Typing tool
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Typing tool
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Complete norovirus genomes
| MZ291626 | GII.2 | |
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| GII.P16 |
ORF1: 1..5097
ORF2: 5078..6706
ORF3: 6706..7485
LOCUS MZ291626 7529 bp RNA linear VRL 30-MAY-2021
DEFINITION Norovirus GII isolate Hu/US/2011/GII.2[P16]/CA-RGDS-1130
nonstructural polyprotein (ORF1), VP1 (ORF2), and VP2 (ORF3) genes,
complete cds.
ACCESSION MZ291626
VERSION MZ291626.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7529)
AUTHORS Pan,C.-Y., Huynh,T., Padilla,T., Montmayeur,A.M., Chhabra,P.,
Barclay,L., Vinje,J., Wadford,D.A. and Morales,C.
TITLE Direct Submission
JOURNAL Submitted (25-MAY-2021) Viral and Rickettsial Disease Laboratory,
California Department of Public Health, 850 Marina Bay Parkway,
Richmond, CA 94804, 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..7529
/organism="Norovirus GII"
/mol_type="genomic RNA"
/strain="CA-RGDS-1130"
/isolate="Hu/US/2011/GII.2[P16]/CA-RGDS-1130"
/isolation_source="stool"
/host="Homo sapiens"
/db_xref="taxon:122929"
/country="USA"
/collection_date="03-Jan-2011"
/note="Amplicon sequencing: first 31 nt does represent
primer sequence;
genotype: GII.2[P16]"
gene 1..5097
/gene="ORF1"
CDS 1..5097
/gene="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="QVV57743.1"
/translation="MKMASNDASAAVACNNNNDKEKSSGEGLFTNMSSTLKKALGARP
KQSAPRDNSQKPPRPPTPELVKRIPPPPPNGEEEEPVIRYEVKGGISGLPELTTVPQP
DVANTAFSVPPLSLRENREAKEPLTGAILEMWDGEIYHYGLYVEKGLVLGVHKPPAAI
SMAKVELTPLSLYWRVVYTPQYLISPETLRRLNGEAFPYTAFDNNCYAFCCWVLDLND
SWLNRRMVQRTTGFFRPYQEWNRKPLPTMDDSKIKKVANIFLCSLSTLFTRPIKDLIG
KIKPLNILNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPE
DLAVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFF
PKKEEANELAMVRAIEDAVLDLEAIENNHMTTLLKDKDSLATYMKTLDMEEEKARRLS
TKSASPDIVGTINALLARIAAARSLVHRAKEELSSRMRPVVVMISGKPGIGKTHLARE
VARKVASTLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRIQELADT
CPLTLNCDRIENKGKVFDSEVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVE
KAKRDFPGQPDMWKDAFKSDFSHIKLQLAPQGGFDKNGNTPHGKGVMKTLTTGSLIAR
ASGLLHERMDEFELQGPTVTTFNFDRNRITAFRQLAAENKYGLVDTMRVGNQLKGVKT
MEELKQAIKNVTIKRCRIIYGGSTYDLESDGKGKVLVEKIKNTSVQTNNELAGALHHL
KHARIRYYVKCVQEAVYSIIQIAGAAFVTTRIARRMNIQELWSKPPLDQNESEAKEDV
PKSEDDEFIISSKDIKEEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNGK
YSIEEYLQDRDRYYEELAIAKATEEDFCEEEEVKIRQRIFRPTRKQRKEERATLGLVT
GSEIRKRNPDDFKPKGKLWADDNRSVDYNEKLDFEAPPSIWSRIVSFGSGWGFWVSPS
LFITSTHVIPAGITEAFGVPIKQIQVHKSGEFCRFRFPKPIRPDVTGMILEEGAPEGT
VATVLIKRPTGELMPLAARMGTHATMKIQGRMVGGQMGMLLTGSNAKGMDLGTTPGDC
GCPYIYKRGNDYIVIGVHTAAARGGNTVICATQGSEGEATLEGGDDKGTYCGAPILGP
