Typing tool
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Typing tool
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Complete norovirus genomes
| MK590973 | GII.2 | |
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| GII.P16 |
ORF1: 1..5057
ORF2: 5038..6666
ORF3: 6666..7445
LOCUS MK590973 7471 bp RNA linear VRL 11-MAR-2019
DEFINITION Norovirus GII isolate V17T03094_Noro_GII_P16_GII_2 nonstructural
polyprotein (ORF1) gene, partial cds; and VP1 (ORF2) and VP2 (ORF3)
genes, complete cds.
ACCESSION MK590973
VERSION MK590973.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7471)
AUTHORS Pan,C.-Y., Huynh,T., Castro,C.J., Ng,T.F., Marine,R.L. and
Wadford,D.A.
TITLE Norovirus GII.P16-GII.2 from School Outbreaks; California, 2017
JOURNAL Unpublished
REFERENCE 2 (bases 1 to 7471)
AUTHORS Pan,C.-Y., Huynh,T., Castro,C.J., Ng,T.F., Marine,R.L. and
Wadford,D.A.
TITLE Direct Submission
JOURNAL Submitted (05-MAR-2019) 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..7471
/organism="Norovirus GII"
/mol_type="genomic RNA"
/strain="RGDS-2017-1014"
/isolate="V17T03094_Noro_GII_P16_GII_2"
/isolation_source="stool"
/host="Homo sapiens"
/db_xref="taxon:122929"
/country="USA: CA"
/collection_date="May-2017"
/note="genotype: GII.P16-GII.2"
gene <1..5057
/gene="ORF1"
CDS <1..5057
/gene="ORF1"
/codon_start=3
/product="nonstructural polyprotein"
/protein_id="QBJ03984.1"
/translation="NNNDKEKSSGEGLFTNVSSTLKKALGARPKQPAPRDKPQKPPRP
PTPELVKRIPPPPPNGEEEEEPVIRYEVKSGISGLPELTTVPQPDVANTAFSVPPLSL
RENREAKEPLTGAILEMWDGEIYHYGLYVEKGLVLGVHKPPAAISMARVELTPLSLYW
RVVYTPQYLISPETLRRLNGEAFPYTAFDNNCYAFCCWVLDLNDSWLSRRMVQRTTGF
FRPYQDWNRKPLPTMDDSKIKKVANIFLCSLSTLFTRPIKDLIGKIKPLNILNILATC
DWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPEDLAVELVPVVMGGI
GLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFPKKEEANELAMVRA
IEDAVLDLEAIENNHMTTLLKDKDSLATYMKTLDMEEEKARRLSTKSASPDIVGTINA
LLARIAAARSLVHRAKEELSSRMRPVVVMISGKPGIGKTHLAREVARKVASTLTGDQR
VGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRIQELADTCPLTLNCDRIENKG
KVFDSEVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEKAKRDFPGQPDMWK
DAFKSDFSHIKLQLAPQGGFDKNGNTPHGKGVMKTLTTGSLIARASGLLHERMDEFEL
QGPTITTFNFDRNRITAFRQLAAENKYGLVDTMKVGNQLKGVKTMEELKQAIRNVTIK
RCQIIYGGSTYDLESDGKGKVLVEKVKNTSVQTNNELAGALHHLKHARIRYYVKCVQE
AVYSIMQIAGAAFVTTRIARRMNIQELWSKPQLDQNESETKEEAPKSEDDEFIISSKD
IKEEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKYSIEEYLQDRDRYY
EELAIAKATEEDFCEEEEIKIRQRIFRPTRKQRKEERATLGLVTGSEIRKRNPDDFKP
KGKLWADDNRSVDYNEKLDFEAPPSIWSRIVSFGSGWGFWVSPSLFITSTHVVPAGIT
EAFGVPIKQIQIHKSGEFCRFRFPKPIRPDVTGMILEEGAPEGTVASVLIKRPTGELM
PLAARMGTHATMKIQGRMVGGQMGMLLTGSNAKGMDLGTTPGDCGCPYIYKRGNDYIV
IGVHTAAARGGNTVICATQGSEGEATLEGGDDKGTYCGAPILGPGGAPKLSTKTKFWK
