Typing tool

Complete norovirus genomes

KX158279  GII.4 Sydney
 GII.P31

Length: 7,542 | 3 CDS

ORF1: 1..5094
ORF2: 5075..6697
ORF3: 6697..7503
LOCUS       KX158279                7542 bp    RNA     linear   VRL 03-DEC-2016
DEFINITION  Norovirus GII strain 13-38, complete genome.
ACCESSION   KX158279
VERSION     KX158279.1
KEYWORDS    .
SOURCE      Norovirus GII
  ORGANISM  Norovirus GII
            Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
            Picornavirales; Caliciviridae; Norovirus.
REFERENCE   1  (bases 1 to 7542)
  AUTHORS   Ronholm,J., Nasheri,N. and Petronella,N.
  TITLE     Whole Genome Sequencing of Norovirus
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 7542)
  AUTHORS   Ronholm,J., Nasheri,N. and Petronella,N.
  TITLE     Direct Submission
  JOURNAL   Submitted (26-APR-2016) Bureau of Microbial Hazards, Health Canada,
            251 Sir Frederick Banting Driveway, Ottawa, ON K1A 0K9, Canada
COMMENT     ##Assembly-Data-START##
            Assembly Method       :: SPAdes v. 3.7.1
            Coverage              :: 976
            Sequencing Technology :: Illumina
            ##Assembly-Data-END##
FEATURES             Location/Qualifiers
     source          1..7542
                     /organism="Norovirus GII"
                     /mol_type="genomic RNA"
                     /strain="13-38"
                     /host="Homo sapiens"
                     /db_xref="taxon:122929"
                     /country="Canada"
                     /collection_date="2015"
                     /note="genotype: GII"
     CDS             1..5094
                     /codon_start=1
                     /product="ORF1"
                     /protein_id="APE73899.1"
                     /translation="MASNDASAAAVANSNNDIAKSSSDGVFSNMAVTFKRALGARPKQ
                     PPPKEIPPRPPRPPTPELVKKIPPPPPNGEDELVVSYSAKDGVSGLPELTTVRQPEET
                     NTAFSVPPLNQRESRDAKEPLTGTIIEMWDGEIYHYGLYVERGLVLGVHKPPAAISLA
                     KVELAPLSLFWRPVYTPQYLISPDTLRRLHGESFPYTAFDNNCYAFCCWVLDLNDSWL
                     SRRMIQRTTGFFRPYQDWNRKPLPTMDDSKLKKVANIFLCTLSSLFTRPIKDIIGKLK
                     PLNILNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPEDLA
                     VELVPIVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFPKK
                     EEANELAMVRSIEDAVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARKLSTKS
                     ASPDIVGTINSLLARIAAARSLVHRAKEELSSRPRPVVVMISGRPGIGKTHLARELAK
                     KIAASLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTCPL
                     TLNCDRIENKGKVFDSDAIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEKAK
                     RDFPGQPDMWKNAFSPDFSHIKLSLAPQGGFDKNGNTPHGKGVMKTLTTGSLIARASG
                     LLHERLDEYELQGPALTTFNFDRNKILAFRQLAAENKYGLMDTMRVGKQLKDVKTMSD
                     LKQALKNIAIKKCQIVYNGSTYTLEADGKGSVKVDKVQSATVQTNNELAGALHHLRCA
                     RIRYYVKCVQEALYSIIQIAGAAFVTTRIAKRMNIQNLWSKPQVEDTEEMANKDGCLK
                     PKDDEEFVVSSDDIKTEGKKGKNKSGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKY
