Typing tool
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Typing tool
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Complete norovirus genomes
| MT724793 | GII.2 | |
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| GII.P2 |
ORF1: 5..5104
ORF2: 5085..6713
ORF3: 6713..7492
LOCUS MT724793 7536 bp RNA linear VRL 12-JUL-2020
DEFINITION Norovirus GII isolate Hu/US/2016/GII.2[P2]/CA-RGDS-1090, complete
genome.
ACCESSION MT724793
VERSION MT724793.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7536)
AUTHORS Pan,C.-Y., Huynh,T., Padilla,T., Montmayeur,A.M., Chhabra,P.,
Barclay,L., Vinje,J. and Morales,C.
TITLE Direct Submission
JOURNAL Submitted (07-JUL-2020) Viral and Rickettsial Disease Laboratory,
California Department of Public Health, 850 Marina Bay Parkway,
Richmond, CA 94804, USA
COMMENT ##Assembly-Data-START##
Assembly Method :: SPAdes v. 3.6; Geneious v. R10
Sequencing Technology :: Illumina
##Assembly-Data-END##
FEATURES Location/Qualifiers
source 1..7536
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="Hu/US/2016/GII.2[P2]/CA-RGDS-1090"
/isolation_source="stool"
/host="Homo sapiens"
/db_xref="taxon:122929"
/country="USA: California"
/collection_date="Apr-2016"
/note="genotype: GII.2[P2]"
gene 5..5104
/gene="ORF1"
CDS 5..5104
/gene="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="QLD97873.1"
/translation="MKMASNDASAAAAVNSNNDNTKSSSDGMLNNMAVTLKRALGARP
KQPAPREKPPRPPRPPTPELIKRIPPPPPNDGDEPTVMFSTVGGVSGLPELTTVGQPP
EANTAFSVPPLSQRENRDAKEPLTGTILEMWDGEIYHYGLYVERGLVLGVHKPPAAIS
IAKVELTPLSLYWRPVYTPQYLISPDSLRKLHGELFPYTAFENNCYAFCCWVLDLNDS
WLSRRMISRTTGFFRPYQEWNRKPLPTMDDSKLKKVANIVLCALSSLFTRPIKNIIGK
LKPLNILNILASCDWTFASIVESLILLAELFDVFWTPPDVSAMIAPLLGDYELQGPED
IAVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFP
KKDEANELAMVRAIEDAVLDLEAIENNHMTTLLKDKNSLAAYMKTLDMEEEKARKLST
KSASPDIVGTINALLARIAAARSLVHRAKEELSSRPRPVVLMISGKPGIGKTHLAREL
AKKIASTLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTC
PLTLNCDRIENKGKVFDSDAIIITTNLVNPAPLDYVNFEACSRRIDFLVYADAPEVEK
AKRDFPGQPDMWKDAYRSDFSHIKLQLAPQGGFDKNGNTPHGKGVMKTLTASSLVARA
SGLLHERLDEYELQGPPLSTFNFDRNKIAAFRQLAAENKYGLVDTMRVGNQLRNVTTM
DELKKAIKNIIIRKCQIVYGGNTYTLESDGKGKVVVERVQSTSVQINNEIAGAVHHLR
CARIRYYVKCVQEAIYSLLQIAGTVFVTSRIVSRMNIQNLWSRPLTEEADEATMKEGC
PKPREEEEFIVSSDDIKPEGKKGKNKSGRGKKHTAFSSKGLSDEEYEEYKRIREERNG
KYSIEEYLQDRDKYYEEVAIARATEEDFCEEEEVKIRQRIFRPTRKQRKEERANLGLV
TGSEIRKRNPDDFKPKGKLWADDDRSVDYNERISFEAPPSIWSRIVNFGSGWGFWVSP
SLFITSTHVIPQGITEAFGVPIRQVQIHKSGEFCRLRFPKPIRTDVSGMILEEGAPEG
TVATILIKRTTGELMPLAARMGTHATMRIQGRTVGGQMGMLLTGSNAKSMDLGTTPGD
CGCPYIYKRGNDYIVIGVHTAAARGGNTVICATQGSEGEATLEGGDNKGTYCGAPILG
PGNAPKLSTKTKFWRSSTTPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKPFTEP
RGKPPKPSVLEAAKKTIINVLEQTIDPPQKWTYTQACASLDKTTSSGFPHHVRKNEHW
NGESFTGKLADQASKANLMFEEGKHMTPVYTAALKDELVKTEKVYGKIKKRLLWGSDL
ATMVRCARSFGGLMDELKAHCVTLPIRVGMNMNEDGPIVFEKHSRYRYHYDADYSRWD
STQQRAVLAAAMEIMVKFSAEPQLAQIVAEDLLSPSVVDVGDFKISINEGLPSGVPCT
SQWNSIAHWLLTLCALSEVTDLSPDIVQANSLFSFYGDDEIVSTDIKLDPEKLTGKLR
EYGLKPTRPDKTEGPLIISEDLNGLTFLRRTVTRDPAGWFGKLDQSSILRQLYWTKGP
NHEDPFESMIPHSQRPIQLMSLLGEAALHEPSFYSKISKLVISELKEGGMDFYVPRQE
PMFRWMRFSDLSTWEGDRNLAPSLVNEDGVE"
mat_peptide 5..994
/gene="ORF1"
/product="p48"
mat_peptide 995..2092
/gene="ORF1"
/product="NTPase"
mat_peptide 2093..2629
/gene="ORF1"
/product="p22"
mat_peptide 2630..3028
/gene="ORF1"
/product="VPg"
mat_peptide 3029..3571
/gene="ORF1"
/product="Pro"
mat_peptide 3572..5101
/gene="ORF1"
/product="RdRp"
gene 5085..6713
/gene="ORF2"
CDS 5085..6713
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="QLD97874.1"
/translation="MKMASNDAAPSTDGAAGLVPESNTEVMALEPVAGAALAAPVTGQ
TNIIDPWIRANFVQAPNGEFTVSPRNAPGEVLLNLELGPELNPYLAHLARMYNGYAGG
MEVQVMLAGNAFTAGKLVFAAVPPHFPVENLSPQQITMFPHVIIDVRTLEPVLLPLPD
VRNNFFHYNQKDDPKMRIVAMLYTPLRSNGSGDDVFTVSCRVLTRPSPDFDFTYLVPP
TVESKTKPFTLPILTLGELSNSRFPVSIDQMYTSPNEVISVQCQNGRCTLDGELQGTT
QLQVSGICAFKGEVTAHLHDNDHLYNITITNLNGSPFDPSEDIPAPLGVPDFQGRVFG
IISQRDKHNSPGHNEPANRGHDAVVPTYTAQYTPKLGQIQIGTWQTDDLTVNQPVKFT
PVGLNDTEHFNQWVVPRYAGALNLNTNLAPSVAPVFPGERLLFFRSYIPLKGGYGNPA
IDCLLPQEWVQHFYQEAAPSMSEVALVRYINPDTGRALFEAKLHRAGFMTVSSNTSAP
VVVPANGYFRFDSWVNQFYSLAPMGTGNGRRRVQ"
gene 6713..7492
/gene="ORF3"
CDS 6713..7492
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="QLD97875.1"
/translation="MAGAFVAGLAGDVLSNGLSSLINAGANAINQRAEFDFNQKLQQN
SFNHDKEMLQAQIQATKQLQADMMAIKQGVLTAGGFSPADAARGAVNAPMTQALDWNG
TRYWAPGSMRTTAYSGRFTSTAPVRQADFQHTQSRPTSGSSVSSFATQSSRPTLTTTT
GSSLGTASSNSTRSTNLSQSTVSRATSRTGEWVRDQNRNLEPYMHGALQTAFVTPPSS
RASDGTVSTVPKGVLDSWTPAFNTRRQPLFAHLRKRGESQA"
ORIGIN
1 gtgaatgaag atggcgtcta acgacgcttc cgctgccgct gctgttaaca gcaacaacga
61 caacacaaaa tcttcaagtg acggaatgct taacaacatg gccgtcaccc ttaaacgagc
121 ccttggggcc cggcccaaac agccggcccc gagggagaaa cccccaagac cccctagacc
181 accaacacca gaattgatca aaagaatccc ccccccacca cccaatgatg gggacgaacc
241 aaccgtgatg tttagcactg taggtggcgt gtctggtcta cctgagctca caacagttgg
301 ccaaccacct gaagctaaca cggcctttag tgtgcctccc ctcagccaaa gggagaatag
361 ggacgctaag gaaccgttaa ctggaaccat tctggaaatg tgggatgggg agatttatca
421 ttatggactg tatgtggaaa gagggcttgt gttaggcgtg cacaagccgc cggctgccat
481 cagcatagcc aaagtggagt taacgcccct ctcactgtac tggagacctg tttacacgcc
541 tcagtacctt atatctcccg actccttgag gaaactccat ggtgaattgt ttccctacac
601 agcctttgaa aacaactgtt atgctttctg ctgttgggtt ttggatctta acgactcatg
661 gctaagcagg aggatgatta gtaggactac tggctttttc aggccctacc aggagtggaa
