mat_peptide 5..997
/gene="ORF1"
/product="p48"
mat_peptide 998..2095
/gene="ORF1"
/product="NTPase"
mat_peptide 2096..2626
/gene="ORF1"
/product="p22"
mat_peptide 2627..3025
/gene="ORF1"
/product="VPg"
mat_peptide 3026..3568
/gene="ORF1"
/product="Pro"
mat_peptide 3569..5098
/gene="ORF1"
/product="RdRp"
gene 5082..6704
/gene="ORF2"
CDS 5082..6704
/gene="ORF2"
/codon_start=1
/product="VP1"
/protein_id="AWR17432.1"
/translation="MKMASNDAAPSNDGATGLVPEINNETLPLEPVAGAAIAAPVTGQ
NNIIDPWIRTNFVQAPNGEFTVSPRNSPGEILLNLELGPDLNPYLAHLSRMYNGYAGG
VEVQVLLAGNAFTAGKILFAAVPPNFPVEFLSPAQITMLPHLIVDVRTLEPIMIPLPD
VRNTFFHYNNQPANRMRLVAMLYTPLRSNGSGDDVFTVSCRVLTRPTPDFEFTYLVPP
SVESKTKPFSLPILTISELTNSRFPVPVDSLFTAQNNNLNVQCQNGRCTLDGELQGTT
QLQPSGICAFRGKITADVRPSHDDRWHMQLTNLNGTPFDPTEDVPAPLGTPDFTGLLF
GVASQRNVQPNPNTTRAHEAVISTTSSQFVPKLGSINFGSTSEDFIVGQPTKFTPVGI
KIEDGHAFDQWTLPRYSGHLTLNMNLAPPVAPNFPGEQLLFFRSNVPCAGGISDGVID
CLLPQEWIQHFYQESAPSQSDVALIRYVNPDTGRTLFEAKLHRTGYITVAHSGDYPLV
VPSNGYFRFDSWVNQFYSLAPMGTGNGRRRVQ"
gene 6704..7480
/gene="ORF3"
CDS 6704..7480
/gene="ORF3"
/codon_start=1
/product="VP2"
/protein_id="AWR17433.1"
/translation="MAGAFIAGLAGDMLTNTVGSLANAGANAITQKIDFENNKQLQSA
SFQHDKDMLQAQVAATKQLQADMIAIKQGILTAGGFSPTDAARGAVGAPMTKVLDWSG
TRYWAPNSTRTTGYSGQFTSAPVHMPTKTIQPTPVKRTQPLSSSSGSVYSLPTQSTAL
TKPSSGPSVSSASTQSTKLSSVSSMDRTANWVNQQRSLSPFMSGALNISHVTPPSSRA
SSSGTVSTVPKEVLDSWTPAFNTRRQPLFAHLRVRGESRV"
ORIGIN
1 gtgaatgaag atggcgtcta acgacgctac cgttgccgtt gcttgcaaca acaacaacga
61 caaggaaaaa tcttcgggtg aaggcttatt tacaaatatg tcttccaccc tcaagaaagc
121 cctcggggcc cggcccaaac agcctgcccc gagggacaac tcacaaaagc ccccaagacc
181 acctacgccc gagttggtta aaaggatacc ccctcctcca cctaatggcg aagaagaaga
241 gccagccatt aggttcgagg ttaatagtgg aatctctggt ctacctgagc tcacgacagt
301 tgtccaaccg gatgcgacca atacggcatt cagtgttcca ccgctgagct tgagagaaaa
361 cagagaggcc aaggaaccgc tgactggagc aatattagag atgtgggatg gagagatata
421 ccactatggt ttgtatgtgg agaaaggctt ggtgttgggt gtgcacaaac cacctgcagc
481 tataagtatg gcaaaggtgg aaatgacacc gctgtcatta tactggcgtg ttgtgtacac
541 ccctcaatac ctcatctccc ctgacactct caagaggctc aacggagagg cattccctta
601 cactgccttt gacaacaact gttacgcctt ttgctgctgg gtgttagatc tcaatgactc
661 gtggctcagc aggaggatgg tgcaaagaac aacaggtttc ttcagacctt accaggagtg
721 gaacagaaaa cctttaccca ccatggatga ctcaaaaatc aagaaagtgg caaacatttt
781 cttatgttca ttgtccacac tattcaccag acctataaaa gacatcatag gaaaaatcaa
841 accactaaat atcttgaaca ttctggcaac gtgtgactgg acgttcgccg gaatcgtgga
901 gtctctaata ctgcttgccg aactctttgg agttttctgg acacccccag atgtgtctgc
961 tatgatcgcc cccttactcg gtgaatacga gctgcaaggg cctgaggata tcgccgttga
