Typing tool
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Typing tool
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Complete norovirus genomes
| KJ194500 | GII.3 | |
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| GII.P3 |
ORF1: 1..5103
ORF2: 5084..6730
ORF3: 6730..7494
LOCUS KJ194500 7527 bp RNA linear VRL 08-APR-2014
DEFINITION Norovirus Hu/GII/Amsterdam/1/1995 isolate NV_Amsterdam_1_1995,
partial genome.
ACCESSION KJ194500
VERSION KJ194500.1
KEYWORDS .
SOURCE Norovirus Hu/GII/Amsterdam/1/1995
ORGANISM Norovirus Hu/GII/Amsterdam/1/1995
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7527)
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 7527)
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..7527
/organism="Norovirus Hu/GII/Amsterdam/1/1995"
/mol_type="genomic RNA"
/isolate="NV_Amsterdam_1_1995"
/host="Homo sapiens"
/db_xref="taxon:1472712"
/country="Netherlands"
/collection_date="20-Jan-1995"
/note="genotype: G2"
CDS <1..5103
/codon_start=1
/product="ORF1"
/protein_id="AHV83655.1"
/translation="MASNDASVAVAGKNNNSDKEKSSGDSLFSNMTVSLKKALGARPK
QPPPGETKQSQKPPRPPTPELVKRIPPPPPNGEDEPTVIYRVGEGVSGLPDLTTVAQP
DTQNTAYSVPPLSQREVGEAKEPLPGSILEMWDGEIYHYGLYVERGHILGVHKPPAAI
SLAKIELSPLSLYWRVVYTPQYLIAPDTLKGLNGESFPYTAFDNNCYAFCCWVLDLND
SWLSRRMIQRTTGFFRPYQDWNRKPLPTMDEPKIKKAANAVLCVLSSLFTRPIKDIIG
KLRPMNILNILATCDWTFAGIVESLILLAELCGVFWTPPDVSAMIAPLLGDYEMQGPE
DLAVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFF
PKKEEANELALVRAIEDAVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARKLS
TKSASPDIVGTVNALLARIAAARSLVHKAKEELSSRQRPVVVMISGRPGIGKTHLARE
LAKKIASTLSGDQRIGLVPRNGVDHWDAYKGERVVLWDDYGMSNPIQDALRLQELADT
CPLTLNCDRIENKGKVFDSDAIIITTNLANPAPLDYVNFEACSRRIDFLVYADAPDIE
KAKRDFPGQPDMWKDHYKPDFTHIKLQLAPQGGFDKNGNTPHGKGVVKSLTLGSLIAR
ASGLLHERMDEFELQGPNLPTFNFDRNKIAAFRQLAAENKYGMVDTLRVGNQLKSVKT
MDELKQAIKNITIKKCQIVYNGCTYTMESDGRGKVLVDKVQNTTVQTNNELSGALHHL
RSARIRYYVKCFQEAVYSLLQIAGAAFVTSRIVRRMNISSLWSKPPVEESDESEDKEG
CPKPRDEDDLTIDSKDIKVEGKKGKNKSGRGKKHTAFSSKGLSDEEYDEYKRVREERN
GKYSIEEYLQDRDRYYEELAIARATEENFCEEEEIKIRQRIFRPTKKQRKEERATLGL
VTGSEIRKRNPDDFKPKGKLWADDNRSVDYNERIDFEAPPSVWSRIVNFGTGWGFWVS
PSLFITSTHVIPKGITEAFGVPMNQIQIHKSGEFCRLRFPKPIRPDVSGMILEEGAPE
GTVASILIKRTTGELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKNMDLGTTPG
DCGCPYVYKRGNDFVVIGVHTAAARGGNTVICATQGSEGEATLEGGDGKGTYCGAPIL
GPGNAPKLSTKTKFWRSSNAPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKSFTE
PRGKPPNPSVLESAKKTIINVLEQVIDPPQKWSYAQACASLDKTTSSGHPHHVRKNDY
WSGESFTGKLADQASKANLMYEEGKHMPPVYTAALKDELVKTDKIYGKIKKRLLWGSD
LSTMIRCARAFGGLMDELKANCITLPVRVGMNMNEDGPIIFEKHSRYRYHYDADYSRW