721 taggaagccc ctcccaacta tggatgactc aaaattgaag aaggttgcaa acatcgttct
781 gtgtgcattg tcatcactgt tcactagacc cattaagaac ataattggca aactcaaacc
841 cctcaacatc ctaaatatcc tggcctcatg cgactggacc tttgctagca tagtggagtc
901 actaatcctc ttggctgaac tctttgatgt gttctggaca cccccagatg tgtctgcaat
961 gatcgcaccc ctcctcggtg actacgagct gcaaggcccc gaagacatcg ctgtggagct
1021 cgtgcccgtt gtcatgggtg ggataggctt ggtgttggga ttcaccaaag agaaaatagg
1081 taagatgctc tcctctgcag cgtcaactct gagggcatgt aaagatcttg gagcctacgg
1141 gttggagatc ctaaaactag ttatgaaatg gtttttccca aagaaggatg aggccaacga
1201 actggctatg gttagagcca ttgaagacgc tgtactagac ctggaggcaa ttgagaacaa
1261 ccatatgacc actctattga aagacaagaa cagccttgca gcctacatga agaccttgga
1321 catggaagag gaaaaagcta ggaaactatc caccaaatca gcctcccctg acattgtggg
1381 caccataaac gccctactgg ctaggatcgc tgccgcacgt tccttagttc atagggccaa
1441 ggaggagctc tccagtagac caaggccagt cgttctgatg atctctggca aaccagggat
1501 aggaaagacc catctggcca gagaattggc aaagaaaatt gcatcaacac tcacaggaga
1561 ccaaagggtg ggtctcatcc cacggaatgg agttgaccat tgggacgcct acaaaggtga
1621 gagagtggtg ctctgggatg actacggtat gagcaatccc atccacgatg cactgaggtt
1681 gcaggaattg gcagacacat gtccactaac tctgaattgt gacaggattg aaaacaaggg
1741 gaaagtcttc gacagcgacg cgatcataat caccaccaat ttggtcaacc ccgcgccgct
1801 ggactatgtc aactttgagg cttgctccag acgtatagac ttccttgtgt atgccgatgc
1861 cccagaagtc gagaaagcaa aacgggactt ccccggtcaa ccggacatgt ggaaggacgc
1921 ctatcgctct gatttctcac atattaaatt gcaacttgca ccacaaggtg ggtttgacaa
1981 aaatggcaac accccacatg gtaaaggagt gatgaagact ctcactgcca gttcactggt
2041 tgcgcgtgcc tctggtctct tgcacgaaag attagatgag tacgagttac agggtccgcc
2101 cctctcaacc ttcaactttg accgcaacaa aattgcagcg ttcagacaac tcgccgctga
2161 aaataagtat ggtctggtgg acacgatgag ggtgggcaac cagctcagga atgtcacgac
2221 catggacgaa ctcaagaagg ctatcaaaaa cattataatc aggaagtgcc agatagtcta
2281 tggcggcaac acttacacgc ttgagtctga cggcaagggc aaggttgttg ttgagagggt
2341 gcagagcacc agcgtgcaaa ttaacaatga gatcgctggt gcagtgcatc accttagatg
2401 tgccaggata aggtactatg tcaaatgtgt ccaagaggcc atctactcac tcctccaaat
2461 cgccggcacg gtgtttgtca cttcacgcat cgtaagccgc atgaacattc aaaatttatg
2521 gtccagacca ttaactgaag aagcagatga ggcaaccatg aaagaggggt gccctaaacc
2581 tagggaagaa gaggagttta tcgtctcttc ggatgacatc aagccagagg gcaagaaagg
2641 taagaacaag agtggccggg gcaagaaaca cacggcattt tcaagtaaag gtctcagtga
2701 tgaggagtat gaagagtaca aaaggatcag agaggagaga aacggcaaat actccataga
2761 ggaataccta caggacagag acaaatacta tgaagaggtg gccattgcca gggcaactga
2821 agaagacttc tgtgaagaag aagaggttaa gattcgccag aggatcttca ggccaacaag
2881 aaagcaacgc aaggaagaaa gagccaacct tggcctcgtc accggatctg agatcaggaa
2941 gaggaatcca gatgacttca aaccaaaagg aaagctgtgg gccgacgatg acaggagtgt