GGAPKLSTKTKFWRSSNTPLPPGTYEPAYLGGRDPRVKGGPSLQQVMRDQLKPFTEPR
GKPPRPSVLEAAKQTIINVLEQTLDPPQKWTYAQACASLDKTTSSGHPHHVRKNEFWN
GETFTGKLADQASKANLMFEEGKHMTPVYTAALKDELVKTDKVYGKIKKRLLWGSDLS
TMVRCARSFGGLMDEMKAHCISLPVRVGMNMNEDGPIIFEKHSRYKYHYDADYSRWDS
TQQRAVLAAALEIMVRFSAEPQLAQIVAEDLLAPSVVDVGDFKISINEGLPSGVPCTS
QWNSIAHWLLTLCALSEVTKLSPDIVQANSMFSFYGDDEIVSTDIKLDPEKLTTKLKE
YGLKPTRPDKTEGPLIISEDLNGLTFLRRTVTRDPAGWFGKLDQSSILRQMYWTRGPN
HEDPNETMIPHSQRPIQLMALLGEASLHGPSFYSKISKLVITELKEGGMDFYVPRQEP
MFRWMRFSDLSTWEGDRNLAPNFVNEDGVE"
mat_peptide 1..993
/gene="ORF1"
/product="p48"
mat_peptide 994..2091
/gene="ORF1"
/product="NTPase"
mat_peptide 2092..2622
/gene="ORF1"
/product="p22"
mat_peptide 2623..3021
/gene="ORF1"
/product="VPg"
mat_peptide 3022..3564
/gene="ORF1"
/product="Pro"
mat_peptide 3565..5094
/gene="ORF1"
/product="RdRp"
gene 5078..6706
/gene="ORF2"
CDS 5078..6706
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="QVV57744.1"
/translation="MKMASNDAAPSTDGAAGLVPESNNEVMALEPVAGAALAAPVTGQ
TNIIDPWIRANFVQAPNGEFTVSPRNAPGEVLLNLELGPELNPYLAHLARMYNGYAGG
MEVQVMLAGNAFTAGKLVFAAVPPHFPVENLSPQQITMFPHVIIDVRTLEPVLLPLPD
VRNNFFHYNQKDDPKMRIVAMLYTPLRSNGSGDDVFTVSCRVLTRPSPDFDFTYLVPP
TVESKTKPFTLPILTLGELSNSRFPVSIDQMYTSPNEVISVQCQNGRCTLDGELQGTT
QLQVSGICAFKGEVTAHLHDNDHLYNVTITNLNGSPFDPSEDVPAPLGVPDFQGRVFG
VISQRDKHNSPGHNEPANRGHDAVVPTYTAQYTPKLGQIQIGTWQTDDVIVNQPLKFT
PVGLNDTEHFNQWVVPRYAGALNLNTNLAPSVAPVFPGERLLFFRSYVPLKGGYGNPA
IDCLLPQEWVQHFYQEAAPSMSEVALVRYINPDTGRALFEAKLHRAGFMTVSSNTSAP
VVVPANGYFRFDSWVNQFYSLAPMGTGNGRRRVQ"
gene 6706..7485
/gene="ORF3"
CDS 6706..7485
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="QVV57745.1"
/translation="MAGAFVAGLAGDVLSNGLSSLINAGANAINQRAEFDFNQRLQQN
SFNHDKEMLQAQIQATKQLQADMMAIKQGVLTAGGFSPADAARGAVNAPMTQALDWNG
TRYWAPGSMRTTSYSGKFTSTAPVRQADFQHTQSRPSSGSSVSSFATQSSRPTLTTTT
GSSHGTASSNSTRSTSLSQSTVSRATSRTSEWVRDQNRNLEPYMHGALQTAFVTPPSS
RASDGTVSTVPKGVLDSWTPAFNTRRQPLFAHLRKRGESHA"
ORIGIN
1 atgaagatgg cgtctaacga cgcttccgct gccgttgctt gcaacaacaa caacgacaag
61 gaaaaatctt caggtgaagg cttattcaca aatatgtctt ccaccttaaa gaaagccctt
121 ggggcccggc ccaaacagtc tgccccgagg gacaactcac aaaagccccc aagaccacca
181 actcccgagt tggttaagag gataccccct cccccaccta atggtgaaga agaagaacca
241 gtcattaggt atgaggttaa gggtgggatc tctggcctgc ccgagctcac aacagtcccc
301 caaccggatg tggccaacac ggcattcagt gtcccaccgc tgagcttgag agaaaacagg
361 gaggccaagg aaccgctgac aggggcaata ttagagatgt gggatggaga gatataccac
421 tatggcctgt acgtggagaa aggcttagtg ctgggtgtgc acaaaccacc tgcagctata
481 agcatggcaa aagtggagct gacgccgttg tcattgtact ggcgtgtggt ctacaccccc
541 caatacctca tctcccctga aactctcagg aggctcaacg gagaggcatt cccttacacc
601 gcctttgata acaactgcta tgccttttgc tgctgggtgt tagacctcaa tgactcatgg
661 cttaacagga ggatggtgca aagaacaaca ggcttcttca gaccttacca agagtggaac