DSTQQRAVLAAALEIMVRFSAEPQLAQIVAEDLLAPSVVDVGDFKITINEGLPSGVPC
TSQWNSIAHWLLTLCALSEVTGLGPDIIQANSMYSFYGDDEIVSTDIKLDPEKLTAKL
KEYGLRPTRPDKTEGPLVISEDLNGLTFLRRTVTRDPAGWFGKLEQSSILRQLYWTRG
PNHEDPSETMIPHAQRPVQLMALLGESSLHGPSFYSKVSKLVISELKEGGMDFYVPRQ
ESMFRWMRFSDLSTWEGDRNLAPSFVNEDGVE"
CDS 5084..6730
/codon_start=1
/product="ORF2"
/protein_id="AHV83656.1"
/translation="MKMASNDAAPSNDGAAGLVPEINNEAMALEPVAGAAIAAPLTGQ
QNIIDPWIMNNFVQAPGGEFTVSPRNSPGEVLLSLELGPEINPYLAHLARMYNGYAGG
FEVQVVLAGNAFTAGKIIFAAIPPNFPIDNLSAAQITMCPHVIVDVRQLEPVNLPMPD
VRNNFFHYNQSSESRLRLIAMLYTPLRANNSGDDVFTVSCRVLTRPSPDFSFNFLVPP
TVESKTKPFTLPILTISEMSNSRFPVPIDSLHTSPTENIVVQCQNGRVTLDGELMGTT
QLLPSQICAFRGTLTGSTSRASDQTDTPTPRQFDRRWHIQLDNLNGTPYDPAEDIPAP
LGTPDFRGKVFGVASQRNPDRATRAHEAKVDTTSDRFAPKLGSLEITTESGDFEANQP
TKFTPVGIGVDNEAEFQQWSLPNYSGQITHNMNLAPAVAPNFPGEQLLFFRSQLPSSG
GWSNGVLDCLLPQEWVQHFYQESAPAQTQVALVRYVNPDTGRVLFEAKLHKLGFMTIA
KNGDSPITVPPNGYFRFESWVNPFYTLAPMGTGNGRRRIQ"
CDS 6730..7494
/codon_start=1
/product="ORF3"
/protein_id="AHV83657.1"
/translation="MAGAFIAGLAGDMLTNTVGSLVNAGANAINQKVDFENNKYLQNA
SFNHDKEMLSAQIEATKRLQADMIAIKQGVLTAGGFSPTDAARGAINAPMTKVLDWSG
TRYWAPNAASTTSMSGGFTSQVVHRTTPNSKTSQAPKFTPSSGSSVRSSSTQLTNLSS
HSSGSSRSSGSTVVSSLPSSSRTRDWVNQQNLNLEPYMPGSLRTAFVTPPSSTASSSG
TVSTVPKNVLDSWTSAFNTRRQPLFAHLRRRGESNV"
ORIGIN
1 atggcgtcta acgacgcttc cgttgccgtt gctggcaaaa acaacaacag cgacaaggaa
61 aaatcttcag gtgacagctt gttttctaac atgactgtct cccttaagaa agccctcggg
121 gcgcggccta aacaaccgcc cccgggagaa acaaaacaat cacaaaaacc accaagacca
181 ccaacaccgg aattggtgaa aagaataccc ccaccaccac ccaacggcga ggatgaacca
241 acggtgatat acagggtggg agaaggtgtg tccgggctgc ccgacttaac aaccgtggcg
301 cagcctgaca cacagaacac agcttatagt gtacccccac ttagccaaag agaggtcggc
361 gaagctaaag aaccgctacc tggatccatt ctggaaatgt gggatggtga gatctaccac
421 tatgggctgt acgttgagcg agggcacata cttggggtgc acaaaccacc tgctgcaata
481 agcctcgcca aaattgaact gtcaccactg tctctctact ggagagtggt ttacactcct
541 cagtacttga tagccccaga cactctgaag ggcttgaatg gagaatcatt cccatacaca
601 gcctttgaca acaactgtta cgccttctgt tgttgggtct tagatctcaa tgactcttgg
661 cttagcagga gaatgattca aaggacaacc ggcttcttca ggccgtacca ggattggaat
721 agaaaacccc tgccaaccat ggatgagcca aaaatcaaga aggccgcgaa tgctgttctg
781 tgtgttctct cctcactctt cactagaccc attaaggaca ttattggaaa gctcagacca
841 atgaacatcc tcaatatatt ggcaacttgt gactggactt ttgcaggcat agtggagtcc
901 cttattcttc ttgctgaact ttgtggggtg ttctggacac ccccagacgt gtctgcgatg
961 attgctccct tactcggtga ctacgagatg caaggcccag aagatctggc cgtggaactt
1021 gtacccgtgg taatgggagg gataggtttg gtgttgggat tcaccaagga aaagatcggc
