Typing tool
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Typing tool
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Complete norovirus genomes
| OP205583 | GII.3 | |
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| GII.P21 |
ORF1: 1..5054
ORF2: 5035..6681
ORF3: 6681..7445
LOCUS OP205583 7445 bp RNA linear VRL 21-JUN-2023
DEFINITION Norovirus GII isolate RIVM-NOV-2018-0391_R04-17 nonstructural
polyprotein (ORF1) gene, partial cds; and VP1 (ORF2) and VP2 (ORF3)
genes, complete cds.
ACCESSION OP205583
VERSION OP205583.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7445)
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JOURNAL Unpublished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 7445)
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..7445
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="RIVM-NOV-2018-0391_R04-17"
/isolation_source="Human feces"
/host="Homo sapiens"
/db_xref="taxon:122929"
/country="Netherlands"
/collection_date="2018-10-09"
/note="genotype: GII.3[P21]"
gene <1..5054
/gene="ORF1"
CDS <1..5054
/gene="ORF1"
/codon_start=3
/product="nonstructural polyprotein"
/protein_id="UUV61050.1"
/translation="NNDNAKSSSDGVLSNMAVTFKRALGARPKQPPPSDKPPKPPRPP
TPELVKAIPPPPPNGEDEPIISYNVKGGVSGLPELSTVTQLEENSTAFSVPPLSQREN
RDAKEPLTGTILEMWDGEIYHYGLYVERGLVLGVHKPPAAISLAKVELTPLSLYWRPV
YTPQYLISPDTLRKLHGETFPYTAFDNNCYAFCCWVLDLNDSWLNRRMVQRTTGFFRP
YQDWNRKPLPTMDDSKVKKVANVVLCALSSLFTRPIKDIIGKLKPLNILNILATCDWT
FAGIVESLILLAELFGVFWAPPDVSAMIAPLLGDYELQGPEDLAVELVPVVMGGIGLV
LGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFPKKEEKNELAMVRSIED
AVLDLEAIENNHMTALLKDKDSLATYMRTLDMEEEKARKLSTKSASPDIVGTINALLS
RIAAARSLVHRAKEELSSRPRPVVVMISGKPGIGKTHLARELAKKIASTLTGDQRVGL
IPRNGVDHWDAYKGERVVLWDDYGMSSPVHDALRLQELADTCPLTLNCDRIENKGKVF
DSDVIIITTNLANPAPLDYVNFEACSRRIDFLVYADAPEVEKAKRDFPGQPDMWKDTF
KPDFSHIKLALAPQGGFDKNGNTPHGKGVMKTLTASSLVARASGLLHERLDEYELQGP
TPTTFNFDRNKVLAFRQLAAENKYGLVDTMRVGSQLKNVKTMTELKQALKNISVKKCQ
LVYGGGTYTLESDGKGNVHVEKVNNTSVQTNNELSGVLHHLRCARIRYYVKCVQEALY
SILQIAGAAFITTRIAKRTNIQNLWSKPQAEDLEETNNEEGCPKPKNDEEFVVSSDDI
KSEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKYSIEEYLQDRDKYYE
EVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGLVTGSEIRKRNPDDFKPK
GKLWADDDRIVDYNEKLSFEAPPSIWSRIVNFGSGWGFWVSPSLFITSTHVIPQGAQE
FFGVPIKQIQIHKSGEFCRLRFPKPIRTDVTGMILEEGAPEGTVATLLIKRPTGELMP
LAARMGTHATMRIQGRTVGGQMGMLLTGSNAKSMDLGTTPGDCGCPYIYKRGNDYVVI
GVHTAAARGGNTVICATQGNEGEAMLEGGDNKGTYCGAPILGPGNAPKLSTKTKFWRS
STTPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKPFTEPRGKPPKPSVLEAAKKT
IINVLEQTIDPPQKWTYAQACASLDKTTSSGHPHHMRKNDCWNGESFTGKLADQASKA
NLMFEEGKNMTPVYTGALKDELVKTDKIYGVVKKRLLWGSDLSTMIRCARAFGGLMDE