                     SIEEYLQDRDRYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGLVTG
                     SEIRKRNPEDFKPKGKLWADDDRSVDYNEKLNFEAPPSIWSRIVNFGSGWGFWVSPSL
                     FITSTHVIPQGAKEFFGVPIKQIQIHKSGEFCRLRFPKPIRTDVTGMILEEGAPEGTV
                     ATLLIKRPTGELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGDCG
                     CPYIYKRGNDYVVIGVHTAAARGGNTVICATQGSEGEATLEGGDSKGTYCGAPILGPG
                     SAPKLSTKTKFWRSSTTPLPPGTYEPAYLGGRDPRVKGGPSLQQVMRDQLKPFTEPRG
                     KPPRPNVLEAAKKTIINVLEQTIDPPQKWSFAQACASLDKTTSSGHPHHMRKNDCWNG
                     ESFTGKLADQASKANLMFEEGKNMTPVYTGALKDELVKTDKVYGKVKKRLLWGSDLAT
                     MIRCARAFGGLMDELKAHCVTLPVRVGMNMNEDGPIIFEKHSRYRYHYDADYSRWDST
                     QQRDVLAAALEIMVKFSPEPHLAQIVAEDLLSPSVMDVGDFQISISEGLPSGVPCTSQ
                     WNSIAHWLLTLCALSEVTDLSPDIIQANSLFSFYGDDEIVSTDIKLDPEKLTAKLKEY
                     GLKPTRPDKTEGPLVISEDLDGLTFLRRTVTRDPAGWFGKLEQSSILRQMYWTRGPNH
                     EDPFETMIPHSQRPIQLMSLLGEAALHGPAFYSKISKLVIAELKEGGMDFYVPRQEPM
                     FRWMRFSDLSTWEGDRNLAPSFVNEDGVE"
     CDS             5075..6697
                     /codon_start=1
                     /product="VP1"
                     /protein_id="APE73900.1"
                     /translation="MKMASSDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ
                     QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
                     FEVQVILAGNAFTAGKVIFAAVPPNFPTEGLSPSQVTMFPHIVVDVRQLEPVLIPLPD
                     VRNNFYHYNQSNDPTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP
                     TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT
                     QLSPVNICTFRGDVTHITGSRNYTMNLASQNWNNYDPTEEIPAPLGTPDFVGKIQGVL
                     TQTTRTDGSTRGHKATVYTGSADFAPKLGRVQFETDTDHDFEANQNTKFTPVGVIQDG
                     STTHRNEPQQWVLPSYSGRNTPNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD
                     CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV
                     IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRAL"
     CDS             6697..7503
                     /codon_start=1
                     /product="VP2"
                     /protein_id="APE73901.1"
                     /translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA
                     SFQFSSNLQQASFQHDKEMLQAQIEATKRLQQEMMKVKQAMLLEGGFSDTDAARGAIN
                     APMTKALDWSGTRYWAPDARTTTYNAGRFSTPQPSGALPGRANLRDAVPARGSSSKSS
                     NFSTATSVYSNQTTSTRLGSTAGSGTSVSSFPSTARTRSWVEDQSRNLSPFMRGAHNI
                     SFVTPPSSRSSSQGTVSTVPKEVLDSWTGAFNTRRQPLFAHIRKRGESRA"
ORIGIN      
        1 atggcgtcta acgacgcttc cgctgccgct gttgccaaca gcaacaacga catcgcaaaa
       61 tcttcaagtg acggtgtgtt ttctaacatg gctgtcactt ttaagcgggc cctcggggcg
      121 cggcctaaac agccgccccc gaaggaaata ccacccagac ccccgcgacc acccacacca
      181 gaattggtca aaaagatccc tcctccccca cccaacgggg aggatgaact agtggtctct
      241 tacagcgcca aagatggcgt ttccggactg cctgagctca ccactgtcag acaaccggaa