1081 aagatgcttt catcagctgc atccacgctt agggcctgca aagatctagg agcctatgga
1141 ctggagatac tcaaattggt tatgaagtgg ttcttcccta agaaggaaga ggctaacgag
1201 ttagccttgg taagggccat cgaggatgca gtcctggatt tagaggcaat agaaaacaac
1261 cacatgacca ctctcctcaa ggacaaagac agtctggcta catacatgag gactcttgac
1321 ctggaggaag agaaagcaag aaaactgtcc accaagtccg catcacctga cattgtgggc
1381 acagtaaatg cattactggc aaggattgca gccgctaggt cactagtcca caaggctaag
1441 gaggagctct caagcagaca gaggcctgtc gtcgtgatga tatctggcag accaggcata
1501 gggaagaccc atctcgccag agagctagcc aagaaaattg catcaaccct gtcgggcgac
1561 caaaggattg gacttgtgcc tagaaacggt gtagaccact gggacgccta caagggggaa
1621 agagtggtac tatgggatga ctatggcatg agcaacccca tacaggatgc actgaggctt
1681 caagagctgg ctgatacctg tcctctaact ctaaactgtg acagaattga aaacaaggga
1741 aaagtgtttg acagtgatgc cataatcata acaaccaacc ttgcaaatcc agcaccgctg
1801 gattatgtca actttgaggc ttgctccaga cgcatagact ttttagtgta tgcagatgca
1861 cctgacattg agaaagccaa gcgtgacttc cccggccaac cagatatgtg gaaagatcac
1921 tacaaaccag actttacaca catcaaactt cagctagcac cacagggagg ttttgataag
1981 aatggcaaca ccccacatgg taaaggtgta gtgaagtctc tgacgcttgg gtcattgatc
2041 gccagggctt ccggtttgct tcacgagaga atggatgaat tcgagctcca aggccctaac
2101 ctaccaacct tcaattttga ccgcaacaag atcgccgcct ttaggcaatt ggcagctgaa
2161 aacaaatatg gtatggtgga cacactgaga gtcggtaatc aactgaagag tgtcaagact
2221 atggatgagc tcaaacaggc tataaagaat atcaccatta agaagtgcca aatagtgtac
2281 aatgggtgta cctacacaat ggagtctgat ggaaggggca aggttttggt tgacaaggtg
2341 caaaacacaa cagtccaaac taacaatgag ctttcaggag cgctgcacca cttaagatct
2401 gcaagaataa gatattatgt taaatgtttc caggaagctg tctattcttt actacaaatt
2461 gctggtgcgg cttttgtcac ctcacgcatt gtgaggcgca tgaacatctc gagcctctgg
2521 tcgaagccac ctgttgaaga gagtgatgaa tctgaagaca aagaagggtg ccctaagccc
2581 cgagatgaag atgacctcac tatcgattcc aaggacatta aagtggaagg aaagaaaggc
2641 aagaacaagt ccggccgagg taagaaacac acagccttct catctaaggg cctcagtgat
2701 gaagagtacg atgagtacaa gagagtcagg gaagaaagga atggcaaata ttcaatagag
2761 gagtacctcc aagacaggga cagatactat gaagagctag ccattgctag ggccactgaa
2821 gagaacttct gtgaagagga ggagatcaag atccgtcaga gaatcttccg ccccaccaaa
2881 aagcagcgga aagaggaaag agccacactt gggctcgtca cagggtcgga gatcagaaag
2941 aggaatccag atgacttcaa gccaaaaggg aaactgtggg ctgatgataa caggagtgtg
3001 gactacaatg agaggataga ttttgaagcg ccccctagcg tttggtcaag gatagtcaac
3061 tttggcacag gctggggatt ctgggtttct ccaagtcttt tcataacctc gacacacgtg
3121 ataccaaaag gaatcacgga ggcatttggg gtgcccatga accaaatcca aattcataaa
3181 tcaggggaat tctgccgctt acggttccca aaaccaatca ggccagacgt gagtgggatg