LKAHCVTLPVRVGMNMNEDGPIIFEKHSRYKYHYDADYSRWDSTQQRAVLAAALEIMV
KFSPEPHLAQVVAEDLLSPSVMDVGDFRISINEGLPSGVPCTSQWNSIAHWLLTLCAL
SEVTDLSPDIVQANSLFSFYGDDEIVSTDIKLDPEKLTAKLREYGLKPTRPDKTEGPL
IISEDLNGLTFLRRTVTRDPAGWFGKLDQSSILRQMYWTKGPNHGDPFETMIPHSQRP
IQLMSLLGEAALHGPSFYSKISKLVISELKEGGMDFYVPRQEPMFRWMRFSDLSTWEG
DRNLAPSFVNEDGVE"
mat_peptide <1..944
/gene="ORF1"
/product="p48"
mat_peptide 945..2042
/gene="ORF1"
/product="NTPase"
mat_peptide 2043..2579
/gene="ORF1"
/product="p22"
mat_peptide 2580..2978
/gene="ORF1"
/product="VPg"
mat_peptide 2979..3521
/gene="ORF1"
/product="Pro"
mat_peptide 3522..5051
/gene="ORF1"
/product="RdRp"
gene 5035..6681
/gene="ORF2"
CDS 5035..6681
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="UUV61051.1"
/translation="MKMASNDAAPSNDGAAGLVPEINNEAMALEPVAGAAIAAPLTGQ
QNIIDPWIMNNFVQAPGGEFTVSPRNSPGEVLLNLELGPEINPYLAHLARMYNGYAGG
FEVQVVLAGNAFTAGKIIFAAIPPNFPVDNLSAAQITMCPHVIVDVRQLEPVNLPMPD
VRNNFFHYNQGSDSRLRLIAMLYTPLRANNSGDDVFTVSCRVLTRPSPDFSFNFLVPP
TVESKTKPFSLPILTISEMSNSRFPVPIDSLHTSPTENIVVQCQNGRVTLDGELMGTT
QLLPSQICAFRGVLTRSTSRASDQADTATPRLFNYYWHIQLDNLNGTPYDPAEDIPGP
LGTPDFRGKVFGVASQRNPDTTTRAHEAKIDTTSGRFTPKLGSLEISTESSDFDQNQP
TRFTPVGIGVDHEADFQQWALPDYAGQFTHNMNLAPAVAPNFPGEQLLFFRSCLPSSG
GRSNGILDCLVPQEWVQHFYQESAPSQSQVALVRYVNPDTGRVLFEAKLHKLGFMTIA
KNGDSPITVPPNGYFRFESWVNPFYTLAPMGTGNGRRRIQ"
gene 6681..7445
/gene="ORF3"
CDS 6681..7445
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="UUV61052.1"
/translation="MAGAFIAGLAGDMLTNTVGSLVSAGANAINQTIDFENNKYLQNA
SFNHDKEMLNAQIEATKKLQADMIAIKQGVLTAGGFSPTDAARGAINAPMTKVLDWNG
TRYWAPGATSTTSTSGGFTHQTVHRSTPNFKTNQSPKSTPSSGSSVRSNSTQITSLSS
HSTGSSRSSGSTVISSIPSSNRTRDWVNQQNFNLEPHMPGSLRTAFVTPPSSTASSSG
TVSTVPKNVLDSWTSAFNTRRQPLFAHLRRRGESNV"
ORIGIN
1 gcaacaacga caacgcaaaa tcttcaagtg acggagtgtt atctaatatg gctgtcactt
61 ttaaacgagc cctcggggcg cggcctaaac agccgccccc gagtgacaaa ccaccaaaac
121 ccccaagacc acccacacca gagttggtta aggcaattcc ccctccccca cccaacgggg
181 aggacgaacc aatcatctct tacaacgtca aagggggtgt ttctggtttg cctgagctct
241 caactgtcac ccaactggaa gagaactcta cagcattcag cgttccccct cttagtcaga
301 gggagaacag agatgcaaag gaaccattga ctggaaccat cctggagatg tgggacgggg
361 agatctacca ttatggctta tacgtagaac gagggttagt gctcggtgta cacaaaccac
421 cagcagccat cagccttgct aaggttgagc tgaccccttt gtctttgtat tggagaccag
481 tgtacacccc acagtacctc atctcccctg acactctcag aaagttgcat ggggagacgt
541 tcccttatac agcctttgac aacaactgtt atgccttctg ctgttgggtg cttgacttga
601 acgattcatg gctgaacaga aggatggtac aaaggacaac aggcttcttc cgaccctacc
661 aggattggaa caggaaaccc ctccccacga tggatgactc caaagtgaaa aaggtggcca
721 atgttgttct atgtgctctc tcatcattat tcacaagacc aattaaggac attattggga