      301 gaaaccaaca cggcgttcag tgtcccccca ctcaaccaaa gggagagcag ggacgccaag
      361 gagccactga ctggaacaat cattgaaatg tgggatggag aaatctacca ttacggcctg
      421 tacgtggagc gaggtcttgt acttggtgtg cacaagccac cggcagccat tagccttgcc
      481 aaggtcgagc tagcaccgct ctctttgttc tggagacctg tatacacccc ccagtatctc
      541 atctctccag acactcttag gagattacat ggagagtcat tcccctacac tgcatttgac
      601 aacaattgct acgccttttg ttgttgggta ttagacctaa acgactcatg gctaagcagg
      661 agaatgattc agagaacaac aggtttcttc aggccgtacc aggattggaa caggaaaccc
      721 ctccccacta tggatgattc caaattaaag aaggtagcca acatattctt gtgcactttg
      781 tcttcactat tcaccagacc cattaaggac ataataggga agttgaaacc tcttaacatc
      841 cttaatattc tggctacatg tgattggacc ttcgcaggca tagtggaatc cttaatactc
      901 ttggcagaac tctttggagt tttctggaca cccccagatg tgtctgcgat gatcgccccc
      961 ttgctaggtg attatgaact gcaaggacct gaggaccttg cagtggaact ggtcccaata
     1021 gtgatggggg ggataggttt ggtgctagga tttaccaaag agaaaatcgg aaagatgcta
     1081 tcatccgctg catccacttt aagagcttgt aaagaccttg gtgcatacgg actggaaatc
     1141 ttaaaattgg tcatgaagtg gttcttccca aagaaagagg aagcaaatga actggctatg
     1201 gtgagatcca tcgaggatgc agtactagac ctcgaggcaa ttgaaaacaa ccacatgacc
     1261 accctactca aagacaaaga cagcttagca acctacatga gaacccttga ccttgaggag
     1321 gagaaagcca gaaaactctc aaccaaatct gcttcacccg atattgtggg cacaatcaac
     1381 tctcttctgg caagaatcgc tgctgcacgc tccctagtgc atcgggcgaa agaagagctc
     1441 tccagcaggc cgagacctgt cgttgtgatg atatcgggaa gaccagggat agggaaaact
     1501 caccttgcca gggagctggc caagaagatc gcggcctccc tcacagggga ccagcgtgtg
     1561 ggtcttatcc cacgcaatgg tgtcgaccac tgggacgcat acaagggcga aagagttgtc
     1621 ctatgggacg actatggaat gagcaacccc atccatgatg ccctcaggtt gcaggagctt
     1681 gctgacactt gcccccttac gctaaattgt gacagaattg agaacaaagg gaaagtcttt
     1741 gacagtgatg ccataattat caccaccaat ctggccaacc cagcaccact ggattatgtc
     1801 aactttgaag cgtgctcgag acgcattgac ttcctcgtgt acgcagaagc ccctgaggtg
     1861 gagaaggcaa agcgcgactt cccaggtcaa cctgacatgt ggaagaacgc tttcagtcct
     1921 gacttctcac acataaaact gtcattggct ccacagggtg gttttgacaa gaacggcaac
     1981 accccgcatg gaaaaggggt catgaagacc ctcaccactg gctccctcat cgcccgagca
     2041 tcagggttac tccatgagag gctagatgaa tatgaactgc aaggcccagc cctcaccact
     2101 ttcaactttg accgcaacaa gatacttgct tttagacagc ttgctgctga aaacaagtat
     2161 gggctgatgg acacaatgag agttggaaaa cagctcaagg atgtcaagac catgtcagac
     2221 ctcaaacaag cactcaagaa catcgcgatc aagaagtgcc agatagtgta caatggtagc
     2281 acctacacac ttgaggctga tggcaagggt agtgtgaaag ttgacaaagt gcagagtgcc
     2341 actgtgcaga ccaacaatga actagccggt gccctacacc acctaaggtg cgctagaatc
     2401 agatactatg ttaagtgcgt ccaggaggca ctatattcca tcatccaaat cgctggggct
     2461 gcattcgtca ccacgcgcat cgctaagcgc atgaatatac agaatctctg gtccaagcca
     2521 caggtggaag acacagaaga gatggccaac aaagatggtt gcctaaaacc caaagatgat
     2581 gaagagtttg tcgtctcatc cgacgacatc aaaactgagg gcaagaaagg gaagaacaag
     2641 tccggccgtg gcaagaagca cacagccttc tcaagcaaag ggctcagtga tgaggagtac
