Typing tool
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Typing tool
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Complete norovirus genomes
| MN447470 | GII.16 | |
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| GII.P16 |
ORF1: 5..5098
ORF2: 5079..6701
ORF3: 6701..7498
LOCUS MN447470 7579 bp RNA linear VRL 17-SEP-2019
DEFINITION Norovirus GII isolate Hu/US/2008/GII.16[P16]/US0366, complete
genome.
ACCESSION MN447470
VERSION MN447470.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7579)
AUTHORS Gregoricus,N., Ames,J., Montmayeur,A.M., Tatusov,R.L., Chhabra,P.
and Vinje,J.
TITLE Direct Submission
JOURNAL Submitted (12-SEP-2019) Division of Viral Diseases, Centers for
Disease Control and Prevention, 1600 Clifton Road NE, Atlanta, GA
30329, USA
COMMENT ##Assembly-Data-START##
Assembly Method :: Geneious v. R10; SPAdes v. 3.6
Sequencing Technology :: Illumina
##Assembly-Data-END##
FEATURES Location/Qualifiers
source 1..7579
/organism="Norovirus GII"
/mol_type="genomic RNA"
/strain="US0366"
/isolate="Hu/US/2008/GII.16[P16]/US0366"
/isolation_source="stool"
/host="Homo sapiens"
/db_xref="taxon:122929"
/country="USA"
/collection_date="20-Oct-2008"
/note="Amplicon sequencing: first 35 nt does represent
primer sequence;
genotype: GII.16[P16]"
gene 5..5098
/gene="ORF1"
CDS 5..5098
/gene="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="QEP28114.1"
/translation="MKMASNDASAAVACNNNNDKEKSSGEGLFTNMSSTLKKALGARP
KQPAPRDNSQKPPRPPTPELVKRIPPPPPNGEEEPVIRYEVKSGISGLPELTTVPQPN
VTNTAFSVPPLSLRENREAKEPLTGAILEMWDGEIYHYGLYVEKGLVLGVHKPPAAIS
MAKVEMTPLSLYWRVVYTPQYLISPDTLKRLNGEAFPYTAFDNNCYAFCCWVLDLNDS
WLSRRMVQRTTGFFRPYQEWNRKPLPTMDDSKIKKVANIFLCSLSTLFTRPIKDIIGK
IKPLNILNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGEYELQGPED
IAVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFP
KKEEANELAMVRAIEDAVLDLEAIENNHMTALLKDKDSLATYMKTLDLEEEKARRLST
KSASPDIVGTINALLARIAAARSLVHRAKEELSSRIRPVVVMISGKPGIGKTHLAREV
ARKVASTLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRIQELADTC
PLTLNCDRIENKGKVFDSEVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEK
AKRDFPGQPDMWKDAFKADFSHIKLQLAPQGGFDKNGNTPHGKGVMKTLTTGSLIARA
SGLLHERMDEFELQGPTITTFNFDRNRITAFRQLAAENKYGLVDTMRVGNQLKGVKTM
EELKQAIKNVSIKRCQIIYNGSTFDLESDGKGKVLVEKVKSTSVQTNNELAGALHHLR
SARIRYYVKCVQEAVYSILQIAGAAFVTTRIARRMNIQELWSKPPLDQSEPEAKEEAP
KLEDDEFIISSKDIKEEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKY
SIEEYLQDRDRYYEELAIAKATEEDFCEEEEIKIRQRIFRPTRKQRKEERATLGLVTG
SEIRKRNPDDFKPKGKLWADDNRSVDYNEKLDFEAPPSIWSRIVSFGSGWGFWVSPSL
FITSTHVIPAGITEAFGVPIKQVQVHKSGEFCRFRFPKPIRPDVTGMILEEGAPEGTV
ATVLIKRPTGELMPLAARMGTHATMKIQGRMVGGQMGMLLTGSNAKGMDLGTTPGDCG
CPYIYKRGNDYIVIGVHTAAARGGNTVICATQGSEGEATLEGGDDKGTYCGAPILGPG