781 agttaaaacc cctaaacatt ctcaacatct tagccacatg tgattggacc tttgcaggca
841 tagtagaatc cctgatcctt ttggctgaac tttttggagt tttctgggca cccccagatg
901 tgtctgcgat gatcgctccc ttactgggtg attatgaact acagggaccc gaggacctcg
961 ctgtggaact cgtacccgta gtaatgggag ggataggttt ggtgctggga ttcaccaaag
1021 agaaaatcgg caagatgctt tcttctgctg cttcaaccct gagggcatgt aaagatctcg
1081 gtgcatacgg gttggagatc ctcaaattgg ttatgaaatg gtttttccca aagaaagaag
1141 agaaaaacga attggcaatg gtgagatcca tcgaggatgc agtgctagat cttgaagcca
1201 ttgagaacaa ccatatgaca gctctgctca aggataaaga cagccttgca acctacatga
1261 ggactcttga catggaagag gagaaggcga gaaaactttc caccaagtct gcctctccgg
1321 atattgtggg cacgataaat gccctactgt caaggattgc agctgcccgg tctctagtgc
1381 acagggctaa ggaggagcta tcaagcaggc cccgaccggt tgttgtaatg atttcaggga
1441 aaccgggtat agggaaaacc catctagcta gagagttggc aaagaagatc gcctccacac
1501 tcacgggtga ccagagggtg ggtcttatcc cacgtaacgg ggtcgaccac tgggatgcat
1561 acaaaggtga aagagtcgtt ctctgggacg actacgggat gagcagccct gtccacgacg
1621 ccctcagact ccaggagctc gctgatacct gtcctctcac actcaactgt gacaggattg
1681 agaacaaagg taaagtcttt gacagtgatg tcataataat aaccaccaat ttagccaacc
1741 cagcaccact ggattacgtc aactttgaag cttgttcgag acgcatagac ttcctcgtct
1801 atgctgatgc tcctgaagtt gagaaggcta agcgggactt cccaggccaa ccagacatgt
1861 ggaaagacac tttcaaaccc gacttctcac atataaaatt ggcattggcc ccgcagggag
1921 gttttgacaa gaatggtaac actcctcatg ggaagggagt catgaagacc ctcactgcca
1981 gttccctcgt tgcccgagca tcagggctcc tccacgagag attagacgag tatgagctgc
2041 agggcccaac tcccacaaca ttcaacttcg accgcaacaa ggtgcttgct tttaggcagc
2101 ttgctgctga aaacaagtac ggtcttgttg acacaatgag ggtcgggtca caactcaaga
2161 atgtcaaaac tatgacagaa cttaagcagg ccctcaagaa catctcagtc aagaaatgtc
2221 agctcgtgta cggtgggggc acgtacacac ttgaatctga tggcaaaggc aatgtgcatg
2281 tcgaaaaggt gaacaacacc agtgtgcaaa ctaacaacga gctctccggg gttttgcacc
2341 atctcaggtg tgctagaatc aggtactatg ttaagtgtgt tcaggaagct ctctactcca
2401 tattacaaat tgccggggct gcattcataa ctacgcgcat tgcaaagcgc acaaacatac
2461 aaaacctctg gtctaaacca caagcagaag atctagagga gactaacaac gaggagggtt
2521 gtccaaagcc taaaaatgat gaagaatttg tcgtctcctc tgatgacatc aaatctgagg
2581 gtaagaaagg aaagaacaag actggccgtg gtaagaagca cacagccttt tccagcaaag
2641 gactcagtga tgaggagtac gatgagtata agagaatcag ggaagagaga aatggtaagt
2701 attccataga ggaataccta caggacagag acaaatacta tgaggaggtg gccatagcca
2761 gagcaactga ggaagatttc tgtgaagaag aggaggccaa gatccggcag aggatattca
2821 gaccaacaag gaaacaacgc aaagaggaaa gagcttccct tggtttggtt acaggctctg
2881 aaatcaggaa gagaaaccca gatgacttca agcccaaagg gaaactatgg gctgatgatg
2941 acaggattgt tgactacaat gagaaactta gtttcgaggc tccaccaagt atttggtcac