721 agaaaacccc tgcctactat ggatgactcc aaaatcaaga aggtggcaaa catattcctg
781 tgttcattgt ccacgttgtt caccagacct ataaaagacc tcataggaaa aattaaacca
841 ttaaacatct tgaacatcct ggcaacgtgt gactggacat tcgccggaat agtggaatct
901 ctgatattac ttgctgagct ctttggagtt ttctggacac ccccagatgt gtctgctatg
961 atcgctccct tacttggaga ctacgagctg caagggccag aagacctcgc cgttgaactc
1021 gtacctgtag taatgggagg gattggtttg gtgttgggat tcaccaaaga gaaaattggc
1081 aaaatgttgt cctcagcagc atcaacactc agggcttgta aagatcttgg tgcctatggc
1141 ttagagatac tcaaattggt catgaagtgg ttcttcccaa agaaagaaga ggccaatgag
1201 ctagccatgg tgagagctat agaggatgct gtactggatc ttgaggcaat agaaaataat
1261 cacatgacaa ctctgttgaa agacaaagac agcctagcaa cctacatgaa aacactagac
1321 atggaggagg agaaagccag aagattgtcc acaaaatctg catcccccga catagttggg
1381 acgatcaacg ccctgctggc tcgaatagca gcggctaggt cactagtcca cagggccaag
1441 gaggagttat ctagcaggat gagaccagta gttgttatga tatctggcaa accagggata
1501 ggtaaaactc atttggccag agaggtggca agaaaggtgg catccactct cacaggggat
1561 caaagagtcg gactcatacc gagaaacggt gtggaccatt gggatgcata caaaggtgag
1621 agagtcgtgc tgtgggacga ctatggcatg agcaacccca ttcatgatgc tttgcgcata
1681 caagaattgg ctgatacgtg cccccttacc ttaaattgcg acagaattga aaataaggga
1741 aaagtttttg acagtgaagt cataataatt acaacaaacc ttgccaatcc agctccactt
1801 gattatgtca actttgaggc ctgttccagg agaattgact tcctggtgta cgccgaggca
1861 ccagaagtag aaaaggcaaa acgagacttt cctggtcaac cagacatgtg gaaggacgca
1921 tttaagtcgg acttttctca tatcaagttg caacttgcac ctcagggcgg ttttgacaag
1981 aatggcaaca ccccacatgg gaaaggagtg atgaagaccc tcaccaccgg ttccctgatt
2041 gcccgtgcat caggcttact gcatgagagg atggacgaat ttgaactcca aggccccaca
2101 gtcaccacct tcaatttcga ccggaacaga atcaccgcat tcagacaatt ggctgcagaa
2161 aacaagtatg ggttggtgga caccatgaga gttggcaacc aattaaaagg ggtgaaaact
2221 atggaagaac tcaaacaagc aatcaagaat gtgaccatca agaggtgccg gatcatctac
2281 ggtggctcca cgtatgacct tgaatctgat ggcaagggca aagttttggt ggaaaagatc
2341 aagaacacct ctgtacagac caacaacgag ttggccggag ccctgcatca cctcaaacat
2401 gcccgaatca ggtactatgt caaatgtgtg caagaagcag tttactctat catacaaatt
2461 gccggcgctg cgtttgtcac cacacgcatt gcacgccgca tgaacataca agagctttgg
2521 tcgaagccac cattagacca aaatgaatca gaggctaagg aagatgtccc caagtcagaa
2581 gatgacgagt tcatcatatc ttctaaggac atcaaggagg aaggaaagaa gggcaaaaac
2641 aaaactggcc gtggcaagaa acacactgca ttctctagca agggcttgag cgatgaggag
2701 tatgacgagt acaagaggat aagagaagaa agaaatggga agtactctat agaggagtat
2761 cttcaagaca gagacaggta ctatgaggaa ctcgccatcg ccaaggccac ggaagaagac
2821 ttctgtgagg aggaggaggt caaaatccgt cagaggatct tccgtcccac caggaaacaa
2881 aggaaggaag agagggccac actaggacta gtaactggtt cagaaatcag aaaaagaaac
2941 cctgatgact tcaaacctaa agggaaactg tgggccgatg acaacagaag tgttgactac
