Typing tool

Complete norovirus genomes

KX158280  GII.4 Sydney
 GII.P31

Length: 7,512 | 3 CDS

ORF1: 86..5092
ORF2: 5073..6695
ORF3: 6695..7501
LOCUS       KX158280                7512 bp    RNA     linear   VRL 03-DEC-2016
DEFINITION  Norovirus GII strain 13-39, complete genome.
ACCESSION   KX158280
VERSION     KX158280.1
KEYWORDS    .
SOURCE      Norovirus GII
  ORGANISM  Norovirus GII
            Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
            Picornavirales; Caliciviridae; Norovirus.
REFERENCE   1  (bases 1 to 7512)
  AUTHORS   Nasheri,N., Ronholm,J. and Petronella,N.
  TITLE     Norovirus Genome sequencing and assembly
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 7512)
  AUTHORS   Nasheri,N., Ronholm,J. 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
            Assembly Name         :: Isolate 13-39
            Coverage              :: 121x
            Sequencing Technology :: Illumina
            ##Assembly-Data-END##
FEATURES             Location/Qualifiers
     source          1..7512
                     /organism="Norovirus GII"
                     /mol_type="genomic RNA"
                     /strain="13-39"
                     /host="Homo sapiens"
                     /db_xref="taxon:122929"
                     /country="Canada"
                     /collection_date="2015"
                     /note="genotype: GII"
     CDS             86..5092
                     /codon_start=1
                     /product="ORF1"
                     /protein_id="APE73902.1"
                     /translation="MAVTFKRALGARPKQPPPKEIPPRPPRPPTPELVKKIPPPPPNG
                     EDELVVSYSAKDGVSGLPELTTVRQPEETNTAFSVPPLNQRESRDAKEPLTGTIIEMW
                     DGEIYHYGLYVERGLVLGVHKPPAAISLAKVELAPLSLFWRPVYTPQYLISPDTLRRL
                     HGESFPYTAFDNNCYAFCCWVLDLNDSWLSRRMIQRTTGFFRPYQDWNRKPLPTMDDS
                     KLKKVANIFLCTLSSLFTRPIKDIIGKLKPLNILNILATCDWTFAGIVESLILLAELF
                     GVFWTPPDVSAMIAPLLGDYELQGPEDLAVELVPIVMGGIGLVLGFTKEKIGKMLSSA
                     ASTLRACKDLGAYGLEILKLVMKWFFPKKEEANELAMVRSIEDAVLDLEAIENNHMTT
                     LLKDKDSLATYMRTLDLEEEKARKLSTKSASPDIVGTINSLLARIAAARSLVHRAKEE
                     LSSRPRPVVVMISGRPGIGKTHLARELAKKIAASLTGDQRVGLIPRNGVDHWDAYKGE
                     RVVLWDDYGMSNPIHDALRLQELADTCPLTLNCDRIENKGKVFDSDAIIITTNLANPA
                     PLDYVNFEACSRRIDFLVYAEAPEVEKAKRDFPGQPDMWKNAFSPDFSHIKLSLAPQG
                     GFDKNGNTPHGKGVMKTLTTGSLIARASGLLHERLDEYELQGPALTTFNFDRNKILAF
                     RQLAAENKYGLMDTMRVGKQLKDVKTMSDLKQALKNIAIKKCQIVYNGSTYTLEADGK
                     GSVKVDKVQSATVQTNNELAGALHHLRCARIRYYVKCVQEALYSIIQIAGAAFVTTRI
                     AKRMNIQNLWSKPQVEDTEEMANKDGCLKPKDDEEFVVSSDDIKTEGKKGKNKSGRGK
                     KHTAFSSKGLSDEEYDEYKRIREERNGKYSIEEYLQDRDRYYEEVAIARATEEDFCEE
                     EEAKIRQRIFRPTRKQRKEERASLGLVTGSEIRKRNPEDFKPKGKLWADDDRSVDYNE
                     KLNFEAPPSIWSRIVNFGSGWGFWVSPSLFITSTHVIPQGAKEFFGVPIKQIQIHKSG
