Typing tool
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Typing tool
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Complete norovirus genomes
| KJ194504 | GII.3 | |
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| GII.P3 |
ORF1: 5..5113
ORF2: 5094..6740
ORF3: 6740..7504
LOCUS KJ194504 7535 bp RNA linear VRL 08-APR-2014
DEFINITION Norovirus Hu/GII/Amsterdam/1994 isolate NV_Amsterdam_1994, partial
genome.
ACCESSION KJ194504
VERSION KJ194504.1
KEYWORDS .
SOURCE Norovirus Hu/GII/Amsterdam/1994
ORGANISM Norovirus Hu/GII/Amsterdam/1994
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7535)
AUTHORS Cotten,M., Oude Munnink,B., Canuti,M., Deijs,M., Watson,S.J.,
Kellam,P. and van der Hoek,L.
TITLE Full genome virus detection in fecal samples using sensitive
nucleic acid preparation, deep sequencing, and a novel iterative
sequence classification algorithm
JOURNAL PLoS ONE 9 (4), E93269 (2014)
PUBMED 24695106
REMARK Publication Status: Online-Only
REFERENCE 2 (bases 1 to 7535)
AUTHORS Cotten,M., Oude Munnink,B., Canuti,M., Deijs,M., Watson,S.J.,
Kellam,P. and van der Hoek,L.
TITLE Direct Submission
JOURNAL Submitted (24-JAN-2014) Viral Genomics, Wellcome Trust Sanger
Institute, Hinxton, Cambridgeshire CB10 1SA, United Kingdom
COMMENT ##Assembly-Data-START##
Assembly Method :: SPAdes v. 2.4.0
Sequencing Technology :: Illumina
##Assembly-Data-END##
FEATURES Location/Qualifiers
source 1..7535
/organism="Norovirus Hu/GII/Amsterdam/1994"
/mol_type="genomic RNA"
/isolate="NV_Amsterdam_1994"
/host="Homo sapiens"
/db_xref="taxon:1472713"
/country="Netherlands"
/collection_date="30-Jan-1995"
/note="genotype: G2"
CDS 5..5113
/codon_start=1
/product="ORF1"
/protein_id="AHV83698.1"
/translation="MKMASNDASVAVAGKNNNNDKEKSSGDSLFSNMTVSFKKALGAR
PKQPPPGEIKQTQKPPRPPTPELVKRIPPPPPNGEDEPKVVYRVGEGVSGLPDLTTVA
QPDAQGTAYSVPPLSQREVGEAKEPLPGSILEMWDGEIYHYGLYVDRGHILGVHKPPA
AVSLAKIELTPLSLYWRVVYTPQYLIAPDTLKGLNGESFPYTAFDNNCYAFCCWVLDL
NDSWLSRRMIRRTTGFFRPYQDWNRKPLPTMDEPKIKKAANAILCALSSLFTRPIKDI
IGKLKPMNILNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYEMQG
PEDLAMELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLKACKDLGAYGLEILKLVMKW
FFPKKEEANELALVRAIEDAVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARK
LSTKSASPDIVGTINALLARIAAARSLVHKAKEELSSRQRPVVVMISGRPGIGKTHLA
RELAKKIASTLSGDQRIGLVPRNGVDHWDAYKGERVVLWDDYGMSNPIQDALRLQELA
DTCPLTLNCDRIENKGKVFDSDVIILTTNLANPAPLDYVNFEACSRRIDFLVYADAPD
IEKAKRDFPGQPDMWKDHYRPDFTHIKLQLAPQGGFDKNGNTPHGKGVVKSLTLGSLI
ARASGLLHERMDEFELQGPNLPTFNFDRNKIAAFRQLAAENKYGMVDTLRVGNQLKSV
KTMDELKQAIKNITIKKCQIVYNGSTYTMESDGRGKVSVDKVQNATVQTNNELSGALH
HLRSARIRYYVKCFQEAVYSLLQIAGAAFVTSRIVRRMNISSLWSKPPVEESDESEDK
EGCPKPRDEDDLTIDSKDIKVEGKKGKNKSGRGKKHTAFSSKGLSDEEYDEYKRIRDE