     2701 gatgagtaca agagaatcag agaagaaagg aatggtaagt actccataga agagtacctt
     2761 caggacagag acaggtacta cgaggaggtg gccattgcca gggcaaccga agaggacttc
     2821 tgtgaagaag aagaggccaa aatccggcag agaattttca gaccaacaag gaaacaacgc
     2881 aaagaagaga gggcctctct cggcttggtc acaggctctg aaatcaggaa gagaaaccca
     2941 gaagacttca aacccaaggg aaagttgtgg gctgatgatg acagaagtgt tgactacaat
     3001 gagaaactca actttgaggc cccaccaagc atctggtcgc ggatagtcaa ctttggttca
     3061 ggctggggct tctgggtctc ccccagtctg tttataacat caacccatgt cataccccaa
     3121 ggtgcaaaag agttcttcgg agtccctatc aagcaaatcc agatacacaa atcaggtgaa
     3181 ttctgccggt tgagattccc aaagccaatt agaactgatg tgacgggcat gattctagaa
     3241 gaaggtgcgc ccgaggggac cgtggccaca ctgctcatca agagaccaac tggagagctc
     3301 atgcctctgg cagccagaat ggggacccat gcaaccatga aaattcaggg gcgcacagtt
     3361 ggagggcaaa tgggtatgct cctgacagga tccaacgcca agagtatgga cctaggcaca
     3421 acaccaggcg actgcggctg cccctacatc tacaagaggg ggaatgacta cgtggtcata
     3481 ggagtccata cggccgctgc ccgtggagga aacactgtca tatgtgccac ccaggggagt
     3541 gagggagaag ccacacttga aggaggtgac agtaaaggga catactgtgg cgcaccaatc
     3601 ttgggcccag ggagcgctcc gaagctcagt accaagacta agttttggag atcatccaca
     3661 acaccactcc cacctggcac ctacgaacca gcctacctcg gtggcagaga ccctagagtc
     3721 aaaggtggcc cttcattgca acaagttatg agggaccagc tgaagccatt cacagaaccc
     3781 agaggcaaac caccaagacc aaatgtgttg gaagctgcca agaaaaccat catcaatgtc
     3841 cttgagcaaa caattgatcc accccaaaaa tggtcatttg cgcaagcttg cgcatccctt
     3901 gacaaaacca cctccagcgg ccacccgcac cacatgcgga aaaacgactg ttggaatggg
     3961 gagtccttca caggaaaatt ggctgatcaa gcctccaagg ccaacctaat gtttgaagag
     4021 ggaaagaaca tgactccagt ttacacaggt gcacttaaag atgagttggt aaagaccgat
     4081 aaagtttatg gtaaggtcaa gaagaggctt ctgtggggtt cagatctggc gaccatgata
     4141 cggtgcgccc gagcttttgg aggccttatg gatgaactca aggcacactg tgtcacactt
     4201 cctgtcagag ttggtatgaa catgaatgag gatggcccca tcatctttga gaagcactcc
     4261 agatatagat atcactatga tgctgattat tcccggtggg actcaacaca acaaagggat
     4321 gtgctagcag cagcactaga aatcatggtt aagttctctc cagaaccaca cctggcccag
     4381 atagttgcag aagacctcct ttcccctagc gtaatggatg taggtgactt tcaaatatca
     4441 ataagtgagg gtctcccctc tggggtacct tgtacctccc agtggaattc catcgcccac
     4501 tggctcctca ctctgtgtgc actctctgaa gtcacggacc tgtcccctga tatcattcag
     4561 gccaactccc ttttctcctt ctatggtgat gatgagattg taagcacaga cataaagttg
     4621 gacccagaga agctgacagc aaaactcaag gagtacgggc tgaaaccaac ccgccccgac
     4681 aaaactgaag gaccccttgt tatctctgaa gacctggatg gcctgacatt cctccggaga
     4741 actgtgaccc gtgatccagc tggctggttt ggaaaattgg aacaaagttc aattctcagg
     4801 caaatgtact ggaccagggg tcccaaccat gaagatccat ttgaaacaat gataccacac
     4861 tcccaaagac ccatacaatt gatgtccttg ctgggcgagg ctgcactcca cggcccggca
     4921 ttctatagta aaattagcaa attagtcatt gcagagttga aggaaggtgg catggatttt
     4981 tacgtgccca gacaagagcc aatgttcaga tggatgagat tctcagatct gagcacgtgg
     5041 gagggcgatc gcaatctggc tcccagtttt gtgaatgaag atggcgtcga gtgacgccaa
     5101 cccatctgat gggtccgcag ccaacctcgt cccagaggtc aacaatgagg ttatggctct