                     EFCRLRFPKPIRTDVTGMILEEGAPEGTVATLLIKRPTGELMPLAARMGTHATMKIQG
                     RTVGGQMGMLLTGSNAKSMDLGTTPGDCGCPYIYKRGNDYVVIGVHTAAARGGNTVIC
                     ATQGSEGEATLEGGDSKGTYCGAPILGPGSAPKLSTKTKFWRSSTTPLPPGTYEPAYL
                     GGRDPRVKGGPSLQQVMRDQLKPFTEPRGKPPRPNVLEAAKKTIINVLEQTIDPPQKW
                     SFAQACASLDKTTSSGHPHHMRKNDCWNGESFTGKLADQASKANLMFEEGKNMTPVYT
                     GALKDELVKTDKVYGKVKKRLLWGSDLATMIRCARAFGGLMDELKAHCVTLPVRVGMN
                     MNEDGPIIFEKHSRYRYHYDADYSRWDSTQQRDVLAAALEIMVKFSPEPHLAQIVAED
                     LLSPSVMDVGDFQISISEGLPSGVPCTSQWNSIAHWLLTLCALSEVTDLSPDIIQANS
                     LFSFYGDDEIVSTDIKLDPEKLTAKLKEYGLKPTRPDKTEGPLVISEDLDGLTFLRRT
                     VTRDPAGWFGKLEQSSILRQMYWTRGPNHEDPFETMIPHSQRPIQLMSLLGEAALHGP
                     AFYSKISKLVIAELKEGGMDFYVPRQEPMFRWMRFSDLSTWEGDRNLAPSFVNEDGVE
                     "
     CDS             5073..6695
                     /codon_start=1
                     /product="VP1"
                     /protein_id="APE73903.1"
                     /translation="MKMASSDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ
                     QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
                     FEVQVILAGNAFTAGKVIFAAVPPNFPTEGLSPSQVTMFPHIVVDVRQLEPVLIPLPD
                     VRNNFYHYNQSNDPTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP
                     TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT
                     QLSPVNICTFRGDVTHITGSRNYTMNLASQNWNNYDPTEEIPAPLGTPDFVGKIQGVL
                     TQTTRTDGSTRGHKATVYTGSADFAPKLGRVQFETDTDHDFEANQNTKFTPVGVIQDG
                     STTHRNEPQQWVLPSYSGRNTPNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD
                     CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV
                     IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRAL"
     CDS             6695..7501
                     /codon_start=1
                     /product="VP2"
                     /protein_id="APE73904.1"
                     /translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA
                     SFQFSSNLQQASFQHDKEMLQAQIEATKRLQQEMMKVKQAMLLEGGFSDTDAARGAIN
                     APMTKALDWSGTRYWAPDARTTTYNAGRFSTPQPSGALPGRANLRDAVPARGSSSKSS
                     NFSTATSVYSNQTTSTRLGSTAGSGTSVSSFPSTARTRSWVEDQSRNLSPFMRGAHNI
                     SFVTPPSSRSSSQGTVSTVPKEVLDSWTGAFNTRRQPLFAHIRKRGESRA"
ORIGIN      
        1 ggcgtctaac gacgcttccg ctgccgctgt tgccaacagc aacaacgaca tcgcaaaatc
       61 ttcaagtgac ggtgtgtttt ctaacatggc tgtcactttt aagcgggccc tcggggcgcg
      121 gcctaaacag ccgcccccga aggaaatacc acccagaccc ccgcgaccac ccacaccaga
      181 attggtcaaa aagatccctc ctcccccacc caacggggag gatgaactag tggtctctta
      241 cagcgccaaa gatggcgttt ccggactgcc tgagctcacc actgtcagac aaccggaaga
      301 aaccaacacg gcgttcagtg tccccccact caaccaaagg gagagcaggg acgccaagga
      361 gccactgact ggaacaatca ttgaaatgtg ggatggagaa atctaccatt acggcctgta