3001 aatgagaaac tggactttga ggccccccca agcatatggt ccaggattgt gagttttggt
3061 tctggttggg gcttctgggt atcaccaagc ctgttcataa catcaactca tgtaatccct
3121 gcaggcataa cagaggcatt tggagtcccc atcaaacaaa tccaggtcca caaatcaggt
3181 gaattttgcc ggttcagatt cccaaaacca attagaccag atgtgacagg aatgatcttg
3241 gaagaaggtg cgcctgaggg caccgtggca accgtgctca tcaaacgccc taccggagag
3301 ctcatgcccc ttgcagccag aatggggaca cacgcaacca tgaaaattca aggccgcatg
3361 gttggcggac agatgggtat gttgctcact ggttcaaatg ctaaaggaat ggatttggga
3421 acaactcctg gtgattgtgg ctgtccctac atctacaaaa ggggcaatga ctatatagtc
3481 attggtgtgc acacagcagc agcccgtggt ggaaacaccg tcatctgtgc cacacaggga
3541 agtgagggtg aggcaactct tgagggtgga gatgacaaag gaacatactg cggggcaccc
3601 attctaggcc ccgggggggc accaaaattg agcaccaaaa ccaaattttg gaggtcatcg
3661 aacacgcctc ttccaccagg gacatatgag cctgcctacc tcggtggccg cgacccgcgt
3721 gttaagggtg ggccctcctt gcagcaggta atgagagacc agttgaaacc attcactgaa
3781 cccaggggta aacctccaag accaagtgtg ttggaagcag ccaaacaaac catcatcaat
3841 gtcctcgaac aaaccctgga ccctccacaa aaatggacgt acgcacaggc gtgtgcttca
3901 cttgacaaaa ccacctccag cgggcacccc caccacgtcc gaaagaatga attctggaat
3961 ggtgagacct tcactggtaa attggcagac caagcgtcaa aagcaaatct gatgtttgag
4021 gaagggaaac acatgacacc agtatataca gcagccctta aggacgagct ggtcaagact
4081 gacaaagtct atggaaagat caagaagaga ctgctctggg gctctgactt gtccaccatg
4141 gtccggtgcg ccaggtcctt tggtgggctc atggatgaga tgaaggcaca ctgcatatca
4201 ctcccagtcc gagttggcat gaacatgaat gaagatggtc caataatatt tgagaagcac
4261 tccagataca agtaccacta tgatgcagac tactcccgct gggattcaac acaacagaga
4321 gcagtactag cagcagcctt ggaaatcatg gtcaggttct ctgcagagcc acaattggca
4381 cagatagtcg ctgaggatct gctggccccc agtgtggtag atgtaggaga ctttaaaatt
4441 tcaataaatg aagggctccc ctctggtgta ccatgcactt ctcaatggaa ttccatcgca
4501 cactggctgc taaccctctg tgccttgtct gaagtcacca aactgtcccc tgacattgta
4561 caggcaaatt ccatgttctc attttacggt gatgacgaga ttgtcagcac cgatataaaa
4621 ttggaccctg aaaagttgac caccaaattg aaggagtacg gcctgaaacc aactcgccca
4681 gacaaaaccg agggacccct gatcatcagt gaggacttga acggactcac ttttctccgg
4741 aggacggtga ctcgtgaccc agctggctgg tttggaaaat tggaccaaag ttcaatattg
4801 aggcagatgt actggactag aggaccaaat catgaagacc ccaatgagac aatgataccc
4861 cactctcaaa gacccataca gctcatggca ctgcttggtg aggcctccct tcacggaccc
4921 tctttctaca gcaaaatcag taaattagtc ataactgaac tcaaggaagg tgggatggac
4981 ttttacgtgc caaggcagga acccatgttc aggtggatga ggttttctga cttgagcacg
5041 tgggagggcg atcgcaatct ggctcccaat tttgtgaatg aagatggcgt cgaatgacgc
5101 cgctccatct actgatggtg cagccggcct cgtgccagaa agtaacaatg aggtcatggc
5161 tcttgaaccc gtggctggtg ccgccttggc agccccggtc accggtcaaa caaatattat
5221 agacccttgg attagagcaa attttgtcca ggcccccaat ggcgaattta cagtctctcc