SSNTPLPPGTYEPAYLGGRDPRVKGGPSLQQVMRDQLKPFTEPRGKPPRPSVLEAAKQ
TIINVLEQTLDPPQKWTYAQACASLDKTTSSGHPHHVRKNEFWNGETFTGKLADQASK
ANLMFEEGKHMTPVYTAALKDELVKTEKIYGKIKKRLLWGSDLSTMIRCARSFGGLMD
EMKAHCISLPVRVGMNMNEDGPIIFEKHSRYKYHYDADYSRWDSTQQRAVLATALEIM
VRFSAEPQLAQIVAEDLLAPSVVDVGDFKIAINEGLPSGVPCTSQWNSIAHWLLTLCA
LSEVTKLSPDIIQANSMFSFYGDDEIVSTDIKLDPEQLTAKLKEYGLKPTRPDKTEGP
LIISEDLNGLTFLRRTVTRDPAGWFGKLDQSSILRQMYWTRGPNHEDPNETMIPHSQR
PIQLMALLGEASLHGPSFYSKISKLVITELKEGGMDFYVPRQEPMFRWMRFSDLSTWE
GDRNLAPNFVNEDGVE"
mat_peptide <1..953
/gene="ORF1"
/product="p48"
mat_peptide 954..2051
/gene="ORF1"
/product="NTPase"
mat_peptide 2052..2582
/gene="ORF1"
/product="p22"
mat_peptide 2583..2981
/gene="ORF1"
/product="VPg"
mat_peptide 2982..3524
/gene="ORF1"
/product="Pro"
mat_peptide 3525..5054
/gene="ORF1"
/product="RdRp"
gene 5038..6666
/gene="ORF2"
CDS 5038..6666
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="QBJ03985.1"
/translation="MKMASNDAAPSTDGAAGLVPESNNEVMALEPVAGAALAAPVTGQ
TNIIDPWIRANFVQAPNGEFTVSPRNAPGEVLLNLELGPELNPYLAHLARMYNGYAGG
MEVQVMLAGNAFTAGKLVFAAVPPHFPVENLSPQQITMFPHVIIDVRTLEPVLLPLPD
VRNNFFHYNQKDDPKMRIVAMLYTPLRSNGSGDDVFTVSCRVLTRPSPDFDFTYLVPP
TVESKTKPFTLPILTLGELSNSRFPVSIDQMYTSPNEVISVQCQNGRCTLDGELQGTT
QLQVSGICAFKGEVTAHLHDNDHLYNVTITNLNGSPFDPSEDIPAPLGVPDFQGRVFG
IISQRDKHNNPGYNEPANRGHDAVVPTYTAQYTPKLGQIQIGTWQTDDLTVNQPVKFT
PVGLNDTEHFNQWVVPRYAGALNLNTNLAPSVAPVFPGERLLFFRSYIPLKGGYGNPA
IDCLLPQEWVQHFYQEAAPSMSEVALVRYINPDTGRALFEAKLHRAGFMTVSSNTSAP
VVVPANGYFRFDSWVNQFYSLAPMGTGNGRRRVQ"
gene 6666..7445
/gene="ORF3"
CDS 6666..7445
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="QBJ03986.1"
/translation="MAGAFMAGLAGDVLSNGLSSLINAGANAINQRAEFDFNQKLQQN
SFNHDKEMLQAQIQATKQLQADMMAIKQGVLTAGGFSPADAARGAVNAPMTQALDWNG
TRYWAPNSMRTTSYSGKFTSTAPVRQADFQHTQSRPSSGSSVSSFATQSSRPTLATTT
GSSHGTASSNSTRSTSLSQSTVSRATSRTGEWVRDQNRNLEPYMHGALQTAFVTPPSS
RASDGTVSTVPKGVLDSWTPAFNTRRQPLFAHLRKRGESQA"
ORIGIN
1 acaacaacaa cgacaaagaa aaatcttcag gtgaaggctt attcacaaat gtgtcttcca
61 ccttaaagaa agccctcggg gctaggccca aacagcctgc cccgagagac aaaccacaaa
121 agcccccaag accaccaact cccgagttgg tcaagaggat accccctcct ccacctaatg
181 gcgaagaaga agaagaacca gtcattaggt atgaggttaa gagtgggatc tctggcctgc
241 ccgagctcac aacagtcccc caaccggacg tggccaacac agcatttagc gttccaccac
301 tgagcttgag agaaaacagg gaggccaagg aaccgctaac aggggcaata ttagagatgt
361 gggatggaga gatataccac tatggcctgt acgtggagaa aggcttagtg ttgggtgtgc
421 acaaaccacc tgcagccata agcatggcaa gagtggagct gacgccgttg tcattgtact
481 ggcgtgtggt gtacactccc caatacctca tctcccctga aactctcagg aggctcaacg
541 gagaggcatt cccttacacc gcctttgaca ataactgcta tgccttttgc tgctgggtgt
601 tagacctcaa tgactcatgg cttagcagga ggatggtaca aagaacaacg ggcttcttca
