Typing tool
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Typing tool
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Complete norovirus genomes
| OP205577 | GII.3 | |
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| GII.P21 |
ORF1: 5..5104
ORF2: 5085..6731
ORF3: 6731..7495
LOCUS OP205577 7495 bp RNA linear VRL 21-JUN-2023
DEFINITION Norovirus GII isolate RIVM-NOV-2018-0419_R04-08 nonstructural
polyprotein (ORF1), VP1 (ORF2), and VP2 (ORF3) genes, complete cds.
ACCESSION OP205577
VERSION OP205577.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7495)
AUTHORS Schmitz,D., Zwagemaker,F., van der Veer,B., Vennema,H., Bosch,T.,
Laros,J.F., Koopmans,M.P., de Graaf,M. and Kroneman,A.
TITLE Shotgun whole genome sequencing for gastroenteritis surveillance
using Norovirus as a model
JOURNAL Unpublished
REFERENCE 2 (bases 1 to 7495)
AUTHORS Schmitz,D., Zwagemaker,F., van der Veer,B., Vennema,H., Bosch,T.,
Laros,J.F., Koopmans,M.P., de Graaf,M. and Kroneman,A.
TITLE Direct Submission
JOURNAL Submitted (05-AUG-2022) Center for Infectious Diseases,
Rijksinstituut voor Volksgezondheid en Milieu, Antonie van
Leeuwenhoeklaan 9, Bilthoven, Utrecht 3721 MA, Netherlands
COMMENT ##Assembly-Data-START##
Assembly Method :: SPAdes v. v3.11.0
Sequencing Technology :: Illumina
##Assembly-Data-END##
FEATURES Location/Qualifiers
source 1..7495
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="RIVM-NOV-2018-0419_R04-08"
/isolation_source="Human feces"
/host="Homo sapiens"
/db_xref="taxon:122929"
/country="Netherlands"
/collection_date="2018-10-31"
/note="genotype: GII.3[P21]"
gene 5..5104
/gene="ORF1"
CDS 5..5104
/gene="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="UUV61032.1"
/translation="MKMASNDASAAAAAKSNNDNAKSSSDGVLSNMAVTFKRALGARP
KQPPPSDKPPKPPRPPTPELVKAIPPPPPNGEDEPIISYNVKGGVSGLPELSTVTQLE
ENSTAFSVPPLSQRENRDAKEPLTGTILEMWDGEIYHYGLYVERGLVLGVHKPPAAIS
LAKVELTPLSLYWRPVYTPQYLISPDTLRKLHGETFPYTAFDNNCYAFCCWVLDLNDS
WLNRRMVQRTTGFFRPYQDWNRKPLPTMDDSKVKKVANVVLCALSSLFTRPIKDIIGK
LKPLNILNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPED
LAVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLIMKWFFP
KKEEKNELAMVRSIEDAVLDLEAIENNHMTALLKDKDSLATYMRTLDMEEEKARKLST
KSASPDIVGTINALLSRIAAARSLVHRAKEELSSRPRPVVVMISGKPGIGKTHLAREL
AKKIASTLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSSPVHDALRLQELADTC
PLTLNCDRIENKGKVFDSDVIIITTNLANPAPLDYVNFEACSRRIDFLVYADAPEVEK
AKRDFPGQPDMWKDTFKPDFSHIKLALAPQGGFDKNGNTPHGKGVMKTLTASSLVARA
SGLLHERLDEYELQGPTPTTFNFDRNKVLAFRQLAAENKYGLVDTMRVGSQLKNVKTM
TELKQALKNISVKKCQLVYGGGTYTLESDGKGNVHVEKVNNTSVQTNNELSGVLHHLR
CARIRYYVKCVQEALYSILQIAGAAFITTRIAKRTNIQNLWSKPQAEDLEEANNEEGC
PKPKNDEEFVVSSDDIKSEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNG
KYSIEEYLQDRDKYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGLV
TGSEIRKRNPDDFKPKGKLWADDDRSVDYNEKLSFEAPPSIWSRIVNFGSGWGFWVSP
SLFITSTHVIPQGAQEFFGVPIKQIQIHKSGEFCRLRFPKPIRTDVTGMILEEGAPEG
TVATLLIKRPTGELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGD
CGCPYIYKRGNDYVVIGVHTAAARGGNTVICATQGNEGEAMLEGGDNKGTYCGAPILG
PGNAPKLSTKTKFWRSSTTPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKPFTEP
RGKPPKPSVLEAAKKTIINVLEQTIDPPQKWTYAQACASLDKTTSSGHPHHMRKNDCW
NGESFTGKLADQASKANLMFEEGKNMTPVYTGALKDELVKTDKIYGVVKKRLLWGSDL
STMIRCARAFGGLMDELKAHCVTLPVRVGMNMNEDGPIIFEKHSRYKYHYDADYSRWD
STQQRAVLAAALEIMVKFSPEPHLAQVVAEDLLSPSVMDVGDFRISINEGLPSGVPCT
SQWNSIAHWLLTLCALSEVTDLSPDIIQANSLFSFYGDDEIVSTDIKLDPEKLTSKLR
EYGLKPTRPDKTEGPLIISEDLNGLTFLRRTVTRDPAGWFGKLDQSSILRQMYWTKGP
NHEDPFETMIPHSQRPIQLMSLLGEAALHGPSFYSKISKLVISELKEGGMDFYVPRQE
PMFRWMRFSDLSTWEGDRNLAPSFVNEDGVE"
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..6731
/gene="ORF2"
CDS 5085..6731
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="UUV61033.1"
/translation="MKMASNDAAPSNDGAAGLVPEINNEAMALEPVAGAAIAAPLTGQ
QNIIDPWIMNNFVQAPGGEFTVSPRNSPGEVLINLELGPEINPYLAHLARMYNGYAGG
FEVQVVLAGNAFTAGKIIFAAIPPNFPVDNLSAAQITMCPHVIVDVRQLEPVNLPMPD
VRNTFFHYNQGSDSRLRLIAMLYTPLRANNSGDDVFTVSCRVLTRPSPDFSFNFLVPP
TVESKTKPFSLPVLTISEMSNSRFPVPIDSLHTSPTENIVVQCQNGRVTLDGELMGTT
QLLPSQICAFRGVLTRSTSRASDQADTATPRLFNYYWHIQLDNLNGTPYDPAEDIPGP
LGTPDFRGKVFGVASQRNPDTTTRAHEAKIDTTSGRFTPKLGSLEISTESSDFDQNQP
TRFTPVGIGVDHEADFQQWALPDYAGQFTHNMNLAPAVAPNFPGEQLLFFRSHLPSSG
GRSNGILDCLVPQEWVQHFYQESAPSQSQVALVRYVNPDTGRVLFEAKLHKLGFMTIA
KNGDSPITVPPNGYFRFESWVNPFYTLAPMGTGNGRRRIQ"
gene 6731..7495
/gene="ORF3"
CDS 6731..7495
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="UUV61034.1"
/translation="MAGAFIAGLAGDMLTNTVGSLVNAGANAINQTIDFENNKYLQNA
SFNHDKEMLNAQIEATKKLQADMIAIKQGVLTAGGFSPTDAARGAINAPMTKVLDWNG
TRYWAPGATSTTSMSGGFTHQTVHRSTPNFKTNQAPKPTPSSGSSVRSNSTQITSLSS
HSSGSSRSSGSTVISSIPTSNRTRDWVNQQNFNLEPHMPGSLRTAFVTPPSSTASSSG
TVSTVPKNVLDSWTSAFNTRRQPLFAHLRRRGESNV"
ORIGIN
1 gtgaatgaag atggcgtcta acgacgcttc cgctgccgct gctgccaaaa gcaacaacga
61 caacgcaaaa tcttcaagtg acggagtatt atctaatatg gctgtcactt ttaaacgagc
121 cctcggggcg cggcctaaac agccgccccc gagtgacaaa ccaccaaaac ccccaaggcc
181 acccacacca gagttggtta aggcaattcc ccctccccca cccaacgggg aggacgaacc
241 aatcatctct tacaacgtca aagggggtgt ttctggtttg cctgagctct caactgtcac
301 ccaactggaa gagaactcta cagcattcag cgttccccct cttagccaga gggagaacag
361 agatgcaaag gaaccattga ctggaaccat cctggagatg tgggacgggg agatctacca
421 ttacggctta tacgtagaac gagggttagt gcttggtgta cacaaaccac cagcagccat
481 cagccttgct aaggttgagc tgaccccttt gtctttgtat tggagaccag tgtacacccc
541 acagtacctc atctcccctg acactctcag aaagttgcat ggggagacgt tcccttatac
601 agcctttgac aacaactgtt atgccttctg ctgttgggtg cttgacttaa acgattcatg
