Typing tool
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Typing tool
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Complete norovirus genomes
| OP205544 | GII.2 | |
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| GII.P16 |
ORF1: 1..5082
ORF2: 5063..6691
ORF3: 6691..7470
LOCUS OP205544 7470 bp RNA linear VRL 21-JUN-2023
DEFINITION Norovirus GII isolate RIVM-NOV-2018-0327_R02-23 nonstructural
polyprotein (ORF1) gene, partial cds; and VP1 (ORF2) and VP2 (ORF3)
genes, complete cds.
ACCESSION OP205544
VERSION OP205544.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7470)
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JOURNAL Unpublished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 7470)
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..7470
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="RIVM-NOV-2018-0327_R02-23"
/isolation_source="Human feces"
/host="Homo sapiens"
/db_xref="taxon:122929"
/country="Netherlands"
/collection_date="2018-08-01"
/note="genotype: GII.2[P16]"
gene <1..5082
/gene="ORF1"
CDS <1..5082
/gene="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="UUV60933.1"
/translation="DATVAVACNNNNDKEKSSGEGLFTNMSSTLKKALGARPKQPAPR
DKPQEPPRPPTPELVKRIPPPPPNGEEEEEPVIRYEVKSGISGLPELTTVPQPDVANT
AFSVPPLSLRENREAKEPLTGAILEMWDGEIYHYGLYVEKGLVLGVHKPPAAVSMARV
ELTPLSLYWRVVYTPQYLIPPETLRRLNGEAFPYTAFDNNCYAFCCWVLELNDSWLSR
RMVQRTTGFFRPYQEWNRKPLPTMDDSKIKKVANIFLCSLSTLFTRPIKDLIGKIKPL
NILNILATCDWTFAGIVESMILLAELFGVFWTPPDVSAMIAPLLGDYVLQGPEDLAVE
LVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFPKKEE
ANELAMVRAIEDAVLDLEAIENNHMTALLKDKDSLATYMKTLDMEEEKARRLSTKSAS
PDIVGTINALLARIAAARSLVHRAKEELSSRMRPVVVMISGKPGIGKTHLAREVARKV
ASTLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRIQELADTCPLTL
NCDRIENKGKVFDSEVIIITTNLANPAPLDYVNFEACSRRIDFLVYADAPEVEKAKRD
FPGQPDMWKDAFKSDFSHIKLQLAPQGGFDKNGNTPHGKGVMKTLTTGSLIARASGLL
HERMDDFELQGPTITTFNFDRNRITAFRQLAAENKYGLVDTMRVGNQLKGVKTMEELK
QAIRNVTIKRCRIIYGGSTYDLESDGKGKVLVEKVKNISVQTNNELVGALHHLKHARI
RYYVKCVQEAVYSIIQIAGAAFVTTRIARRMNIQELWSKPQLDQNEPETKEEAPKSGD
DEFIISSKDIKEEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKYSIEE
YLQDRDRYYEELAIAKATEEDFCEEEEIKIRQRIFRPTRKQRKEERATLGLVTGSEIR
KRNPDDFKPKGKLWADDNRSVDYNEKLDFEAPPSIWSRIVSFGSGWGFWVSPSLFITS
THVIPAGITEAFGVPIKQIQIHKSGEFCRFRFPKPIRPDVTGMILEEGAPEGTVATVL
IKRPTGELMPLAARMGTHATMKIQGRMVGGQMGMLLTGSNAKGMDLGTTPGDCGCPYI
YKRGNDYIVIGVHTAAARGGNTVICATQGSEGEATLEGGDDKGTYCGAPILGPGGAPK
LSTKTKFWRSSNTPLPPGTYEPAYLGGRDPRVKGGPSLQQVMRDQLKPFTEPRGKPPR
PSVLEAAKQTIINVLEQTLDPPQKWTYAQACASLDKTTSSGHPYHVRKNEFWNGETFT