661 gaccttacca agattggaac agaaaacccc tgcctaccat ggatgactcc aaaattaaga
721 aggtagcaaa tatattccta tgttcattgt ccacattatt caccagaccc ataaaagacc
781 tcatagggaa aataaaacca ttaaacatat tgaacatcct ggcaacgtgt gactggactt
841 ttgccggaat agtggagtct ctgatattac ttgctgaact cttcggagtt ttctggacac
901 ccccagatgt gtctgctatg atcgctccct tactcgggga ctacgagttg caagggccag
961 aagacctcgc cgttgagctc gtacctgtgg taatgggggg gattggtttg gtgttgggat
1021 tcaccaaaga gaaaattggc aaaatgttgt cctcagcagc atcaacactc agggcttgca
1081 aagatcttgg tgcctatggc ttagagatac ttaaattggt catgaagtgg ttcttcccaa
1141 agaaagagga ggccaatgag ctagccatgg tgagggccat agaggatgct gtactagacc
1201 ttgaggcaat agaaaataac cacatgacaa ccctgttgaa agacaaagac agcttagcaa
1261 cgtacatgaa aacactggac atggaggagg agaaagccag gaggttgtcc acaaaatctg
1321 catcccctga catagttggg acaatcaacg ccctgctggc tcgaatagca gcagccaggt
1381 cattagtcca cagggccaag gaagagctat ctagcaggat gaggccagta gttgtcatga
1441 tatctggaaa accaggaata ggtaaaactc atctggccag ggaggtggca agaaaggtgg
1501 catccactct cacaggggat caaagagtcg gactcatacc acgaaacggt gtggaccatt
1561 gggatgcata caaaggtgag agagtcgtgc tgtgggacga ctatggcatg agtaacccca
1621 ttcatgatgc tcttcgcata caagaattgg ctgatacgtg tccccttacc ttaaattgtg
1681 acagaattga aaataaggga aaagtctttg acagtgaagt cataataatt acaacaaacc
1741 tcgccaatcc agccccactt gattatgtca actttgaggc ctgttccagg agaattgatt
1801 tcctggtgta cgctgaggca ccagaagtag aaaaggcaaa acgggacttt cctggtcagc
1861 cagatatgtg gaaggacgcc ttcaagtcag acttttcaca catcaagcta cagcttgcac
1921 cccagggcgg ctttgacaag aatggcaaca ccccacatgg gaaaggagtg atgaagaccc
1981 tcactaccgg ttctctgatt gcccgtgcat caggcctact gcatgagagg atggatgaat
2041 ttgaactcca aggtcccaca atcaccacct tcaatttcga ccggaacaga atcacggcat
2101 tcagacaatt ggctgcagaa aacaagtatg gattggtgga taccatgaaa gttggcaatc
2161 aattaaaagg agtaaagacc atggaagaac tcaaacaagc aatcaggaat gtgaccatca
2221 agaggtgcca gatcatctac ggtggttcca cgtatgacct tgaatctgat ggcaagggca
2281 aagttttggt ggaaaaggtc aagaacacct ctgtacagac caacaacgag ttggctgggg
2341 ccctgcacca tctcaaacat gcccgaatca ggtactatgt caaatgtgtg caagaagcag
2401 tctattccat catgcaaatt gccggcgctg cgtttgtcac cacacgcatt gcacgccgca
2461 tgaacataca agaactctgg tcgaagccac aactagatca aaatgaatca gagactaagg
2521 aagaggcccc caagtcagaa gatgacgagt tcatcatatc ttctaaggac atcaaggagg
2581 aaggaaagaa gggcaaaaac aaaactggcc gtggcaagaa acacactgca ttctccagca
2641 agggcctgag cgatgaggag tatgacgagt acaagaggat aagagaagag agaaatggga
2701 agtactctat agaggagtat cttcaagaca gagacaggta ctatgaggaa ctcgccattg
2761 ccaaggccac ggaagaagac ttctgtgaag aggaggagat caaaatccgt cagagaattt
2821 tccgtcccac caggaaacaa agaaaggaag agagggccac attagggcta gtgacaggtt
2881 cagaaatccg aaaaagaaac cctgatgact tcaaacccaa agggaagctg tgggccgacg