1021 gctcgtacct gtagtaatgg gagggattgg tttggtgcta gggtttacca aagagaagat
1081 tggcaaaatg ctatcctcag cagcatcaac gctcagggct tgcaaagatc ttggtgctta
1141 tggtttagag atactcaaac tggtcatgaa atggtttttc ccaaagaaag aagaggccag
1201 tgaattagcc atggtgaggg caatagagga tgctgtactg gatcttgaag caatagaaaa
1261 caaccacatg acaactttgc tgaaagataa agacagcctt gcaacttaca tgaaaacact
1321 agacctagag gaagaaaaag ccaggaagtt gtccacaaaa tctgcatctc ctgacatagt
1381 tggaacaatc aatgccctgc tggcccgaat agcagcggct agatcattag tccacagagc
1441 caaagaggag ctatctagca ggatcaggcc agttgttgtt atgatttctg gcaagccagg
1501 gataggcaag acccacttag ccagggaggt ggcgaaaaag gtggcatcca ctctcacggg
1561 agatcaaaga gttggactca taccaagaaa tggtgtagac cattgggatg catacaaagg
1621 tgagagggtc gtgttgtggg acgactacgg catgagtaat cccatccatg atgctctgcg
1681 catacaggaa ttggctgaca catgtcccct caccctaaat tgtgatagaa ttgaaaataa
1741 gggaaaagtt tttgatagtg atgtcataat aatcacaaca aaccttgcca acccagctcc
1801 ccttgactat gttaactttg aggcctgttc caggagaatt gacttcctgg tgtacgccga
1861 agcaccagaa gtggaaaagg caaaacggga tttccctggt cagccagata tgtggaagga
1921 tgctttcaaa gcagattttt ctcatatcaa gttacaactt gcgccgcagg gtggttttga
1981 caagaatggc aacaccccgc atggtaaagg agtgatgaag accctcacca ctggttccct
2041 gattgcccgt gcgtcaggtt tactgcatga gagaatggat gaatttgaac tccagggccc
2101 cacagtcacc acttttaact tcgaccgaaa cagaatcacc gcctttagac aattggctgc
2161 agagaacaag tatgggctgg tggacaccat gagagttggc aaccaactga aaggggtgaa
2221 aactatggaa gaactcaagc aggcaatcaa gaatgtgtcc attaagaggt gccagatcat
2281 ctataatggc tccacgtttg accttgagtc tgatggcaag ggcaaggttt tagtggagaa
2341 ggtcaaaagc acctccgttc agaccaacaa cgagctagcc ggagctctac accacctcag
2401 aagtgcccga atcaggtatt atgtcaaatg tatacaagaa gctgtctact ccatcttaca
2461 aattgccggc gctgcgttcg tcaccacacg tattgcgcgc cgcatgaaca tacaggaact
2521 ctggtcaagg ccaccattag accaaagtga gccagagact aaagaagaga cccccaagtt
2581 agaagatgat gagttcatca tatcctccaa agaaatcaag gaggaaggga agaagggcaa
2641 aaacaagact ggccgtggca agaaacatac tgcattctcg agcaagggct tgagcgatga
2701 ggagtatgac gagtacaaga gaataagaga agagagaaac ggaaagtact ctatagagga
2761 atatcttcaa gacagagaca ggtactatga ggaactcgcc attgccaagg ccacggaaga
2821 agacttctgc gaggaagaag aaattaaaat ccgccagagg atcttccgcc ccaccagaaa
2881 acaaagaaag gaagaaagag ccacgctagg gctagtgact ggttcagaga tcagaaagag
2941 aaatcctgat gacttcaaac ctaaagggaa gttgtgggct gacgacaaca gaagtgttga
3001 ctacaatgaa aagttggact ttgaggcccc cccaagtata tggtccagga ttgtgagctt
3061 tggttccggt tggggcttct gggtgtcacc aagtctgttc ataacatcaa ctcatgtaat
3121 ccctgcgggc ataacagagg catttggagt ccccatcaaa caagtccaag tccacaaatc