3001 gaatagtcaa ctttggctca gggtggggct tttgggtctc gcccagcctc ttcataacat
3061 caactcatgt cattccccaa ggcgcgcagg agttctttgg agtgcccatc aaacaaatac
3121 aaattcacaa atcaggtgag ttctgccggc ttaggttccc gaaaccaatc aggacagatg
3181 ttacaggcat gatcttggag gaaggtgctc cagaaggcac tgttgccaca cttctcatca
3241 agagaccaac tggggaactc atgcccttgg cagccaggat gggcacccac gctaccatga
3301 gaattcaggg tcgcactgtt ggtggacaga tgggcatgct actcacagga tctaacgcta
3361 agagcatgga tttgggcaca actcctggcg attgtggttg cccctatatc tacaagagag
3421 ggaacgacta cgtggtcatt ggagttcaca ctgccgccgc tcgtggagga aacaccgtca
3481 tctgtgcaac ccaaggaaac gagggtgagg ccatgctgga aggtggtgac aacaagggaa
3541 cttattgtgg ggcaccaata ttaggccctg gaaatgcccc caaactcagc accaaaacca
3601 aattttggag gtcttccacc acccccctgc cacccggaac ctatgagcca gcttatctgg
3661 gtggcaagga ccctagagtg aaaggtggtc cctcactgca acaggttatg agagaccaac
3721 taaaaccatt cactgagccc agaggcaaac cacccaaacc aagtgtgcta gaagctgcca
3781 agaagactat aatcaatgtg cttgaacaaa caatagaccc acctcaaaaa tggacatacg
3841 cacaggcgtg tgcatcacta gacaagacca cttccagcgg tcaccctcac cacatgcgga
3901 agaacgattg ctggaatggg gaatctttca caggaaaact ggcagaccaa gcatcaaagg
3961 ccaacctaat gtttgaggaa ggaaagaaca tgactccagt gtacacagga gctctgaaag
4021 atgagctagt caagactgac aagatctatg gggtggtcaa gaagaggctc ctgtggggtt
4081 cagacctatc aaccatgata cggtgtgcac gagccttcgg tgggctaatg gacgagctca
4141 aggcccattg cgtcacacta ccagtcaggg ttggtatgaa catgaatgag gatggaccca
4201 taatatttga gaaacactcc aggtacaaat accattatga tgcagattac tcccgctggg
4261 actcaacaca acaaagagca gtgctagccg cagccctgga aataatggtc aaattctcac
4321 cagaacccca cctggcccag gtggttgcag aagacctttt gtcccccagt gtgatggatg
4381 tgggcgattt taggatttca atcaacgagg gattaccctc tggtgttcct tgcacttcac
4441 aatggaactc cattgctcac tggctcctca cactatgtgc actgtctgaa gtcacagacc
4501 tatcccctga catcgtccag gcgaattccc tgttttcctt ttatggtgat gatgaaatag
4561 tgagcacaga catcaagtta gacccagaga aactgacagc aaagctgagg gaatacgggc
4621 ttaaaccaac tcgccctgac aaaacagagg gacccttaat tatctctgaa gatttgaatg
4681 gcctgacctt cttgcggaga acagtgaccc gcgacccggc cggatggttt ggcaaactgg
4741 accaaagttc aatactcagg cagatgtact ggaccaaggg gccaaaccat ggagacccct
4801 ttgaaacaat gataccacac tcccaaagac ccatacaact gatgtcatta cttggtgaag
4861 ctgcattgca tggtccatca ttctacagta agatcagcaa attggtcatc tcagaactga
4921 aagagggtgg aatggatttt tacgtgccca gacaagaacc aatgttcagg tggatgagat
4981 tctcagattt gagcacgtgg gagggcgatc gcaatctggc tcccagtttt gtgaatgaag
5041 atggcgtcga atgacgccgc tccatctaat gatggtgccg ccggcctcgt cccagagatc
5101 aacaatgagg caatggcgct agagccagtg gcgggtgcag cgatagcagc acccctcact
5161 ggtcagcaaa atataattga tccctggatt atgaataatt ttgtgcaagc tcctggtggt