2941 acaacaggag tgttgactac aatgagaaac tggactttga ggccccccca agcatatggt
3001 ctaggattgt gagctttggt tctggctggg gcttctgggt gtcaccaagc cttttcataa
3061 catcaactca tgtagtcccc gcgggcataa cagaagcatt tggagtcccc atcaaacaaa
3121 ttcagatcca caaatcaggc gaattttgcc gattcagatt cccaaaacca attagaccag
3181 atgtgacagg aatgatcctg gaagaaggtg cacctgaggg caccgtggca tctgtgctca
3241 tcaaacgccc caccggagag ctcatgcctc ttgcagccag aatgggaaca cacgcaacca
3301 tgaaaattca aggccgcatg gttggcgggc agatgggtat gttgctcact ggatcaaatg
3361 ctaaaggaat ggacttggga acaactcctg gtgactgtgg ctgtccttat atctataaaa
3421 ggggcaatga ctatatagtc attggggtgc acactgcagc agcccgtggt ggaaacaccg
3481 tcatctgtgc cacacaggga agtgagggtg aggcaactct tgagggtgga gatgacaaag
3541 gaacatactg tggggcaccc attctaggcc ctgggggtgc accaaaattg agcaccaaaa
3601 ccaaattttg gaagtcatcg aacacgcccc ttccaccagg gacatatgag cctgcctacc
3661 tcggtggccg tgatccgcgt gttaagggtg ggccttccct gcagcaggta atgagagacc
3721 agttgaagcc attcactgaa cccaggggca aacctccaag accaagtgta ttggaagcag
3781 ccaaacaaac catcatcaat gtcctcgaac aaaccctgga ccctccacaa aaatggacat
3841 acgcacaggc gtgtgcctca cttgacaaaa ccacctccag cgggcacccc catcacgtcc
3901 gaaagaatga gttctggaat ggtgagacct tcactggtaa actggcagac caagcatcaa
3961 aagcaaacct aatgtttgag gaagggaaac acatgacacc agtgtacaca gcagcactca
4021 aggacgagct agtcaagact gagaaaatct atggaaagat caagaagaga ctgctctggg
4081 gctctgactt gtccaccatg atccggtgcg ctaggtcatt tggtgggctc atggacgaga
4141 tgaaggcaca ctgcatatca ctcccagtcc gagttggcat gaatatgaat gaagatggcc
4201 caataatatt tgagaaacat tccagataca aatatcacta tgatgcagac tactctcgtt
4261 gggattcaac acaacagagg gcagtactag caacagcctt ggaaatcatg gtcagattct
4321 ctgcagaacc acaattggca caaatagtcg ctgaggatct gctggctcct agtgtagtag
4381 atgtaggaga ctttaaaatt gcaataaatg aagggctccc ttctggtgtg ccatgcactt
4441 ctcagtggaa ctccatcgca cactggctgc taactctctg tgccttgtct gaagtcacca
4501 aactgtcccc tgacattata caggcaaatt ccatgttctc attttacggt gatgacgaga
4561 ttgtcagcac cgatataaaa ttagaccctg aacagttaac cgccaaattg aaggagtacg
4621 gcctgaaacc aacccgccca gacaaaaccg agggacccct gattatcagt gaagatttga
4681 acggtctcac tttcctccga aggacggtga ctcgtgaccc agctggctgg tttggaaaac
4741 tggaccaaag ctcaattctg aggcagatgt actggactag aggaccaaat catgaagacc
4801 ccaatgagac aatgataccc cattctcaaa gacccataca gctcatggca ctgcttggtg
4861 aagcctctct tcacggaccc tctttctaca gtaaaatcag taaattggtc ataactgaac
4921 tcaaagaagg tgggatggac ttttacgtgc caaggcagga acccatgttc aggtggatga
4981 ggttttctga cttgagcacg tgggagggcg atcgcaatct ggctcccaat tttgtgaatg
5041 aagatggcgt cgaatgacgc cgctccatct actgatggtg cagccggcct cgtgccagaa
5101 agtaacaatg aggtcatggc tcttgaaccc gtggctggtg ccgccttggc agccccggtc
5161 accggtcaaa caaatattat agacccttgg attagagcaa attttgtcca ggcccctaat