     5161 ggagcccgtt gttggtgccg ccattgcggc acctgtagcg ggccagcaaa atgtaattga
     5221 cccctggatt agaaataatt ttgtacaagc ccctggtgga gagtttacag tatcccctag
     5281 aaacgctcca ggtgaaatac tatggagcgc gcccttgggc cctgatctaa atccctacct
     5341 atcccatttg gccagaatgt acaatggtta tgcaggtggt tttgaagtgc aggtaattct
     5401 cgcggggaac gcgttcaccg ccgggaaggt catatttgca gcagtcccac caaattttcc
     5461 aactgaaggc ttgagcccca gccaggtcac tatgttcccc catatagtag tagatgttag
     5521 gcaactagaa cctgtgttga ttcccttacc cgatgttagg aataatttct atcattacaa
     5581 tcaatcaaat gaccccacca ttaagttgat agcaatgttg tatacaccac ttagggctaa
     5641 taatgctggg gatgatgtct tcacagtttc ttgccgagtt ctcacgagac catcccccga
     5701 ttttgatttc atatttctag tgccacccac agttgagtca agaaccaaac cattctctgt
     5761 cccagtttta actgttgagg agatgaccaa ttcaagattc cccattcctt tggaaaagtt
     5821 gttcacgggt cccagcagtg cctttgttgt ccaaccacaa aacggcaggt gcacgactga
     5881 tggcgtgctc ctaggcacca cccaactgtc tcctgtcaac atctgcacct tcagaggaga
     5941 tgtcacccat atcacaggta gtcgtaacta cacaatgaat ttggcttctc aaaattggaa
     6001 caattatgac ccaacagaag aaatcccagc ccctctagga actccagatt ttgtggggaa
     6061 gattcaaggc gtgctcaccc aaaccacgag gacagatggc tcaacacgtg gccacaaagc
     6121 tacagtgtac actgggagcg ccgactttgc tccaaaactg ggtagagttc aatttgaaac
     6181 tgacacagac catgattttg aagctaacca aaacacaaag ttcaccccag ttggtgtcat
     6241 ccaagatggt agcaccaccc accgaaatga accccaacag tgggtgctcc caagttactc
     6301 aggcagaaat actcctaatg tgcatctggc ccctgctgta gcccccactt ttccgggtga
     6361 gcaacttctc ttcttcagat ccaccatgcc cggatgcagc gggtacccca acatggattt
     6421 ggactgtctg ctcccccagg aatgggtgca gtacttctac caagaggcag ccccagcaca
     6481 atctgatgtg gctctgctaa gatttgtgaa tccagacaca ggtagggttt tgtttgagtg
     6541 taagcttcat aaatcaggct atgttacagt ggctcacact ggccaacatg atttggttat
     6601 cccccccaat ggttatttta ggtttgattc ctgggtcaac cagttttaca cgcttgcccc
     6661 catgggaaat ggaacggggc gtagacgtgc actataatgg ctggagcttt ctttgctgga
     6721 ctggcatctg atgtccttgg ctccggactt ggttccctca tcaatgctgg ggctggggcc
     6781 atcaaccaaa aagttgagtt tgaaaataac agaaaattgc aacaagcatc cttccaattt
     6841 agcagcaatc tacaacaggc ttcctttcaa catgacaaag agatgctcca agcacaaatt
     6901 gaggccacca aaaggctaca acaggaaatg atgaaagtta agcaggcaat gctcctagag
     6961 ggtgggttct ctgacacaga tgcagcccgc ggggcaatca acgcccccat gacaaaagct
     7021 ttggactgga gcgggacaag gtactgggct cccgatgcta ggactacaac atacaatgca
     7081 ggccgctttt ccacccctca accatcgggg gcactgccag gaagagctaa tcttagggat
     7141 gctgtccctg ctcggggttc ctccagcaag tcttctaatt tttctactgc tacttctgtg
     7201 tattcaaatc aaactacttc aacgagactt ggttctacag ctggttctgg taccagtgtc
     7261 tcgagcttcc cgtcaactgc aaggactagg agctgggttg aggatcaaag taggaatttg
     7321 tcacctttca tgaggggggc ccacaacata tcgtttgtca ccccaccatc tagcagatcc
     7381 tctagccaag gcacagtctc aaccgtgcct aaagaggttt tggactcctg gactggcgct
     7441 ttcaacacgc gcaggcagcc actcttcgct cacattcgta agcgagggga gtcacgggcg
     7501 taatgtgaaa agacaaaatt gattatcttt ctttctcttt ag
//