      421 cgtggagcga ggtcttgtac ttggtgtgca caagccaccg gcagccatta gccttgccaa
      481 ggtcgagcta gcaccgctct ctttgttctg gagacctgta tacacccccc agtatctcat
      541 ctctccagac actcttagga gattacatgg agagtcattc ccctacactg catttgacaa
      601 caattgctac gccttttgtt gttgggtatt agacctaaac gactcatggc taagcaggag
      661 aatgattcag agaacaacag gtttcttcag gccgtaccag gattggaaca ggaaacccct
      721 ccccactatg gatgattcca aattaaagaa ggtagccaac atattcttgt gcactttgtc
      781 ttcactattc accagaccca ttaaggacat aataggaaag ttgaaacctc ttaacatcct
      841 taatattctg gctacatgtg attggacctt cgcaggcata gtggaatcct taatactctt
      901 ggcagaactc tttggagttt tctggacacc cccagatgtg tctgcgatga tcgccccctt
      961 gctaggtgat tatgaactgc aaggacctga ggaccttgca gtggaactgg tcccaatagt
     1021 gatggggggg ataggtttgg tgctaggatt taccaaagag aaaatcggaa agatgctatc
     1081 atccgctgca tccactttaa gagcttgtaa agaccttggt gcatacggac tggaaatctt
     1141 aaaattggtc atgaagtggt tcttcccaaa gaaagaggaa gcaaatgaac tggctatggt
     1201 gagatccatc gaggatgcag tactagacct cgaggcaatt gaaaacaacc acatgaccac
     1261 cctactcaaa gacaaagaca gcttagcaac ctacatgaga acccttgacc ttgaggagga
     1321 gaaagccaga aaactctcaa ccaaatctgc ttcacccgat attgtgggca caatcaactc
     1381 tcttctggca agaatcgctg ctgcacgctc cctagtgcat cgggcgaaag aagagctctc
     1441 cagcaggccg agacctgtcg ttgtgatgat atcgggaaga ccagggatag ggaaaactca
     1501 ccttgccagg gagctggcca agaagatcgc ggcctccctc acaggggacc agcgtgtggg
     1561 tcttatccca cgcaatggtg tcgaccactg ggacgcatac aagggcgaaa gagttgtcct
     1621 atgggacgac tatggaatga gcaaccccat ccatgatgcc ctcaggttgc aggagcttgc
     1681 tgacacttgc ccccttacgc taaattgtga cagaattgag aacaaaggga aagtctttga
     1741 cagtgatgcc ataattatca ccaccaatct ggccaaccca gcaccactgg attatgtcaa
     1801 ctttgaagcg tgctcgagac gcattgactt cctcgtgtac gcagaagccc ctgaggtgga
     1861 gaaggcaaag cgcgacttcc caggtcaacc tgacatgtgg aagaacgctt tcagtcctga
     1921 cttctcacac ataaaactgt cattggctcc acagggtggt tttgacaaga acggcaacac
     1981 cccgcatgga aaaggggtca tgaagaccct caccactggc tccctcatcg cccgagcatc
     2041 agggttactc catgagaggc tagatgaata tgaactgcaa ggcccagccc tcaccacttt
     2101 caactttgac cgcaacaaga tacttgcttt tagacagctt gctgctgaaa acaagtatgg
     2161 gctgatggac acaatgagag ttggaaaaca gctcaaggat gtcaagacca tgtcagacct
     2221 caaacaagca ctcaagaaca tcgcgatcaa gaagtgccag atagtgtaca atggtagcac
     2281 ctacacactt gaggctgatg gcaagggtag tgtgaaagtt gacaaagtgc agagtgccac
     2341 tgtgcagacc aacaatgaac tagccggtgc cctacaccac ctaaggtgcg ctagaatcag
     2401 atactatgtt aagtgcgtcc aggaggcact atattccatc atccaaatcg ctggggctgc
     2461 attcgtcacc acgcgcatcg ctaagcgcat gaatatacag aatctctggt ccaagccaca
     2521 ggtggaagac acagaagaga tggccaacaa agatggttgc ctaaaaccca aagatgatga
     2581 agagtttgtc gtctcatccg acgacatcaa aactgagggc aagaaaggga agaacaagtc
     2641 cggccgtggc aagaagcaca cagccttctc aagcaaaggg ctcagtgatg aggagtacga
     2701 tgagtacaag agaatcagag aagaaaggaa tggtaagtac tccatagaag agtaccttca
     2761 ggacagagac aggtactacg aggaggtggc cattgccagg gcaaccgaag aggacttctg