RNGKYSIEEYLQDRDRYYEELAIAKATEENFCEEEEIKIRQRIFRPTKKQRKEERATL
GLVTGSEIRKRNPDDFKPKGKLWADDSRSVDYNERIDFEAPPSVWSRIVNFGTGWGFW
VSPSLFITSTHVIPKGITEAFGVPMNQIQIHKSGEFCRLRFPKPIRPDVSGMILEEGA
PEGTVASILIKRTTGELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTT
PGDCGCPYVYKRGNDFVVIGVHTAAARGGNTVICATQGSEGEATLEGGDDKGTYCGAP
ILGPGNAPKLSTKTKFWRSSNAPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKPF
TEPRGKPPNPSVLESAKKTIINVLEQVIDPPQKWSYAQACASLDKTTSSGNPHHVRKN
DYWNGESFTGKLADQASKANLMYEEGKHMPPVYTAALKDELVKTDKIYGKIKKRLLWG
SDLSTMIRCARAFGGLMDELKANCITLPVRVGMNMNEDGPIIFEKHSRYRYHYDADYS
RWDSTQQRAVLAAALEIMVRFSAEPQLAQIVAEDLLAPSVVDVGDFKITINEGLPSGV
PCTSQWNSIAHWLLTLCALSEVTGLGPDIIQANSMYSFYGDDEIVSTDIKLDPEKLTA
KLKEYGLKPTRPDKTEGPLVISEDLNGLTFLRRTVTRDPAGWFGKLEQSSILRQLYWT
RGPNHEDPSETMIPHAQRPVQLMALLGESSLHGPSFYSKVSKLVISELKEGGMDFYVP
RQESMFRWMRFSDLSTWEGDRNLAPSFVNEDGVE"
CDS 5094..6740
/codon_start=1
/product="ORF2"
/protein_id="AHV83699.1"
/translation="MKMASNDAAPSNDGAAGLVPEINNEAMALEPVAGAAIAAPLTGQ
QNIIDPWIMNNFVQAPGGEFTVSPRNSPGEVLLNLELGPEINPYLAHLARMYNGYAGG
FEVQVVLAGNAFTAGKVIFAAIPPNFPIDNLSAAQITMCPHVIVDVRQLEPINLPMPD
VRNNFFHYNQGSDSRLRLVAMLYTPLRANNSGDDVFTVSCRVLTRPSPDFSFNFLVPP
TVESKTKPFTLPILTISEMSNSRFPVPIDSLHTSPTENIVVQCQNGRVTLDGELMGTT
QLLPSQICAFRGTLTRSTSRASDQADTPTPRQFDHRWHIQLDNLNGTPYDPAEDIPAP
LGTPDFRGKVFGVASQRNPDGTTRAHEAKVDTTTNRFTPKLGSLEIITESEDFDTNQS
TKFTPVGVGVDNEEEFQQWSLPNYSGQFTHNMNLAPAVAPNFPGEQLLFFRSQLPSSG
GWSNGILDCLVPQEWVQHFYQESAPAQTQVALVRYVNPDTGRVLFEAKLHKLGFMTIA
KNGDSPITVPPNGYFRFESWVNPFYTLAPMGTGNGRRRIQ"
CDS 6740..7504
/codon_start=1
/product="ORF3"
/protein_id="AHV83700.1"
/translation="MAGAFVAGLAGDMLTNTVGSLVNAGANAINQKVDFENNKYLQNA
SFNHDKEMLSAQIEATKRLQADMIAIKQGVLTAGGFSPTDAARGAINAPVTKVLDWSG
TRYWAPNAASTTSMSGGFTSQVVHRTTPNFKTSQAPKFTPSSGSSVRSSSTQLTNLSS
HSSGSSRSSGSTIVSSLPSSSRTRDWVNQQNLNLEPHMPGSLRTAFVTPPSSTASSSG
TVSTVPKNVLDSWTSAFNTRRQPLFAHLRRRGESNV"
ORIGIN
1 gtgaatgaag atggcgtcta acgacgcttc cgttgccgtt gctggcaaaa acaacaacaa
61 cgacaaggaa aaatcttcag gtgacagctt gttttctaac atgactgtct cctttaagaa
121 agccctcggg gcgcggccta aacaaccgcc cccgggagaa ataaaacaaa cacaaaaacc
181 accaagacca ccaacaccgg aactggtgaa aagaataccc ccaccaccac ccaatggcga
241 ggatgaacca aaggtggtat acagggtggg agaaggtgtg tccgggctgc ccgacttaac
301 aaccgtggcg cagcctgacg cacaaggcac agcttatagt gtacccccac ttagccaaag
361 agaggtcggc gaagctaaag aaccgctacc tggatccatt ctggagatgt gggatggtga
421 gatctaccac tatgggctgt acgttgatcg agggcacata cttggggtgc ataaaccacc
481 tgctgcagta agcctcgcca aaattgaact gacaccactg tctctctact ggagagtggt
541 ttacactccc cagtacttga tagccccaga cactctgaag ggtttgaatg gagagtcatt
601 cccatacaca gcctttgaca acaactgtta cgccttctgt tgttgggtct tagatctcaa
661 tgactcttgg cttagcagga gaatgattcg aaggacaacc ggtttcttca gaccgtacca