3241 attttggaag agggtgcccc tgaaggaact gttgcgtcca tcctcatcaa aagaacaaca
3301 ggggagttga tgccccttgc agccagaatg ggaacccacg ccacaatgaa aatccaagga
3361 aggacggtgg gtggccagat gggcatgtta ctcacaggtt caaatgccaa aaacatggac
3421 ctaggtacaa caccaggtga ctgtgggtgc ccctacgtat acaagagggg caatgacttt
3481 gtggtcattg gcgtgcacac tgcagcagca cgtggaggca acacagtcat atgtgccacg
3541 caaggaagcg agggtgaagc cactcttgag ggaggtgacg gtaagggcac ctattgtgga
3601 gcccccattt taggacctgg taatgcacca aagttgagta caaaaacaaa attctggaga
3661 tcttccaacg caccgctccc gccaggtacc tatgaaccag catacctagg tgggaaagat
3721 ccacgtgtga agggcggtcc gtctctgcaa caggtcatga gagaccaact taaatctttc
3781 acagagccca gagggaaacc accaaacccg agtgtcctag aatcagcaaa gaaaactatc
3841 atcaatgttc tagagcaggt cattgacccc cctcagaagt ggtcctatgc ccaagcttgt
3901 gcatcccttg acaaaacaac ctccagtgga cacccgcacc acgttcggaa gaatgactac
3961 tggagtggtg agtccttcac aggaaaactt gcagaccagg cttcaaaagc aaatctcatg
4021 tatgaagaag gcaagcacat gccaccggtt tacaccgcag cgctcaagga tgagctggtg
4081 aaaactgaca aaatctatgg caaaattaag aaaaggctcc tgtggggttc tgacctctct
4141 accatgattc ggtgcgccag agcatttggt ggcctcatgg atgagctcaa agcaaattgt
4201 atcacacttc ctgtcagagt tggcatgaac atgaatgaag atggtcccat aatatttgag
4261 aaacattcca gatacagata ccactatgat gcagattact cccgctggga ctccacgcag
4321 cagcgggcag tgttggcagc agcacttgaa atcatggtga ggttctctgc tgaaccacag
4381 ctggcacaaa tagtagctga agacctgcta gcaccaagtg tggttgatgt gggtgacttc
4441 aagatcacca tcaatgaagg cctaccttct ggtgtgcctt gcacctcaca gtggaactcc
4501 attgcccact ggttgcttac tttgtgtgcc ctttctgaag tgacaggact aggccccgac
4561 atcatacaag ctaattccat gtactctttc tacggtgatg atgagattgt gagcactgac
4621 ataaaattgg acccagagaa actgactgca aaactcaaag agtacggcct cagacccacc
4681 cggcccgaca agaccgaagg gccgctggtg atcagtgaag acttgaatgg tttaacgttc
4741 ctccgccgaa cagtcacccg tgacccagca ggttggtttg gaaagctgga gcaaagttcc
4801 atcctcaggc agctatactg gacaagggga cctaaccatg aagaccccag tgaaaccatg
4861 ataccacatg cacagagacc tgtgcagctc atggcactac tgggagaatc ctccctacat
4921 ggaccctcat tttacagcaa ggtcagcaag ctggttatat ctgaacttaa ggagggagga
4981 atggattttt atgtgcccag acaagagtca atgttcaggt ggatgaggtt ctcagatcta
5041 agcacatggg agggcgatcg caatctggct cccagttttg tgaatgaaga tggcgtcgaa
5101 tgacgctgct ccatctaatg atggtgccgc cggcctcgtc ccagagatca acaatgaggc
5161 aatggcgcta gagccagtgg cgggtgcagc gatagcagcg cccctcactg gccagcaaaa
5221 tataattgat ccctggatta tgaataattt tgtgcaagca cctggtggtg agtttacagt
5281 gtcgcctagg aattcccctg gtgaagtgct tcttagtttg gaattaggtc cagaaataaa
5341 tccctatttg gctcatcttg ctagaatgta caatggttat gcaggtggat ttgaagtgca