5221 ggtgaattta cagtctctcc ccgaaatgcc cctggtgaag tgctactgaa tctagagttg
5281 ggtccagaat taaatcctta tctggcacat ttagcaagaa tgtacaatgg gtatgccggt
5341 gggatggagg tgcaggtcat gttagctggg aacgcgttca cagccggcaa gttggtcttc
5401 gccgccgtgc caccccactt cccggttgaa aaccttagcc cacagcaaat caccatgttc
5461 cctcatgtga tcatagatgt gagaaccttg gaacctgttt tattaccact ccctgatgtt
5521 aggaataact tcttccacta taatcagaaa gatgatccca agatgagaat tgtggctatg
5581 ctttataccc ccctcaggtc taatggttca ggtgatgatg tgtttacagt ctcctgtaga
5641 gtgttgacta gaccttcccc tgactttgat ttcacatacc tggtgccacc aacagtggag
5701 tctaaaacaa agccattcac cctcccaatc cttacacttg gggaactttc caattctagg
5761 ttcccagtgt ccatagacca gatgtatacc agccctaatg aagttatatc agtgcagtgt
5821 caaaatggta ggtgcacact ggacggggag ctccaaggga caacacaact ccaagtcagt
5881 ggcatttgtg ctttcaaagg tgaagtgacc gcccacttgc atgataatga tcatctatat
5941 aatgttacca tcacaaactt gaatgggtcc ccttttgatc cctccgagga tatccctgcc
6001 cctctgggtg tgcctgactt ccagggaagg gtttttggta tcatctccca aagagacaaa
6061 cacaacaatc ctgggtataa tgaaccagca aacaggggac acgacgctgt agtccctact
6121 tacacagcac agtatactcc aaaactggga caaattcaaa ttggcacgtg gcaaactgat
6181 gaccttacag tcaaccaacc agtcaaattc accccagttg gactcaatga cactgaacat
6241 tttaatcaat gggtggtccc taggtatgct ggtgccctaa acctcaatac aaaccttgcc
6301 ccttctgttg ctccagtatt tccaggagag cgcctgctct tcttcagatc atacattccc
6361 ctcaagggcg gttatggaaa cccagccatt gattgcctac taccacaaga gtgggtgcaa
6421 cacttctatc aggaagcagc cccttcaatg agtgaggtgg ccctcgtcag gtacatcaac
6481 ccggacactg gtcgggcact gtttgaggcc aagctccaca gagctggttt catgacagtc
6541 tcgagcaaca ctagtgcccc ggtggttgtg cctgccaacg gatacttcag atttgattct
6601 tgggtgaacc aattttattc tctcgccccc atgggaactg ggaatgggcg tagaagggtt
6661 caataatggc tggagctttt atggctggtc ttgcagggga cgtgctcagc aatgggctta
6721 gttcattaat caatgcaggt gctaatgcaa taaatcagag ggcagaattt gattttaatc
6781 agaaattgca gcaaaattct tttaatcatg ataaggagat gttgcaggct cagattcagg
6841 caactaagca gctgcaggca gacatgatgg ctataaaaca aggggtcttg accgctggcg
6901 gcttttcccc tgctgatgca gccagaggtg ctgtgaacgc gcccatgaca caggcgctgg
6961 attggaatgg cacaaggtat tgggcaccaa actccatgag gaccacatct tattctggaa
7021 aattcacatc aaccgcccca gtgaggcagg ctgacttcca acacacccaa agccggcctt
7081 cgagtggctc ctctgtgtct tcctttgcca ctcagtcttc aaggccaact ctggccacaa
7141 ccactggttc ctcacatggc acagcctcat caaattcaac tcgcagcaca agcctctccc
7201 aatcaacggt ctccagagct acatctagga ctggtgagtg ggtcagagat caaaatagaa
7261 atttggaacc ctacatgcat ggtgccttac agacagcctt tgtcacccca ccttccagca
7321 gggcatctga tgggacagtc tcaaccgtcc cgaaaggtgt tttggactcc tggacacctg
7381 cgtttaacac ccgcaggcag ccgctttttg cacacctccg taagaggggg gagtcacaag
7441 cttagtgaaa aggtgaaaat ttgtttagga t
//