3181 aggtgaattt tgccggttca gattcccaaa accaattaga ccagatgtga cggggatgat
3241 cctggaagag ggtgcgccag aaggcactgt ggcaaccgtg ctgatcaagc gccccaccgg
3301 agagctcatg cccctcgcag ccagaatggg aacacacgcg accatgagaa ttcagggccg
3361 catggttggc gggcaaatgg gcatgctgct cactggttca aatgctaagg gtatggattt
3421 gggaacaact cccggtgact gtggctgccc gtacatctac aaaaggggca atgattatat
3481 agtcattgga gtgcacacag cagcagcccg tggtggaaac actgtcattt gcgccacaca
3541 gggaagtgag ggtgaggcga ctctcgaggg cggagatgac aaaggaacat actgcggggc
3601 acccatcctg ggccccggag gagcaccaaa attgagcacc aagaccaagt tttggaggtc
3661 atcgaatacg cccctcccac cagggacgta tgaacctgcc tatcttggtg gtcgtgatcc
3721 gcgtgtgaag ggtgggccct ccttgcaaca agttatgaga gatcaattga agcccttcac
3781 tgagcccagg ggtaaacctc caagacctag tgtgctggag gcagctaaac aaaccatcat
3841 caacgtcctc gagcaaactc tagatccccc acaaaagtgg acatacgcac aggcgtgtgc
3901 ttcgcttgat aagaccacct ctagtgggca cccccaccac gcccgaaaga atgagttctg
3961 gaatggtgag acctttattg gcaagttggc agaccaggca tcaaaagcaa acctgatgta
4021 tgaggaaggg aaacacatga caccagtata cacagcagcc ctcaaggacg agctggttaa
4081 aactgacaaa atctatggaa agatcaagaa gaggctgctt tggggctctg acttgtccac
4141 aatggtccga tgtgctaggg cctttggtgg gcttatggaa gagatgaagg cacattgcat
4201 atcactccca gtccgagtag gtatgaacat gaatgaggat ggcccaataa tatttgagaa
4261 gcactccagg tataagtacc attatgatgc agattactcc cgttgggatt caacacaaca
4321 aagagctgtt ctggcagctg ctttggaaat aatggtcaga ttctctgcag aaccacaatt
4381 ggcacaaaca gtcgctgaag atctgctggc ccctagtgta gtagatgtgg gagatttcaa
4441 aatctcaata aatgaggggc ttccttctgg tgtaccatgc acttcccagt ggaactctat
4501 cacacattgg ctgttaactc tctgtgctct gtctgaagtc actaacctgt cccctgacat
4561 cgtgcaggca aattccatgt tctcatttta cggtgatgat gagattgtca gcaccgatat
4621 aaaattagac cctgaaaagt taaccaccaa attgaaggaa tatggtctga aaccaacccg
4681 cccagacaaa actgagggac cactgattat cagcgaggat ctggacgggc tcaccttcct
4741 ccgaagaaca gtttcccgtg acccagctgg ctggttcgga aagttggatc aaagctcaat
4801 actgaggcaa atgtactgga ccagaggacc aaaccatgaa gaccccagtg aaacaatgat
4861 acctcactct caaagaccca tacagctcat ggcactgctt ggtgaggctt ccctccatgg
4921 accatctttc tacagcaaaa ttagcaaatt ggtcataact gaactcaaag aaggtgggat
4981 ggatttttac gtgccgaggc aggaacctat gttcaggtgg atgaggtttt ctgacttgag
5041 cacgtgggag ggcgatcgca atctggctcc cagctttgtg aatgaagatg gcgtcgaatg
5101 acgccgctcc atctaatgat ggtgccacgg gcctcgtccc agagatcaac aacgagaccc
5161 ttcctctgga accggtagcg ggtgcagcta ttgccgcgcc tgttactggc caaaataata
5221 taattgatcc ctggattaga acaaattttg tacaagcacc caatggggag ttcacagtct
5281 cacccagaaa ctctcctgga gaaattcttc taaatttgga attgggtcct gatttaaatc