5401 agtggtccta gctggaaatg cgtttacagc agggaagatt atctttgcag ctataccccc
5461 taattttcct attgacaatc tgagcgcggc acagatcaca atgtgcccgc atgtgattgt
5521 ggatgtcagg cagttggaac cagtcaatct cccgatgcct gatgtccgca acaatttctt
5581 tcattataat caaagttctg agtcaagatt acgtttgatt gcaatgttgt atacacctct
5641 tagggcaaat aattctggag atgatgtttt cactgtgtct tgtagggtgt taactaggcc
5701 cagccctgat ttctcattca attttcttgt cccacccact gtggaatcaa agacaaaacc
5761 ttttaccctc cccattttaa ccatctctga aatgtccaat tccaggtttc cagttccaat
5821 tgactctctg cacaccagcc caactgagaa tatagttgtc cagtgccaaa atgggcgcgt
5881 cactcttgac ggtgagttaa tgggcaccac ccaactctta ccgagccaaa tatgtgcttt
5941 caggggcaca ctcactggat caacaagcag ggccagtgac caaactgaca caccaacccc
6001 caggcaattc gaccgtcgtt ggcacataca attggataat ctaaatggaa ctccctacga
6061 ccctgcagag gacataccag ctcctttggg cacaccagac ttccggggca aggtctttgg
6121 cgtggccagc cagagaaacc ccgacagagc aacaagggca catgaagcaa aagtggacac
6181 aacatctgac cgcttcgccc caaaattggg ctccttagaa ataaccactg aatctggtga
6241 ctttgaagca aaccagccaa caaaattcac cccagttggc atcggagttg acaatgaggc
6301 agaatttcag caatggtcct tacccaacta ttctggtcag attactcaca atatgaactt
6361 agccccagct gtcgccccca attttcctgg tgaacagcta cttttcttcc gatcacagct
6421 gccatcctct ggtgggtggt ccaacggggt tctagactgc ctgctccccc aggaatgggt
6481 tcaacacttt taccaagaat cagcccccgc ccaaacgcag gtggccctgg ttaggtatgt
6541 caaccctgac actggcagag tgctatttga ggccaagcta cacaaattgg gttttatgac
6601 tatagcaaag aatggtgact ccccaataac tgtccctcca aatggatatt ttagatttga
6661 atcttgggtt aacccctttt acacacttgc ccccatggga actggaaacg ggcgtagaag
6721 gattcaataa tggctggagc ttttatagca ggattggctg gtgacatgct cacaaacact
6781 gtggggtctt tggttaatgc aggggccaat gctattaatc aaaaagttga ttttgaaaat
6841 aataaatatt tgcaaaatgc ttcttttaat catgacaagg agatgttaag tgcacaaatt
6901 gaggcaacaa agaggctgca ggctgacatg attgcaatca aacaaggggt cttgaccgct
6961 ggcggctttt cccccactga tgcagcacgt ggggcaatta atgccccaat gacaaaagtt
7021 ttagattgga gtggaacaag gtactgggca ccaaacgccg cctccacaac ttcaatgtcg
7081 ggtggcttca caagccaagt tgtgcacaga accacaccaa attccaaaac gagccaggcc
7141 cccaaattca cacccagcag tgggtcttca gtgagatcaa gctcaaccca acttaccaac
7201 ttgagctcac actcatccgg gtcgtcccga tctagcgggt ctacggttgt cagctcgctg
7261 ccgtcctcca gtaggactag ggactgggtc aaccaacaaa atctcaattt ggaaccatac
7321 atgcctggat ctctcaggac agcttttgtc actccaccat ctagtacagc ctctagttca
7381 ggcacagtct caaccgtgcc caaaaatgtt ttggactcct ggacatctgc gtttaacacg
7441 cgcagacagc cgctgtttgc acaccttcgt agaagggggg agtcaaatgt ttagtgaaaa
7501 gattattcct aaatttgatt tagaatc
//