721 agattggaat agaaaacccc tgccaaccat ggatgagcca aaaatcaaga aggccgcaaa
781 tgctattctg tgcgctctct cctcactctt cactagaccc attaaggaca tcattgggaa
841 gctcaaacca atgaacatcc tcaatatatt ggcaacttgt gactggactt ttgcaggcat
901 agtggagtcc cttattcttc ttgctgaact ttttggggtg ttctggacac ccccagatgt
961 gtctgcgatg attgctccct tactcggtga ctacgagatg caaggcccag aagacctggc
1021 catggaactt gtacccgtgg taatgggagg gataggtttg gtgttgggat tcaccaagga
1081 gaagatcggc aagatgcttt catcagctgc atccacgctt aaggcctgca aagatctagg
1141 agcctatgga ttggagatac tcaaattggt catgaagtgg ttcttcccta agaaggaaga
1201 ggctaacgag ttagccttgg taagggccat cgaggatgca gtcctggatt tagaagcaat
1261 agaaaacaac cacatgacca ccctcctcaa ggacaaagac agtcttgcta catacatgag
1321 gactcttgac ctagaggaag agaaagcaag aaaactgtcc accaaatccg catcacctga
1381 cattgtgggc acaataaatg cattattggc aaggattgca gccgctaggt cattagtcca
1441 caaggctaag gaggagctct caagcagaca gaggcctgtc gtcgtgatga tatctggcag
1501 accaggcata gggaagaccc atctcgccag agagctagcc aagaaaattg catcaaccct
1561 gtcgggtgac caaaggattg gactggtgcc tagaaacggt gtagaccact gggacgccta
1621 caagggggaa agagtggtac tatgggatga ctatggcatg agcaacccca tacaggatgc
1681 actgaggctt caagagttgg ctgatacctg tcctctaact ctaaactgtg acagaattga
1741 aaacaaggga aaagtatttg acagtgatgt cataatctta acaaccaacc tcgcaaaccc
1801 agcaccgctg gactatgtca actttgaggc ttgctccaga cgcatagact ttttagtgta
1861 tgcagatgca cctgacattg agaaagccaa gcgtgacttt cccggccaac cagatatgtg
1921 gaaagatcac tacagaccag actttacaca catcaaactt cagctagcac cacagggagg
1981 ttttgataag aatggcaaca ccccacatgg taaaggtgta gtgaagtctc tgacgcttgg
2041 gtcattgatc gccagggctt ccggtttgct tcacgagaga atggatgaat tcgagctcca
2101 aggccctaac ctaccaacct tcaattttga ccgcaacaag atcgccgcct ttaggcaatt
2161 ggcagctgaa aacaaatatg gtatggtgga cacactgagg gtcggtaatc aactgaagag
2221 tgttaagacc atggatgagc tcaaacaggc tataaagaat atcaccatta aaaagtgcca
2281 aatagtgtac aatgggtcta cctacacaat ggagtctgat ggaagaggca aggtttcagt
2341 tgacaaggtg caaaacgcaa cggtccaaac taacaatgag ctttcaggag cgctgcacca
2401 cttaagatct gcaagaataa gatattatgt taaatgtttc caggaagctg tctattcttt
2461 actacaaatt gctggtgcgg cttttgtcac ctcacgcatt gtgaggcgca tgaacatctc
2521 gagcctctgg tcgaagccac ctgttgaaga gagtgatgaa tctgaagaca aagaagggtg
2581 ccccaagccc cgagatgaag atgacctcac tatcgattcc aaggacatta aagtggaagg
2641 aaagaaaggc aagaacaagt ccggccgagg taagaaacac acagccttct catctaaggg
2701 cctcagtgat gaagagtacg atgagtacaa gagaatcagg gacgaaagga atggcaaata
2761 ttcaatagag gagtacctcc aagacaggga cagatactat gaagagctag ccattgctaa
2821 ggccactgaa gagaacttct gtgaagagga ggagatcaag attcgtcaga gaatcttccg
2881 ccccaccaaa aagcagcgga aagaggaaag agccacactt gggctcgtca cagggtcgga
2941 gatcagaaag aggaatccag atgacttcaa gccaaaaggg aaactgtggg ctgatgatag