661 gctgaacaga aggatggtac agaggacaac aggcttcttc cgaccctacc aggattggaa
721 caggaaaccc ctccccacga tggatgactc caaagtgaaa aaggtggcca atgttgtcct
781 atgtgctctc tcatcattgt tcacaagacc aattaaggac attattggga aattaaaacc
841 cctaaacatt ctcaacatct tagccacatg tgattggact tttgcaggca tagtagaatc
901 cctgatcctt ttggctgaac tttttggagt tttctggaca cccccagatg tgtctgcgat
961 gatcgctccc ttactgggtg attatgaact acagggaccc gaggacctcg ctgtggaact
1021 cgtacccgta gtaatgggag ggataggttt ggtgctggga ttcaccaaag agaaaatcgg
1081 caagatgctt tcttctgctg cttcaaccct gagggcatgt aaagatctcg gtgcatatgg
1141 gttggagatc ctcaaattga ttatgaaatg gtttttccca aagaaagaag agaaaaacga
1201 attggcaatg gtgagatcca tcgaggatgc agtgctagat cttgaagcca ttgagaacaa
1261 ccatatgaca gctctactca aggataaaga cagccttgca acctacatga ggactcttga
1321 catggaagag gagaaggcga gaaaactttc caccaagtct gcctctccgg atattgtggg
1381 cacgataaat gccctactgt caaggattgc agctgcccgg tctctagtgc acagggctaa
1441 ggaggagctg tcaagcaggc cccgaccggt cgttgtaatg atttcaggga aaccgggtat
1501 aggaaaaacc catctagcta gagagttggc aaagaagatc gcctccacac tcacgggtga
1561 ccagagggtg ggtcttatcc cacgtaacgg ggtcgaccac tgggatgctt acaaaggtga
1621 aagagtcgtt ctctgggacg actacgggat gagcagccct gtccacgacg ccctcagact
1681 ccaggagctc gctgatacct gtcctctcac actcaactgt gacaggattg agaacaaagg
1741 taaagtcttt gacagtgacg tcataataat aaccaccaat ttagccaacc cagcaccact
1801 ggattatgtc aactttgaag cttgctcgag acgcatagac ttcctcgtct atgctgacgc
1861 tcctgaagtt gagaaggcta agcgggactt cccaggccaa ccagacatgt ggaaagacac
1921 cttcaaaccc gacttctcac atataaaatt ggcattggcc ccgcaaggag gttttgacaa
1981 gaatggtaac actcctcatg ggaagggagt catgaagacc ctcaccgcca gttccctcgt
2041 tgcccgagca tcagggctcc tccacgagag attagacgag tatgagctgc agggcccaac
2101 tcccacaaca ttcaacttcg accgcaacaa ggtgcttgct tttaggcagc ttgctgctga
2161 aaacaagtac ggtcttgttg acacaatgag ggtcgggtca caactcaaaa atgtcaaaac
2221 tatgacagaa ctcaaacagg ccctcaagaa catctcagtc aagaaatgtc agcttgtgta
2281 cggtgggggc acatacacac ttgaatctga tggcaaaggc aatgtgcatg tcgaaaaggt
2341 gaacaacacc agtgtacaaa ctaacaacga gctctccggg gttttgcatc atctcaggtg
2401 tgctagaatc aggtactatg ttaagtgtgt tcaggaggct ctctactcca tattgcaaat
2461 tgccggggcc gcattcataa ccacgcgcat tgcaaagcgc acaaacatac aaaacctctg
2521 gtctaaacca caagcagaag atctagagga ggctaacaac gaggaaggtt gtccaaaacc
2581 taaaaatgat gaagaattcg tcgtctcctc tgatgacatc aaatctgagg gtaagaaagg
2641 aaagaacaag actggccgtg gtaagaagca cacagccttt tccagcaaag gactcagtga
2701 tgaggagtac gatgagtata agagaatcag ggaagagaga aatggtaagt actccataga
2761 ggaatatcta caggacaggg acaaatacta tgaggaggtg gccatagcca gggcaactga
2821 ggaagatttc tgtgaagaag aggaggccaa gatccggcag aggatattca gaccaacaag
2881 gaaacaacgc aaagaggaaa gagcttctct tggtttggtt acaggctctg agatcaggaa