     2821 tgaagaagaa gaggccaaaa tccggcagag aattttcaga ccaacaagga aacaacgcaa
     2881 agaagagagg gcctctctcg gcttggtcac aggctctgaa atcaggaaga gaaacccaga
     2941 agacttcaaa cccaagggaa agttgtgggc tgatgatgac agaagtgttg actacaatga
     3001 gaaactcaac tttgaggccc caccaagcat ctggtcgcgg atagtcaact ttggttcagg
     3061 ctggggcttc tgggtctccc ccagtctgtt tataacatca acccatgtca taccccaagg
     3121 tgcaaaagag ttcttcggag tccctatcaa gcaaatccag atacacaaat caggtgaatt
     3181 ctgccggttg agattcccaa agccaattag aactgatgtg acgggcatga ttctagaaga
     3241 aggtgcgccc gaggggaccg tggccacact gctcatcaag agaccaactg gagagctcat
     3301 gcctctggca gccagaatgg ggacccatgc aaccatgaaa attcaggggc gcacagttgg
     3361 agggcaaatg ggtatgctcc tgacaggatc caacgccaag agtatggacc taggcacaac
     3421 accaggcgac tgcggctgcc cctacatcta caagaggggg aatgactacg tggtcatagg
     3481 agtccatacg gccgctgccc gtggaggaaa cactgtcata tgtgccaccc aggggagtga
     3541 gggagaagcc acacttgaag gaggtgacag taaagggaca tactgtggcg caccaatctt
     3601 gggcccaggg agcgctccga agctcagtac caagactaag ttttggagat catccacaac
     3661 accactccca cctggcacct acgaaccagc ctacctcggt ggcagagacc ctagagtcaa
     3721 aggtggccct tcattgcaac aagttatgag ggaccagctg aagccattca cagaacccag
     3781 aggcaaacca ccaagaccaa atgtgttgga agctgccaag aaaaccatca tcaatgtcct
     3841 tgagcaaaca attgatccac cccaaaaatg gtcatttgcg caagcttgcg catcccttga
     3901 caaaaccacc tccagcggcc acccgcacca catgcggaaa aacgactgtt ggaatgggga
     3961 gtccttcaca ggaaaattgg ctgatcaagc ctccaaggcc aacctaatgt ttgaagaggg
     4021 aaagaacatg actccagttt acacaggtgc acttaaagat gagttggtaa agaccgataa
     4081 agtttatggt aaggtcaaga agaggcttct gtggggttca gatctggcga ccatgatacg
     4141 gtgcgcccga gcttttggag gccttatgga tgaactcaag gcacactgtg tcacacttcc
     4201 tgtcagagtt ggtatgaaca tgaatgagga tggccccatc atctttgaga agcactccag
     4261 atatagatat cactatgatg ctgattattc ccggtgggac tcaacacaac aaagggatgt
     4321 gctagcagca gcactagaaa tcatggttaa gttctctcca gaaccacacc tggcccagat
     4381 agttgcagaa gacctccttt cccctagcgt aatggatgta ggtgactttc aaatatcaat
     4441 aagtgagggt ctcccctctg gggtaccttg tacctcccag tggaattcca tcgcccactg
     4501 gctcctcact ctgtgtgcac tctctgaagt cacggacctg tcccctgata tcattcaggc
     4561 caactccctt ttctccttct atggtgatga tgagattgta agcacagaca taaagttgga
     4621 cccagagaag ctgacagcaa aactcaagga gtacgggctg aaaccaaccc gccccgacaa
     4681 aactgaagga ccccttgtta tctctgaaga cctggatggc ctgacattcc tccggagaac
     4741 tgtgacccgt gatccagctg gctggtttgg aaaattggaa caaagttcaa ttctcaggca
     4801 aatgtactgg accaggggtc ccaaccatga agatccattt gaaacaatga taccacactc
     4861 ccaaagaccc atacaattga tgtccttgct gggcgaggct gcactccacg gcccggcatt
     4921 ctatagtaaa attagcaaat tagtcattgc agagttgaag gaaggtggca tggattttta
     4981 cgtgcccaga caagagccaa tgttcagatg gatgagattc tcagatctga gcacgtggga
     5041 gggcgatcgc aatctggctc ccagttttgt gaatgaagat ggcgtcgagt gacgccaacc
     5101 catctgatgg gtccgcagcc aacctcgtcc cagaggtcaa caatgaggtt atggctctgg