3001 caggagtgtg gactacaatg agaggataga ttttgaagcg ccccctagcg tttggtcaag
3061 gatagtcaac tttggcacag gctggggatt ctgggtttct ccaagtctct tcataacctc
3121 gacacacgtg ataccaaaag gaatcacgga ggcatttggg gtgcccatga accaaatcca
3181 aattcataaa tcaggggaat tctgccgctt gcggttccca aaaccaatca ggccagacgt
3241 gagtgggatg attttggaag agggtgcccc tgaaggaact gttgcgtcca tcctcatcaa
3301 aagaacaaca ggggagttga tgccccttgc agccagaatg ggaacccacg ccacaatgaa
3361 aatccaagga agaacggtgg gtggccagat gggcatgtta ctcacaggtt caaatgccaa
3421 aagcatggac ctaggcacaa caccaggtga ctgtgggtgc ccctacgtat acaagagggg
3481 caatgacttt gtggtcattg gcgtgcacac tgcagcagca cgtggaggaa acacagtcat
3541 atgtgccacg caaggaagcg aaggtgaagc cactcttgag ggaggtgacg acaagggcac
3601 ctattgtgga gcccccattt taggacctgg taatgcacca aaattgagca caaaaacaaa
3661 attctggaga tcatccaacg caccgctccc accaggcacc tatgaaccag catacctagg
3721 tgggaaagat ccacgtgtga agggcggtcc gtctctgcaa caggtcatga gagaccaact
3781 taaacctttc acagagccca gagggaaacc accaaacccg agtgtcctag aatcagcaaa
3841 gaaaactatc atcaatgttc tagagcaggt cattgacccc ccccagaagt ggtcttatgc
3901 ccaagcttgt gcatcccttg acaaaacaac ctccagtgga aacccgcacc acgttcggaa
3961 aaatgattac tggaatggtg aatccttcac aggaaaactt gcagaccagg cttcaaaagc
4021 aaatctcatg tatgaagaag gcaaacacat gccaccggtt tacaccgcag cgctcaagga
4081 tgagctggtg aaaactgaca aaatctatgg caaaattaag aaaaggctcc tgtggggttc
4141 tgacctctcc accatgattc ggtgcgccag agcatttggt ggactcatgg atgagctcaa
4201 agcaaattgt atcacacttc ctgtcagagt tggcatgaac atgaatgaag atggtcccat
4261 aatatttgag aaacattcca gatacagata ccactatgat gcagattact cccgctggga
4321 ctccacgcag cagcgggcag tgttggcagc agcacttgaa atcatggtga ggttctctgc
4381 tgaaccacag ctagcacaaa tagtggctga agacctgcta gcaccaagtg tggttgatgt
4441 gggtgacttc aagatcacca ttaatgaagg cctaccttct ggtgtgcctt gcacctcaca
4501 gtggaactcc attgcccact ggttgcttac tttgtgtgcc ctttctgagg tgacaggatt
4561 aggccccgac atcatacaag ctaattccat gtactctttc tatggtgatg atgagattgt
4621 gagcactgac attaaattgg acccagagaa actgactgca aaactcaaag agtacggcct
4681 caaacccacc cggcccgaca agaccgaagg gccgctggtg atcagtgaag acttgaatgg
4741 tttaacgttc ctccgtcgaa cagtcacccg tgacccagca ggttggtttg gaaaactgga
4801 gcaaagttcc atcctcaggc agctatactg gacaagggga cctaaccatg aagaccccag
4861 tgaaaccatg ataccacatg cgcagagacc cgtgcagctc atggcactac tgggagaatc
4921 ctccctacat ggaccctcat tttacagcaa ggtcagcaag ctggttatat ctgaacttaa
4981 ggagggagga atggattttt atgtgcccag acaagagtca atgttcaggt ggatgaggtt
5041 ctcagatcta agcacatggg agggcgatcg caatctggct cccagttttg tgaatgaaga
5101 tggcgtcgaa tgacgctgct ccatctaatg atggtgccgc cggcctcgtc ccagagatca
5161 acaatgaggc aatggcgcta gagccagtgg cgggtgcagc gatagcagcg cccctcactg
5221 gccagcaaaa tataattgat ccctggatta tgaataattt tgtgcaagca cctggtggtg