2941 gagaaaccca gatgacttca agcccaaagg gaaactatgg gctgatgatg acaggagtgt
3001 tgactacaat gagaaactta gtttcgaggc accaccaagc atttggtcac gaatagtcaa
3061 ctttggctca gggtggggct tttgggtctc gcccagcctc ttcataacat caacccatgt
3121 cattccccaa ggcgcgcagg agttctttgg agtgcccatc aaacaaatac aaattcacaa
3181 gtcaggtgag ttctgccggc ttaggttccc gaaaccaatc aggacagatg tcacaggcat
3241 gatcttggag gaaggtgctc cagaaggcac tgttgccaca cttctcatca agagaccaac
3301 tggggaactc atgcccttgg cagccaggat gggcacccac gctaccatga aaattcaggg
3361 tcgcactgtt ggtggacaga tgggcatgct acttacaggg tctaacgcta agagcatgga
3421 tttgggcaca actcctggcg attgtggttg tccctatatc tacaagagag ggaacgacta
3481 cgtggtcatt ggagttcaca ctgccgccgc tcgtggggga aacaccgtca tctgtgcaac
3541 ccaaggaaac gagggtgagg ccatgctaga gggtggtgac aacaagggaa cttattgtgg
3601 ggcaccaata ttaggccctg gaaatgcccc caaactcagc accaaaacaa aattttggag
3661 gtcttccacc acccccctgc cacccggaac ctatgagcca gcttatctgg gtggcaagga
3721 ccctagagtg aaaggtggtc cctcactgca acaggttatg agagaccaac taaaaccatt
3781 cactgagccc aggggcaaac cacccaaacc aagtgtgcta gaagctgcca agaagactat
3841 aatcaatgtg cttgaacaaa caatagatcc acctcaaaaa tggacatacg cacaagcgtg
3901 tgcatcacta gacaagacca cttccagcgg tcaccctcac cacatgcgga agaacgactg
3961 ctggaatggg gaatctttca caggaaaact ggcagaccaa gcatcaaagg ccaacctaat
4021 gtttgaggaa ggaaagaaca tgactccagt gtacacagga gctctgaaag atgagctagt
4081 caagactgac aagatctatg gggtagtcaa gaagaggctc ctgtggggtt cagacctatc
4141 aaccatgata cggtgtgcac gagccttcgg tgggctaatg gacgagctca aggcccattg
4201 cgtcacacta ccagtcagag ttggtatgaa catgaatgag gatggaccca taatatttga
4261 gaaacactct agatataaat accactatga tgcagattac tcccgctggg actcaacaca
4321 acaaagagca gtgctagccg cagccctgga aataatggtc aaattctcac cagaacccca
4381 cctggcccag gtggttgcag aagacctctt gtctcccagt gtgatggacg tgggtgattt
4441 caggatatca atcaacgagg gattaccctc tggtgttcct tgcacttcac aatggaactc
4501 cattgctcac tggctcctca cactatgtgc actgtctgaa gtcacagacc tgtcccctga
4561 catcatccag gcgaattccc tgttttcctt ctatggtgat gatgaaatag tgagcacaga
4621 catcaaatta gacccagaga aactaacatc aaagctgagg gaatacgggc ttaaaccaac
4681 tcgccctgac aaaacagagg gacccttaat tatctctgaa gatttgaacg gcctaacctt
4741 cctgcggaga acagtgaccc gcgacccggc cggatggttt ggcaaactgg accaaagttc
4801 aatactcagg cagatgtatt ggactaaggg gccaaaccat gaagaccctt ttgaaacaat
4861 gataccacac tcccaaagac ccatacaact gatgtcatta cttggtgaag ctgcattgca
4921 tggtccgtca ttctacagta aaatcagcaa attggtcatc tcagaactga aagagggtgg
4981 aatggatttt tacgtgccca gacaagaacc aatgttcagg tggatgagat tctcagattt
5041 gagcacgtgg gagggcgatc gcaatctggc tcccagtttt gtgaatgaag atggcgtcga
5101 atgacgccgc tccatctaat gatggtgccg ccggcctcgt cccagagatc aacaatgagg
5161 caatggcgct ggagccagtg gcgggtgcag caatagcagc acccctcact ggtcagcaaa