3001 cgactacaat gaaagaatca gctttgaggc cccaccgagc atttggtcta gaattgttaa
3061 ctttggttct ggatgggggt tttgggtgtc acccagcctc ttcataacat caacacatgt
3121 catacctcaa ggcataactg aggcctttgg tgtacccata aggcaggttc aaatacacaa
3181 atcgggcgaa ttctgtcgtc tgagattccc aaaacccatc aggacggatg tgtcaggtat
3241 gatactggag gagggagcgc ctgaaggcac tgttgccacc atactcatca aaagaaccac
3301 tggagagctg atgcctcttg cagcaagaat gggcacccac gcgaccatga gaatacaagg
3361 gcgcacggtg ggcggccaga tggggatgct gcttactggg tccaacgcaa agagcatgga
3421 tcttggcacc acgcccggtg actgtgggtg cccctacatt tacaaaaggg gcaacgacta
3481 catagtcatt ggagtccaca cagcagccgc tcgtggcgga aacaccgtca tctgcgccac
3541 acaaggtagt gaaggtgagg caacactcga gggtggtgat aataaaggaa catactgtgg
3601 ggcaccaatc ctaggccccg ggaacgcccc aaaactgagc accaaaacta agttctggag
3661 gtcctcaact acaccactcc cacccggcac gtacgagccg gcatatctgg gaggaaaaga
3721 cccccgagtc aaaggtggac catctctgca acaagttatg cgagaccaac tgaagccatt
3781 cactgaaccc cgtggtaaac caccaaaacc aagtgtcctt gaagctgcta aaaagacaat
3841 catcaatgtg ctagaacaaa caatagaccc cccacaaaag tggacgtaca cgcaagcgtg
3901 cgcgtccctt gacaagacca catctagtgg gttcccccac cacgtgcgca agaacgagca
3961 ctggaatggg gaatctttca caggaaaatt ggctgaccag gcatcaaaag caaacttaat
4021 gtttgaagag gggaagcaca tgactccagt ttacacagct gcccttaagg atgaactggt
4081 caaaaccgag aaagtgtatg gaaaaataaa gaagaggttg ctttggggct ctgacctggc
4141 caccatggtg cggtgcgcgc gctcctttgg cggtctgatg gacgaactca aggcccactg
4201 tgtgacactt ccgataaggg ttggcatgaa catgaatgaa gatggaccaa tagtctttga
4261 gaaacattcc agatataggt atcactatga tgcagactat tccaggtggg actcaacaca
4321 gcaaagagcc gttctggccg cggccatgga gatcatggtt aaattctcag cagaaccaca
4381 actagcccaa atagttgcag aggatctatt gtcgcctagt gtagttgacg tgggcgactt
4441 caaaatttcc atcaatgaag ggttgccatc gggtgtccct tgcacctctc agtggaattc
4501 catcgcacat tggctcctca ctttgtgtgc cctctctgag gtcacagacc tctctcctga
4561 cattgtacag gccaactccc tcttctcctt ctatggagat gatgaaattg tgagcacaga
4621 tattaaattg gacccagaaa aactgacggg gaagttgaga gaatatggtc tcaaacctac
4681 tcgtcctgac aaaactgagg gccccctgat tatcagtgag gatctgaatg gcctgacttt
4741 cctgagaagg accgtcaccc gtgaccctgc agggtggttt ggcaaactgg accagagctc
4801 catacttagg caattgtatt ggaccaaggg ccccaatcat gaagacccct ttgagtcaat
4861 gattccacac tcccagagac ccatacaact catgtcactc ttgggtgagg cggcactgca
4921 tgaaccatca ttttacagca agatcagcaa gcttgtgata tctgaattga aagaaggtgg
4981 aatggatttt tacgtgccca ggcaagaacc tatgtttagg tggatgagat tctcggattt
5041 gagcacgtgg gagggcgatc gcaatcttgc tcccagtctt gtgaatgaag atggcgtcga
5101 atgacgccgc tccatctact gatggtgcag ccggcctcgt gccagaaagt aatactgagg
5161 tcatggctct tgaacccgtg gctggtgccg ctttggcagc cccagtcact ggtcaaacaa
5221 atattataga cccttggatt agagcaaatt ttgtccaggc ccccaatggt gaatttacag