GAPKLSTKTKFWRSSNTPLPPGTYEPAYLGGRDPRVKGGPSLQQVMRDQLKPFTEPRG
RPPRPSVLEAAKQTIINVLEQTLDPPQKWTYAQACASLDKTTSSGHPHHARKNEFWNG
ETFIGKLADQASKANLMYEEGKHMTPVYTAALKDELVKTDKIYGKIKKRLLWGSDLST
MVRCARAFGGLMDEMKAHCISLPVRVGMNMNEDGPIIFEKHSRYKYHYDADYSRWDST
QQRAVLAAALEIMVRFSAEPQLAQTVAEDLLAPSVVDVGDFKISISEGLPSGVPCTSQ
WNSITHWLLTLCALSEVTNLSPDIVQANSMFSFYGDDEIVSTDIKLDPEKLTTKLREY
GLKPTRPDKTEGPLIISEDLDGLTFLRRTVSRDPAGWFGKLDQSSILRQMYWTRGPNH
EDPNETMIPHSQRPIQLMALLGEASLHGPSFYSKISKLVITELKEGGMDFYVPRQEPM
FRWMRFSDLSTWEGDRNLAPSFVNEDGVE"
mat_peptide 5..994
/gene="ORF1"
/product="p48"
mat_peptide 995..2092
/gene="ORF1"
/product="NTPase"
mat_peptide 2093..2623
/gene="ORF1"
/product="p22"
mat_peptide 2624..3022
/gene="ORF1"
/product="VPg"
mat_peptide 3023..3565
/gene="ORF1"
/product="Pro"
mat_peptide 3566..5095
/gene="ORF1"
/product="RdRp"
gene 5079..6701
/gene="ORF2"
CDS 5079..6701
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="QEP28115.1"
/translation="MKMASNDAAPSNDGAAGLVPEVNNETMALEPVAGASIAAPLTGQ
NNVIDPWIRLNFVQAPNGEFTVSPRNSPGEILLNLELGPELNPYLAHLARMYNGYAGG
VEVQVLLAGNAFTAGKLVFAAIPPHFPVDNLSPGQITMFPHVIIDVRTLEPVLLPLPD
VRNNFFHYNQQSDQRMRLVAMLYTPLRSNGSGDDVFTVSCRVLTRPSPDFDFNYLVPP
TVESKTKPFSVPVLTLNELTNSRFPVPIDAMYTSPNDSIVVQPQNGRATIDGELLGTT
QLIPSGICSFRGKITTHLSDDRHLWNIQVSNLNGTPFDPTDDVPAPLGMPDFSGQIFG
VVSQRDTGTNPANRAHDAVLATYSAKYTPKLGSVQIGTWDTEDLLERQPVKFTPVGLN
EIGQDKHFDQWVLPNYSGALGLNMHLAPAVSPLFPGERLLFFRSYIPLKGGHGDPFID
CLVPQEWIQHFYQESAPAQSSVALLRYVNPDTGRTLFEAKLHKEGFITVSSTENRPVI
VPPNGYFRFDSWVNQFYSLAPMGTGNGRRRMQ"
gene 6701..7498
/gene="ORF3"
CDS 6701..7498
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="QEP28116.1"
/translation="MAGAFIAGLAGDIVTNGIGSLVNAGANAINQKVDFENNKQLQQA
SFNHDKEMLQAQIQATKQLQADMISIRQGVLTAGGFSPTDAARGAVNAPMTQVLDWNG
TRHWAPGASRTTSFSGGFTNSTRARTVEPPKSSPPVQNTLISASRPSSTVSSSSTRST
VVTSSSTPPSIRSSVTRSSPRSVSQSVSPVSSRTGDWVQNQNRMLEPYLRGSLQTAFV
SPPSSKASSNGTVSTVPKEVLDSWTSAFNTRRQPLFAHLRRRGESQA"
ORIGIN
1 gtgaatgaag atggcgtcta acgacgcttc cgctgccgtt gcttgcaaca acaacaacga
61 caaggaaaaa tcttcgggtg aaggcttatt tacgaatatg tcttccaccc taaagaaagc
121 cctcggggct cggcctaaac agcctgcccc gagggacaac tcacaaaagc ccccaagacc
181 acctacgccc gagttggtta agaggatacc ccctcccccg cctaatggcg aagaagaacc
241 agtcattagg tatgaggtta agagtggaat ctctggcctg cctgagctca cgacagttcc
301 ccaaccgaat gtgaccaata cggcattcag tgtcccaccg ctgagcttga gagaaaacag
361 ggaggccaag gaaccgttga ctggggcaat actagagatg tgggatggag agatatacca
421 ctatggtttg tacgtggaga aaggcttagt gttgggtgtg cacaaaccac ctgcagctat
481 aagtatggca aaggtggaaa tgacgccgct gtcattgtac tggcgtgtgg tgtacacccc
541 tcaatatctc atctcccctg atactctcaa gaggctcaac ggggaggcat tcccttacac
601 tgcctttgac aacaactgtt atgccttttg ctgctgggtg ttagatctta atgactcatg
661 gctcagcaga aggatggtgc agagaacaac aggcttcttc agaccctacc aagagtggaa