5221 atataattga tccctggatt atgaataatt ttgtgcaagc tcctggtggt gagttcacag
5281 tgtcccccag aaattcccct ggtgaagtcc ttattaattt ggaactgggc ccagaaataa
5341 atccctactt ggcccatctt gctagaatgt ataatggtta tgcaggtgga tttgaagtgc
5401 aggtggtcct agctggaaat gcgtttacag caggaaagat aatctttgca gctattcccc
5461 ccaactttcc agttgataat ttaagtgcag cacaaatcac aatgtgccca catgtgattg
5521 tggatgtcag acagctggaa ccagtcaacc tcccgatgcc tgacgttcgc aataccttct
5581 ttcactataa ccaagggtct gattcgaggt tacgcctaat tgcaatgcta tacacacctc
5641 ttagagcaaa caattctggg gatgatgttt ttactgtgtc ttgtagagtg ctaactagac
5701 ctagtcctga tttctcattc aatttccttg tgccacctac tgtggagtca aagacaaaac
5761 ccttctccct ccctgtcctg actatctctg aaatgtctaa ttctagattc ccagtaccaa
5821 ttgattctct gcacaccagt cctactgaga atattgttgt tcagtgccaa aatgggcgcg
5881 tcacccttga tggtgagttg atgggcacca cccaactttt gcctagccaa atctgtgctt
5941 tcaggggcgt tctcaccaga tcaacaagca gggccagtga ccaggccgat acagcaactc
6001 ctagattgtt taattattat tggcatatac aattggataa tctaaatgga accccttatg
6061 accctgcaga agatatacca ggtcccctag ggacaccaga tttccgtggc aaagtctttg
6121 gcgtggccag ccagagaaat cctgacacca cgactagggc acatgaagca aagatagaca
6181 ccacatctgg ccgcttcacc ccaaagttgg gctcattaga gatatccact gaatctagtg
6241 attttgacca aaaccaacca acaaggttca ccccagttgg cattggggtt gaccatgagg
6301 cagactttca acaatgggcc ctacctgatt acgctggtca gttcacacac aacatgaact
6361 tagctccagc tgttgctccc aacttccctg gtgagcagct ccttttcttc cgctcacatt
6421 tgccatcttc tggtgggcga tccaacggga ttctagactg cctggtcccc caagaatggg
6481 tacagcactt ctaccaagag tcagccccct ctcagtctca agtggccctg gttaggtatg
6541 ttaatcctga tactggtaga gtgttatttg aggctaagtt acacaaatta ggtttcatga
6601 ctatagctaa gaatggtgat tctccaataa ctgtccctcc aaatggatac tttaggtttg
6661 aatcttgggt gaaccccttt tacacacttg cccccatggg aactgggaat gggcgtagaa
6721 ggattcaata atggctggag cttttatagc aggattggct ggtgatatgc tcacaaatac
6781 tgtaggatct ttagttaatg caggggctaa tgctattaat caaacaattg attttgaaaa
6841 taataaatat ttgcaaaatg cttcttttaa tcatgataag gagatgttga atgcacaaat
6901 tgaagcaaca aagaagttac aggctgacat gattgctatc aagcaagggg tcttgactgc
6961 tggcggcttc tcccctactg atgcagcccg tggggcaatt aatgccccca tgacaaaggt
7021 cctagattgg aatggaacga gatactgggc accaggtgcc acctccacaa cctcgatgtc
7081 gggtggcttt acacatcaaa ctgtgcatag atccacacca aattttaaaa cgaaccaggc
7141 tcccaaacct acacccagca gtgggtcttc agtgaggtca aactcaaccc aaatcactag
7201 cctgagctca cactcgtccg ggtcgtctcg atccagcggg tctacagtta tcagctcaat
7261 accaacctct aacaggacta gggactgggt caaccaacaa aattttaatt tggaaccgca
7321 catgcctgga tctcttagga cagcttttgt cactccacca tctagtacag cctctagctc
7381 aggcacagtc tcaactgtgc ccaaaaatgt tttggactcc tggacatctg cgtttaacac
7441 gcgcagacag ccgctattcg cacaccttcg cagaaggggg gagtcaaatg tttag
//