5341 catatctggc acatctatct agaatgtaca atgggtacgc tggtggcgta gaagttcaag
5401 tcctcctcgc agggaatgcg ttcactgcag gaaagattct cttcgctgcc gttccaccaa
5461 atttcccagt tgaattcttg agtcctgcac aaatcaccat gttgccacat ttgatagttg
5521 atgttagaac ccttgaaccc atcatgatac cactccctga tgtcaggaac accttctttc
5581 attacaataa tcaacctgcc aatcgcatgc gattggtagc catgttgtac acccccctga
5641 gatctaatgg ttctggtgat gatgttttca cagtgtcatg tagagtgcta actagaccca
5701 ccccagattt tgagtttaca tatttggtcc ccccttcggt agagtctaag actaagccct
5761 tttctctgcc catactaacc atctctgaat tgaccaattc aagatttcct gtaccggtag
5821 attcattgtt cacagcccaa aacaataatc ttaatgtcca gtgtcaaaat ggtcgctgca
5881 ctttagatgg tgagttgcaa ggaaccactc agttgcaacc atcaggcatc tgcgccttca
5941 gaggcaaaat aacggcagat gtacgtccaa gccacgatga caggtggcat atgcaactga
6001 caaatctcaa tggaaccccc ttcgacccaa cagaggatgt accagctcca ctgggcaccc
6061 cagatttcac aggccttctc ttcggagtgg caagccaaag aaatgtccaa cctaacccaa
6121 acaccaccag ggcacatgaa gccgtgatat ccacaaccag ttcacagttt gtgccaaaat
6181 taggatcaat caactttggt agcacaagtg aagatttcat tgtgggccag cccacaaaat
6241 tcacaccagt tggcatcaag attgaggatg ggcatgcatt tgaccaatgg accctaccta
6301 ggtattcagg ccatttaact ctcaatatga accttgcccc acctgttgcc ccaaatttcc
6361 ctggtgaaca actactcttc tttaggtcaa atgtcccctg tgctggcggc attagtgatg
6421 gtgtcatcga ctgcctgctg cctcaggagt ggatacagca cttctaccaa gagtctgctc
6481 cctcccagtc cgatgtggcc ctgatcagat acgtcaaccc cgacacgggc cgcacacttt
6541 tcgaggcgaa actccataga acaggttaca tcactgttgc tcattcaggt gattatcccc
6601 ttgttgtccc ctccaatgga tactttagat ttgattcttg ggtgaaccaa ttttattcac
6661 ttgcccccat gggaactggg aatgggcgca gacgggtgca gtaatggctg gagctttcat
6721 agcaggtcta gcaggtgaca tgctcaccaa cacagttggc tcattggcaa acgccggggc
6781 caatgccatc acacaaaaga tagactttga aaacaacaaa cagctccaat ctgcctcctt
6841 ccaacatgac aaagacatgc tccaagcaca agtggctgcc accaagcagt tacaggctga
6901 tatgatcgcc atcaagcagg ggatactgac cgcgggcggc ttttccccta ctgatgcggc
6961 gagaggagca gtgggtgcac ccatgaccaa ggtcctcgac tggtctggta ctcgttactg
7021 ggctccaaat tccacgagga caacaggtta ctcagggcag ttcacatcag caccagtgca
7081 catgcccaca aaaaccattc agcctactcc tgttaaaagg actcaacctc tttcttcctc
7141 ttcaggtagt gtctatagtc ttccaacaca gagcaccgcc ttgactaagc cctcttcagg
7201 tccttctgtt tcttctgctt ctacacaatc tacaaaattg agttcagttt cttcaatgga
7261 tagaacagca aattgggtaa atcagcaaag aagccttagc cccttcatga gtggtgcact
7321 caacatatct catgtaacac ctccatcgag cagggcttcg agttcgggga cagtctcaac
7381 tgtacccaaa gaagttttgg actcctggac acctgcattc aacacacgca gacagccgct
7441 cttcgcacac ctcagagtga ggggggagtc acgtgtttag tgaaaagaat taattagttt
7501 taattagatt ttgtttgaat ttaattggat ctttt
//