721 caggaaaccc ctacccacta tggatgactc aaagattaag aaggtggcaa acattttctt
781 atgttcattg tccacgctgt tcaccagacc tataaaagac atcataggaa aaatcaaacc
841 actaaatatc ttgaacattc tggcaacgtg tgactggacg ttcgccggaa ttgtagagtc
901 tctaatatta cttgctgaac tctttggagt tttctggaca cccccagatg tgtctgctat
961 gattgctccc ttacttggcg agtacgagct gcaagggcca gaagacatcg ccgttgagct
1021 cgtacctgta gtgatgggag ggattggttt ggtgctagga ttcaccaagg agaaaattgg
1081 caaaatgctg tcctcagcag catcaaccct tagggcttgc aaagaccttg gtgcttatgg
1141 tttagagata ctcaaactgg tcatgaaatg gttcttccca aagaaagaag aggccaatga
1201 actagccatg gtgagagcaa tagaggatgc tgtactagac ctcgaagcga tagaaaacaa
1261 tcacatgaca gctctgctga aagataagga cagccttgca acctacatga aaacactgga
1321 tctagaggaa gagaaagcca gaagattgtc cacaaaatct gcatcccctg acatagttgg
1381 aacaatcaat gccctgctgg ctcgaatagc ggcggctaga tcgctagtcc atagggccaa
1441 ggaggagcta tctagcagga tcaggccagt tgttgttatg atttctggca agccagggat
1501 aggcaagacc cacctagcca gggaggtggc gagaaaggtg gcatccactc tcacgggaga
1561 tcaaagagtc ggactcatac cgagaaacgg tgtggaccac tgggatgcat acaaaggtga
1621 gagggtcgtg ttgtgggacg actacggcat gagcaacccc atccatgatg ctctgcgcat
1681 acaggagttg gccgacacgt gtcccctcac cttaaattgt gacagaattg aaaataaggg
1741 aaaagttttt gatagtgaag tcataataat cacaacaaac cttgccaatc cagctcccct
1801 cgattatgtc aactttgagg cctgttccag aagaattgac ttcctggtgt acgccgaagc
1861 accagaagtg gaaaaagcaa aacgagactt ccctggtcag ccagatatgt ggaaggacgc
1921 cttcaaagca gacttttcgc atatcaagct acaacttgcg cctcagggcg gttttgacaa
1981 gaacggcaat accccacatg gtaaaggagt gatgaagacc ctcactactg gttctctgat
2041 tgcccgcgcg tcaggtttac tacatgagag gatggatgaa tttgaactcc agggccccac
2101 aatcaccact ttcaatttcg accgaaacag aatcaccgcc tttagacaat tggctgcaga
2161 aaacaagtat gggttggtgg acaccatgag ggttggcaat caattgaaag gggtgaaaac
2221 catggaagaa ctcaagcaag caattaagaa tgtgtccatc aagaggtgcc agattatcta
2281 taatggctcc acgttcgatc ttgagtctga tggtaagggc aaagttttag tggaaaaggt
2341 caaaagcacc tctgttcaga ccaacaacga gctggccgga gccctgcatc acctcagaag
2401 tgctcgaatt aggtattatg tcaaatgtgt gcaagaagca gtctactcca tcctgcaaat
2461 tgccggcgct gcgttcgtta ccacacgcat tgcacgccgc atgaacatac aagaactttg
2521 gtcaaagcca ccattagacc aaagtgaacc agaggctaaa gaagaggccc ccaagttaga
2581 agatgatgag ttcatcatat cctccaaaga catcaaggag gaaggaaaga agggcaaaaa
2641 caagactggc cgtggcaaga aacacacagc attctctagc aagggcttga gtgatgagga
2701 gtatgacgag tacaagagaa taagagaaga gagaaatggg aagtactcta tagaggagta
2761 tcttcaagac agagacaggt actatgagga gctcgccatc gccaaggcca cggaagaaga
2821 cttttgcgag gaagaagaaa ttaaaatccg ccagagaatc tttcgcccca ctagaaaaca
2881 aaggaaggaa gaaagggcca cgctaggact agtgactggt tcagaaatca gaaaaagaaa
2941 ccctgatgac ttcaaaccta aagggaaatt gtgggccgac gacaacagaa gtgttgacta