5281 tctccccccg taatgcccct ggtgaagtgc tactaaatct ggagttgggt ccagaattaa
5341 atccttatct ggcacactta gcaagaatgt acaacgggta tgccggtggg atggaggtgc
5401 aggtcatgtt agctgggaac gcgttcacag ccggcaagtt ggtcttcgcc gccgtgccac
5461 ctcacttccc ggttgaaaac cttagtccac aacaaattac catgttccct catgtgatta
5521 tagatgtaag gactttggaa cctgtcttat taccactccc tgatgttaga aataatttct
5581 ttcattacaa tcagaaagat gatcccaaga tgagaattgt ggctatgctt tatacccccc
5641 ttagatcaaa tggctcaggt gatgatgtgt tcacagtctc ctgtagggtg ttaactaggc
5701 cctcccctga ctttgacttc acatatctgg tgccaccaac agtggagtct aaaacaaaac
5761 cattcaccct cccaatcctc acacttgggg aactttccaa ttccagattc ccagtgtcta
5821 tagaccagat gtacaccagc cctaatgaag ttatatcagt gcagtgtcaa aatggtaggt
5881 gcacattgga cggggagctc caagggacaa cacaactcca ggtcagtggc atttgtgctt
5941 tcaagggaga ggtgaccgcc catttgcatg acaatgatca cctatacaat atcaccatca
6001 caaacttgaa tggatcccct tttgacccct ctgaggacat ccctgcccct ctgggcgtac
6061 ctgactttca gggaagggtc tttggtatta tctcccaaag ggacaaacac aatagccctg
6121 gacataatga accagcaaac aggggacacg acgctgtggt ccctacttac acagcacagt
6181 acactccaaa attgggtcag attcaaattg gcacatggca gactgacgat ctcactgtca
6241 accaaccagt aaaattcacc ccagttggac tcaatgatac tgaacatttt aaccaatggg
6301 tggtccccag atatgctggt gccctaaacc tcaacacaaa ccttgcccct tctgttgccc
6361 cagtatttcc aggggagcgc ctgctctttt tcagatcata catccccctc aagggtggct
6421 atggaaatcc agccattgat tgcctactac cacaagagtg ggtgcaacac ttctaccagg
6481 aagcagcccc ttcaatgagt gaggtggccc ttgtcaggta catcaacccg gacactggtc
6541 gggcactgtt tgaggccaag ctccacagag ctggtttcat gacggtctca agtaacacca
6601 gtgccccggt ggttgtacct gccaatggat acttcaggtt tgactcttgg gtgaatcaat
6661 tttattctct cgcccccatg ggaactggaa atgggcgcag aagggttcaa taatggctgg
6721 agcttttgtg gctggtcttg caggggacgt gctcagtaat gggctcagtt cactaattaa
6781 tgcaggtgct aatgcaataa atcagagggc agaatttgat tttaatcaga aattacagca
6841 aaattctttt aatcatgaca aggaaatgtt gcaggctcag attcaggcaa ctaagcagct
6901 gcaagcagac atgatggcta taaagcaggg ggtcctgacc gctggcggct tttcccccgc
6961 tgatgcagcc agaggtgctg tgaatgcgcc catgacacaa gcgctggatt ggaacggcac
7021 aaggtattgg gcaccaggct ccatgaggac cacagcttac tctgggagat tcacatcaac
7081 cgccccagtg aggcaggccg actttcagca cacccaaagc cggcccacga gtggctcttc
7141 tgtgtcctcc tttgccactc agtcttcaag accaactttg accacaacca ctgggtcctc
7201 acttggtaca gcttcatcaa attcgactcg cagtactaac ctctcccaat caacagtttc
7261 cagagctacg tctaggactg gtgagtgggt tagagaccaa aatagaaatt tggaacccta
7321 tatgcatggt gccttacaga cagcctttgt caccccacct tccagcaggg cgtctgacgg
7381 gacagtctca accgtcccaa aaggtgtttt ggactcctgg acacctgcgt tcaacacccg
7441 caggcagccg ctttttgcac acctccgcaa gaggggggag tcacaagctt agtgaaaagg
7501 tgaaaatcta attgatctta ccttttaaaa aaaaaa
//