5281 ccgcaatgcc cctggtgaag tgctactaaa tctagagttg ggtccagaat taaaccctta
5341 tctggcacat ttagcaagaa tgtacaacgg gtatgccggt gggatggagg tgcaggtcat
5401 gttggctggg aacgcgttca cagccggcaa gttggtcttc gccgccgtgc cacctcactt
5461 cccggttgaa aaccttagcc cacagcaaat taccatgttc cctcatgtga ttatagatgt
5521 aaggaccttg gaacctgttt tattaccact ccctgatgtt aggaataatt tcttccacta
5581 taatcagaaa gatgatccta aaatgagaat tgtggctatg ctttataccc cccttaggtc
5641 taatggttca ggtgatgatg tgttcacagt ttcctgcagg gtgttgacta gaccctcccc
5701 tgattttgac ttcacatatc tggtgccacc aacagtggaa tctaaaacaa aaccattcac
5761 cctcccaatc ctcacacttg gggaactttc caattctagg ttcccagtgt ccatagacca
5821 gatgtacacc agccctaatg aagttatatc agtgcagtgt caaaatggta ggtgcacatt
5881 ggacggggag cttcaaggga caacacaact ccaagtcagt ggcatttgtg ctttcaaggg
5941 ggaagtgacc gcccatttgc atgacaatga tcacctatac aatgtcacca tcacaaattt
6001 gaatgggtcc ccctttgacc cctccgagga cgttcctgcc cctctgggcg tgcctgattt
6061 ccagggaagg gtctttggtg tcatctccca aagagacaaa cacaatagcc ctgggcataa
6121 tgaaccagca aacaggggac acgacgctgt ggtccctact tacacagcac agtacactcc
6181 aaaattgggt cagattcaaa ttggcacatg gcagaccgac gatgttatag tcaaccaacc
6241 actcaaattc accccagttg gactcaatga cactgaacat ttcaatcaat gggtggtccc
6301 cagatacgct ggtgccctaa acctcaacac aaaccttgcc ccttctgttg ccccagtatt
6361 tccaggggag cgcctgcttt tcttcagatc atacgttccc ctcaagggtg gttatggaaa
6421 ccccgccatt gattgcctat taccacagga gtgggtgcaa cacttctatc aggaggctgc
6481 cccatcaatg agtgaggtgg cccttgtcag atacattaac ccggatactg gtcgtgcact
6541 gtttgaggcc aagctccaca gagctggttt catgacagtc tcgagcaaca ccagtgcccc
6601 ggtggttgtg cctgccaatg ggtacttcag atttgactct tgggttaatc aattctattc
6661 tctcgccccc atgggaactg gaaatgggcg tagaagggtt caataatggc tggagctttt
6721 gtagctggtc ttgcagggga cgtgctcagc aatgggctca gttcattaat taatgcaggt
6781 gccaatgcaa taaatcagag ggcagaattt gattttaatc agagattaca gcaaaattct
6841 ttcaatcatg ataaggagat gttgcaggcc cagatccagg caactaagca gctgcaggct
6901 gacatgatgg ctataaaaca gggggtcctg accgctggcg gcttttcccc tgctgatgca
6961 gccagaggtg ctgtgaatgc gcccatgaca caggcgctgg attggaacgg cacaaggtat
7021 tgggcaccag gctctatgag gaccacatct tattctggaa aatttacatc aaccgcccca
7081 gtgaggcagg ccgacttcca gcacacccaa agccggcctt cgagtggttc ttctgtgtcc
7141 tcctttgcca ctcagtcttc aagaccaact ctgaccacaa ccactgggtc ctcacatggc
7201 acagcctcat caaattcaac tcgcagcaca agcctctccc aatcaacggt ctctagagct
7261 acatctagga ctagtgagtg ggttagagac caaaatagaa atttggaacc ctacatgcat
7321 ggtgccttac agacggcctt tgtcacccca ccttccagca gggcgtctga cgggacagtc
7381 tcaaccgtcc caaaaggtgt tttggactcc tggacacctg cgttcaacac ccgcaggcag
7441 ccgctctttg cacacctccg taagaggggg gagtcacatg cctagtgaaa aggtgaaaat
7501 ttgtttagaa taaattgatt ttacctttt
//