3001 caatgaaaaa ttggactttg aggccccccc aagcatatgg tctagaattg tgagctttgg
3061 ttccggttgg ggcttctggg tgtcaccaag tctgttcata acatcaactc atgtaatccc
3121 tgcgggcata acagaggcat ttggagtccc catcaaacaa gtccaagtcc acaaatcagg
3181 tgagttttgc cggttcaggt tcccaaaacc aattagacca gatgtgacag gaatgattct
3241 ggaagagggc gcgccagagg gcactgtggc aaccgtgcta atcaaacgcc ccaccggaga
3301 actcatgccc ctcgcagcca gaatgggaac acacgcgacc atgaaaattc agggccgcat
3361 ggttggcggg cagatgggta tgttgctcac tggttcaaat gctaagggta tggatttggg
3421 aacaactcct ggtgattgtg gttgcccgta catctacaaa aggggcaatg actatatagt
3481 cattggagtg cacacagcag cagcccgtgg tggaaatact gtcatctgcg ccacgcaggg
3541 aagtgagggt gaggcgactc tcgagggtgg agacgacaaa ggaacatact gtggggcacc
3601 cattctgggc cctggaggag caccaaaatt gagtaccaaa accaaattct ggaggtcatc
3661 aaacacgccc ctcccaccag ggacatatga gcccgcttac cttggtggtc gtgacccgcg
3721 tgtgaagggt gggccctctt tgcagcaagt tatgagagat cagttgaagc ccttcactga
3781 gcccaggggt agacctccaa gacctagtgt actggaggca gctaaacaaa ccatcatcaa
3841 cgtcctcgag caaaccttgg accccccaca aaagtggaca tacgcacagg cgtgtgcttc
3901 gcttgataag accacctcta gtgggcaccc ccatcacgcc cgaaagaatg aattctggaa
3961 tggtgagacc tttattggta agttggcaga ccaagcatca aaagcaaatt tgatgtatga
4021 ggaagggaaa cacatgacac cagtgtacac agcagccctc aaggacgagt tggtcaagac
4081 tgacaaaatc tatggtaaga tcaagaagag actgctttgg ggttctgact tgtccaccat
4141 ggtccgatgt gctagggcct ttggtggact catggatgag atgaaggcac actgcatatc
4201 actcccagtt cgagttggta tgaacatgaa tgaggatggc ccaataatat ttgagaagca
4261 ttccagatat aagtaccatt atgatgctga ttactcccgc tgggattcaa cacaacaaag
4321 ggctgttcta gcagcggcct tggagataat ggtcagattc tctgcagaac cacaactggc
4381 gcaaacagtc gctgaagatc tgctggcccc tagtgtggta gatgtagggg acttcaaaat
4441 ctcaataagt gaggggctcc cttctggtgt accatgcact tcccagtgga actccatcac
4501 acattggctg ctgactctct gtgctttgtc tgaagtcacc aacctgtccc ctgatatcgt
4561 gcaggcaaat tccatgttct cgttttacgg tgatgacgag attgtcagca ccgatataaa
4621 attagaccct gaaaagttaa ccaccaaatt gagagaatat ggtctgaaac caacccgccc
4681 agataaaact gagggacccc tgatcatcag cgaggatttg gacggactca ctttcctccg
4741 gaggacagtt tctcgtgacc cagctggctg gtttggaaag ctagatcaaa gttcaatact
4801 aagacagatg tattggacca gaggaccaaa ccatgaagac cccaatgaaa caatgatacc
4861 ccactctcaa agacccatac agctcatggc actgcttggc gaggcttccc tccatggacc
4921 ctctttctat agcaagatta gtaaattggt cataactgaa ctcaaagaag gtgggatgga
4981 cttttacgtg ccaaggcagg aacccatgtt caggtggatg aggttttctg acttgagcac
5041 gtgggagggc gatcgcaatc tggctcccag ttttgtgaat gaagatggcg tcgaatgacg
5101 ccgctccatc taatgatggt gcagccggtc tcgtaccaga ggtcaacaac gagacaatgg
5161 cactagagcc agttgcagga gcttcaattg ctgccccttt aactggtcaa aacaatgtaa
5221 tagacccctg gattagatta aattttgtac aagcccccaa tggtgagttc acggtttccc