5221 gagtttacag tgtcccccag aaattcccct ggtgaggtcc ttcttaattt agaattgggc
5281 ccagaaataa acccttactt ggcccatctt gctagaatgt ataatggtta tgcaggtgga
5341 tttgaagtgc aggtagtcct agctggaaat gcgtttacag caggaaagat aatctttgca
5401 gctattcccc ccaattttcc agttgacaat ttaagtgcag cacagattac aatgtgccca
5461 catgtgattg tggatgtcag acagttggaa ccagtcaacc tcccgatgcc tgacgttcgc
5521 aataacttct ttcactataa ccaagggtct gattcgaggt tacgcctaat tgcaatgcta
5581 tacacacctc ttagagcaaa caattctggg gatgatgttt ttactgtgtc ttgtagagtg
5641 ctaactagac ctagtcctga cttctcattc aatttccttg tgccacctac tgtggagtca
5701 aagacaaaac ccttctccct ccctatcctg actatctctg aaatgtctaa ttctaggttc
5761 ccagtaccaa ttgattctct gcacaccagt cccactgaga atattgttgt tcagtgccaa
5821 aatgggcgcg tcacccttga tggtgagttg atgggcacca cccaactctt gcctagccaa
5881 atctgtgctt tcaggggcgt tctcaccaga tcaacaagca gggccagtga ccaggccgat
5941 acagcaactc ctagattgtt taattattat tggcatatac aattggataa tctaaatgga
6001 accccttatg atcctgcaga agacatacca ggccccctgg ggacaccaga tttccgtggc
6061 aaagtctttg gcgtggccag ccagagaaat cctgatacca cgactagggc acatgaagca
6121 aagatagaca ccacatctgg ccgcttcacc ccaaagttag gctcattaga gatatccact
6181 gaatctagtg attttgacca aaaccaacca acaagattca ccccagttgg cattggggtt
6241 gaccatgagg cagactttca acaatgggcc ctacccgatt acgctggtca gttcacacac
6301 aacatgaact tagccccagc tgttgctccc aacttccctg gtgagcagct ccttttcttc
6361 cgctcatgtt tgccatcttc tggtgggcga tccaacggga ttctagactg cctggtcccc
6421 caagaatggg tgcagcactt ttatcaagag tcagccccct ctcagtctca agtggccctg
6481 gttaggtatg ttaatcctga cactggtaga gtgttatttg aggccaagct acacaaatta
6541 ggtttcatga ctatagctaa gaatggtgat tctccaataa ctgttcctcc aaatggatac
6601 tttaggtttg aatcttgggt gaaccccttt tatacacttg cccccatggg aactgggaat
6661 gggcgtagaa ggattcaata atggctggag cttttatagc aggattggct ggtgatatgc
6721 tcacaaatac tgtaggatct ttagttagtg caggggctaa tgctattaat caaacaattg
6781 attttgaaaa taataaatat ttgcaaaatg cttcttttaa tcatgataag gagatgttga
6841 atgcacaaat tgaggcaaca aagaagttac aggctgatat gattgctatc aagcaagggg
6901 tcttgactgc tggcggcttc tcccctactg atgcagcccg tggggcaatt aatgccccca
6961 tgacaaaagt cctagattgg aatggaacga gatactgggc accaggtgcc acctccacaa
7021 cctcgacgtc gggtggcttt acacatcaaa ctgtgcacag atccacacca aattttaaaa
7081 cgaaccagtc tcccaaatcc acacccagca gtgggtcttc agtgaggtca aactcaaccc
7141 aaatcactag cctgagctca cactcgaccg ggtcgtctcg atccagcggg tctacagtta
7201 tcagctcaat accatcctct aacaggacta gagactgggt caaccaacaa aattttaatt
7261 tggaaccaca catgcctgga tctcttagga cagcttttgt cactccacca tctagtacag
7321 cctctagctc aggcacagtc tcaactgtgc ccaaaaatgt tttggactcc tggacatctg
7381 cgtttaacac gcgcagacag ccgctattcg cacaccttcg tagaaggggg gagtcaaatg
7441 tttag
//