     5161 agcccgttgt tggtgccgcc attgcggcac ctgtagcggg ccagcaaaat gtaattgacc
     5221 cctggattag aaataatttt gtacaagccc ctggtggaga gtttacagta tcccctagaa
     5281 acgctccagg tgaaatacta tggagcgcgc ccttgggccc tgatctaaat ccctacctat
     5341 cccatttggc cagaatgtac aatggttatg caggtggttt tgaagtgcag gtaattctcg
     5401 cggggaacgc gttcaccgcc gggaaggtca tatttgcagc agtcccacca aattttccaa
     5461 ctgaaggctt gagccccagc caggtcacta tgttccccca tatagtagta gatgttaggc
     5521 aactagaacc tgtgttgatt cccttacccg atgttaggaa taatttctat cattacaatc
     5581 aatcaaatga ccccaccatt aagttgatag caatgttgta tacaccactt agggctaata
     5641 atgctgggga tgatgtcttc acagtttctt gccgagttct cacgagacca tcccccgatt
     5701 ttgatttcat atttctagtg ccacccacag ttgagtcaag aaccaaacca ttctctgtcc
     5761 cagttttaac tgttgaggag atgaccaatt caagattccc cattcctttg gaaaagttgt
     5821 tcacgggtcc cagcagtgcc tttgttgtcc aaccacaaaa cggcaggtgc acgactgatg
     5881 gcgtgctcct aggcaccacc caactgtctc ctgtcaacat ctgcaccttc agaggagatg
     5941 tcacccatat cacaggtagt cgtaactaca caatgaattt ggcttctcaa aattggaaca
     6001 attatgaccc aacagaagaa atcccagccc ctctaggaac tccagatttt gtggggaaga
     6061 ttcaaggcgt gctcacccaa accacgagga cagatggctc aacacgtggc cacaaagcta
     6121 cagtgtacac tgggagcgcc gactttgctc caaaactggg tagagttcaa tttgaaactg
     6181 acacagacca tgattttgaa gctaaccaaa acacaaagtt caccccagtt ggtgtcatcc
     6241 aagatggtag caccacccac cgaaatgaac cccaacagtg ggtgctccca agttactcag
     6301 gcagaaatac tcctaatgtg catctggccc ctgctgtagc ccccactttt ccgggtgagc
     6361 aacttctctt cttcagatcc accatgcccg gatgcagcgg gtaccccaac atggatttgg
     6421 actgtctgct cccccaggaa tgggtgcagt acttctacca agaggcagcc ccagcacaat
     6481 ctgatgtggc tctgctaaga tttgtgaatc cagacacagg tagggttttg tttgagtgta
     6541 agcttcataa atcaggctat gttacagtgg ctcacactgg ccaacatgat ttggttatcc
     6601 cccccaatgg ttattttagg tttgattcct gggtcaacca gttttacacg cttgccccca
     6661 tgggaaatgg aacggggcgt agacgtgcac tataatggct ggagctttct ttgctggact
     6721 ggcatctgat gtccttggct ccggacttgg ttccctcatc aatgctgggg ctggggccat
     6781 caaccaaaaa gttgagtttg aaaataacag aaaattgcaa caagcatcct tccaatttag
     6841 cagcaatcta caacaggctt cctttcaaca tgacaaagag atgctccaag cacaaattga
     6901 ggccaccaaa aggctacaac aggaaatgat gaaagttaag caggcaatgc tcctagaggg
     6961 tgggttctct gacacagatg cagcccgcgg ggcaatcaac gcccccatga caaaagcttt
     7021 ggactggagc gggacaaggt actgggctcc cgatgctagg actacaacat acaatgcagg
     7081 ccgcttttcc acccctcaac catcgggggc actgccagga agagctaatc ttagggatgc
     7141 tgtccctgct cggggttcct ccagcaagtc ttctaatttt tctactgcta cttctgtgta
     7201 ttcaaatcaa actacttcaa cgagacttgg ttctacagct ggttctggta ccagtgtctc
     7261 gagcttcccg tcaactgcaa ggactaggag ctgggttgag gatcaaagta ggaatttgtc
     7321 acctttcatg aggggggccc acaacatatc gtttgtcacc ccaccatcta gcagatcctc
     7381 tagccaaggc acagtctcaa ccgtgcctaa agaggttttg gactcctgga ctggtgcttt
     7441 caacacgcgc aggcagccac tcttcgctca cattcgtaag cgaggggagt cacgggcgta
     7501 atgtgaaaag ac
//