5281 cccgaaactc gcctggtgaa attttgttaa atttggagtt agggcctgaa ttaaatccat
5341 acttagccca tttagcaagg atgtataatg gttatgcagg tggggttgag gtgcaggtac
5401 tgctggctgg aaatgcgttt acagcaggca aacttgtatt tgcagcaatc ccccctcatt
5461 ttccagtaga taatttgagc cctggccaga ttactatgtt cccccatgtg attattgatg
5521 ttagaacact tgaacctgtc ttgttaccat tacctgatgt tagaaataat ttctttcact
5581 ataatcaaca gagtgatcag cgcatgagac ttgttgctat gctttatacc cctcttagat
5641 ctaatggttc aggtgatgat gtcttcactg tgtcatgcag ggtcctaacc aggccatccc
5701 ctgattttga ttttaattat ctggttcctc caacagttga atctaaaact aaacccttct
5761 cagtcccagt gctaaccctt aatgagctga ccaactctcg ttttcctgtt ccgattgatg
5821 ccatgtacac cagccctaat gactcaattg tggtccaacc tcaaaatgga agggcaacca
5881 tagacggtga gttgcttggc accactcaac tcatacccag tggtatctgt tcatttaggg
5941 gaaaaatcac aacacatttg tcagatgata ggcacttgtg gaacatccaa gtctccaatt
6001 tgaatggcac tccgtttgac ccaacagacg acgtgcccgc accattgggt atgccagact
6061 tctctgggca aatatttggg gtggttagtc aaagggacac aggcaccaac cccgcaaaca
6121 gagctcatga cgctgttctt gcaacctaca gcgccaaata cacacctaag ctcggctcag
6181 tccaaattgg aacatgggac accgaggatt tgcttgaaag acagcctgtc aagttcacgc
6241 ccgttggtct caatgaaata gggcaagaca agcatttcga ccaatgggtg ttgccaaatt
6301 attctggtgc cctgggactc aacatgcacc tggctcctgc tgtatcccca ctctttcccg
6361 gagagagatt attgttcttt agatcatata tacctctaaa aggtggccat ggggacccat
6421 ttattgattg tcttgtgcca caagagtgga tacaacattt ttaccaagaa tcagccccag
6481 cacaatcctc ggtggctcta ctgaggtatg tgaatccaga cacaggtcgc actctatttg
6541 aggccaaatt acacaaggaa gggtttatca ccgtctctag cacggaaaat aggcctgtga
6601 ttgtcccccc aaatggttac tttaggtttg actcttgggt taaccaattt tactcattag
6661 cccccatggg aactggcaat gggcgcagaa ggatgcagta atggctggag cttttatagc
6721 aggacttgct ggtgacattg tcactaacgg cattggttcg cttgtgaacg ctggagccaa
6781 tgctataaac caaaaagttg attttgaaaa taacaaacag ctacaacagg cctcttttaa
6841 ccatgacaaa gagatgctgc aagcccaaat tcaagccacc aaacagctac aggctgacat
6901 gatttcaatc agacaagggg ttttgaccgc gggcggcttc tcccctactg atgctgcaag
6961 gggtgcagtc aacgcaccga tgacccaagt gctggactgg aatggaacta gacattgggc
7021 ccctggagcc tcaagaacta ccagcttctc tggtgggttc accaattcta cccgtgccag
7081 aacagttgag ccacctaaaa gttccccccc tgttcaaaat actttgatct ctgcttctag
7141 acctagctct actgtctcat cttcctctac ccgttcgact gtggttacta gctcttctac
7201 tcccccatct attaggtctt ctgtaactag aagttcaccc cgcagtgttt ctcaatctgt
7261 ttctcctgtt tcttctcgca ctggtgattg ggtgcaaaac caaaatagaa tgctggagcc
7321 atatctgagg gggtcgttgc aaacagcctt cgtgtcgccg ccctccagta aggcctctag
7381 taatggcact gtctcaactg tgccaaaaga agttttggac tcctggacat ctgcgtttaa
7441 tacccgcaga cagccgctct tcgctcacct ccgtcggagg ggggagtcac aagcttagtg
7501 aaaagaatta gattttcttt ttctttcttt ccttttgttg aaaatcttat gtcttttaaa
7561 aaaaaaaaaa aaaaaaaaa
//