5281 agtttacagt gtcacctagg aattcccctg gtgaagtgct tctcaatttg gaattaggcc
5341 cagaaataaa tccctatttg gctcatcttg ctagaatgta caatggttat gcaggtggat
5401 ttgaagtgca agtggtccta gctggaaatg cgtttacagc aggaaaggtt atctttgcag
5461 ctataccccc taatttccct attgacaatc tgagcgcggc acagatcaca atgtgtccgc
5521 acgtgattgt ggatgtcagg cagttggaac caatcaatct cccgatgcct gatgtccgca
5581 acaatttctt tcattataat caaggttctg attcaagatt acgtttggtt gcaatgctgt
5641 atacacctct tagggcaaat aattctggag atgatgtttt cactgtgtct tgtagggtgt
5701 taactaggcc cagccctgat ttctcattca attttcttgt cccacccact gtggaatcaa
5761 agacaaagcc ttttaccctc cccattttaa ccatctctga aatgtccaat tccaggtttc
5821 cagttccaat tgactctctg cacaccagcc caactgagaa tatagttgtc cagtgccaaa
5881 atgggcgcgt cactcttgac ggtgagttaa tgggcaccac ccaactctta ccgagccaaa
5941 tatgtgcttt caggggcaca ctcactagat caacaagcag ggccagtgac caagccgaca
6001 caccaacccc caggcaattc gaccatcgtt ggcacataca attggataat ctaaatggaa
6061 ctccctacga ccctgcagag gacataccag ctcctttggg cacaccagac ttccggggta
6121 aggtctttgg cgtggccagc cagagaaacc ccgacggcac aacaagggca catgaagcaa
6181 aagtggacac aacaactaac cgcttcaccc caaaattggg ctccttagaa ataatcactg
6241 aatctgaaga ctttgacaca aaccagtcaa caaaattcac cccagttggc gtcggagttg
6301 acaatgagga agaattccaa caatggtcct tacccaacta ttctggtcag tttactcata
6361 atatgaactt agccccagct gtcgccccca attttcctgg tgaacagcta cttttcttcc
6421 ggtcacagct gccatcctct ggtgggtggt ctaacgggat tctagactgc ctggtccccc
6481 aggaatgggt tcaacacttc taccaggaat cagcccccgc ccaaacgcag gtggccctgg
6541 ttaggtatgt caaccctgac actggcagag tgctatttga ggccaagcta cacaaattgg
6601 gttttatgac tatagcaaag aatggtgact ccccaataac tgtccctcca aatggatact
6661 ttagatttga atcttgggtt aacccctttt atacacttgc ccccatggga actggaaacg
6721 ggcgtagaag gattcaataa tggctggagc ttttgtagca ggattggctg gtgacatgct
6781 cacaaacact gtagggtctt tggttaatgc aggggccaat gctattaatc aaaaagttga
6841 ttttgaaaat aataaatatt tgcaaaatgc ttcttttaat catgataagg agatgttaag
6901 tgcacaaatt gaggcaacaa agaggctgca ggctgacatg attgcaatca aacaaggggt
6961 cttgaccgct ggcggctttt cccccactga tgcagcacgt ggggcaatta atgccccagt
7021 gacaaaagtt ttagattgga gtggaacaag gtactgggca ccaaacgccg cctccacaac
7081 ttcaatgtca ggtggcttca caagccaagt tgtgcacaga accacaccaa atttcaaaac
7141 gagccaggcc cccaaattca cacccagcag tgggtcttca gtgagatcaa gctcaaccca
7201 actcaccaac ttgagctcac actcatccgg gtcgtcccga tctagcgggt ctacgattgt
7261 cagctcgctg ccgtcctcca gtaggactag ggactgggtc aaccaacaaa atctcaattt
7321 ggaaccacac atgcctggat ctctcaggac agcttttgtc actccaccat ctagcacagc
7381 ctctagttca ggcacagtct caaccgtgcc caaaaatgtt ttggactcct ggacatctgc
7441 gtttaacacg cgcagacagc cgctgtttgc acaccttcgt agaagggggg agtcaaatgt
7501 ttagtgaaaa gattattctt aaatttgatt ttgaa
//