GKLADQASKANLMFEEGKHMTPVYTAALKDELVKTEKVYGKIKKRLLWGSDLSTMIRC
ARSFGGLMDEMKAHCISLPVRVGMNMNEDGPIIFEKHSRYKYHYDADYSRWDSTQQRA
VLAAALEIMVRFSAEPQLAQIVAEDLLAPSAVDVGDFKITINEGLPSGVPCTSQWNSI
AHWLLTLCALSEVTKLSPDIVQANSMFSFYGDDEIVSTDIKLDPEQLTAKLKEYGLKP
TRPDKTEGPLIISEDLNGLTFLRRTVTRDPAGWFGKLDQSSILRQMYWTRGPNHEDPS
ETMIPHSQRPIQLMALLGEASLHGPSFYSKISKLVITELKEGGMDFYVPRQESMFRWM
RFSDLSTWEGDRNLAPNFVNEDGVE"
mat_peptide <1..978
/gene="ORF1"
/product="p48"
mat_peptide 979..2076
/gene="ORF1"
/product="NTPase"
mat_peptide 2077..2607
/gene="ORF1"
/product="p22"
mat_peptide 2608..3006
/gene="ORF1"
/product="VPg"
mat_peptide 3007..3549
/gene="ORF1"
/product="Pro"
mat_peptide 3550..5079
/gene="ORF1"
/product="RdRp"
gene 5063..6691
/gene="ORF2"
CDS 5063..6691
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="UUV60934.1"
/translation="MKMASNDAAPSTDGAAGLVPESNNEVMALEPVAGAALAAPVTGQ
TNIIDPWIRANFVQAPNGEFTVSPRNAPGEVLLNLELGPELNPYLAHLARMYNGYAGG
MEVQVMLAGNAFTAGKLVFAAVPPHFPIENLSPQQITMFPHVIIDVRTLEPVLLPLPD
VRNNFFHYNQKDDPKMRIVAMLYTPLRSNGSGDDVFTVSCRVLTRPSPDFDFTYLVPP
TVESKTKPFTLPILTLGELSNSRFPVSIDQMYTSPNEVISVQCQNGRCTLDGELQGTT
QLQVSGICAFKGEVTAHLHDNDHLYNVTITNLNGSPFDPSEDIPAPLGVPDFQGRVFG
IISQRDKHNSPGHNEPANRGHDVVVPTYTAQYTPKLGQIQIGTWQTDDLTVNQPVKFT
PVGLNDTEHFNQWVVPRYAGALNLNTNLAPSVAPVFPGERLLFFRSYVPLKGGYGNPA
IDCLLPQEWVQHFYQEAAPSMSEVALVRYINPDTGRALFEAKLHRAGFMTVSSNTSAP
VVVPANGYFRFDSWVNQFYSLAPMGTGNGRRRVQ"
gene 6691..7470
/gene="ORF3"
CDS 6691..7470
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="UUV60935.1"
/translation="MAGAFVAGLAGDVLSNGLSSLINAGANAINQRAEFDFNQKLQQN
SFNHDKEMLQAQIQATKQLQADMMAIKQGVLTAGGFSPADAARGAVNAPMTQALDWNG
TRYWAPNSMRTTSYSGKFTSTAPVRQADFQHTQSRPSSGSSVSSFATQSSRPTLTTST
GSSHGTVSSNSTRSTSLSQSTVSRATSRTGEWVRDQNRSLEPYMHGALQTAFVTPPSS
RASDGTVSTVPKGVLDSWTPAFNTRRQPLFAHLRKRGESQA"
ORIGIN
1 gacgctaccg ttgccgttgc ttgcaacaac aacaacgaca aagaaaaatc ttcaggtgaa
61 ggcttattca caaatatgtc ttccacctta aagaaagccc tcggggctag gcccaaacag
121 cctgccccga gagacaaacc acaagagccc ccaagaccac caactcccga gttggtcaag
181 aggatacccc ctcctccacc taatggcgaa gaagaagaag aaccagtcat taggtatgag
241 gttaagagtg ggatctctgg cctgcccgag ctcacaacag tcccccaacc ggatgtggcc
301 aacacagcat tcagtgttcc accactgagc ttgagagaaa acagggaggc caaggaaccg
361 ctaacagggg caatattaga gatgtgggat ggagagatat accactatgg cctgtacgtg
421 gagaaaggct tagtgttggg tgtgcataaa ccacctgcag ccgtaagcat ggcaagagtg
481 gagctgacgc cgctgtcatt gtactggcgt gtggtgtaca ctccccaata cctcatcccc
541 cctgaaactc tcaggagact caacggagag gcattccctt acaccgcctt tgacaataac
601 tgctatgcct tttgctgctg ggtgttagaa ctcaatgact catggcttag caggaggatg
661 gtgcaaagaa caacgggctt cttcagacct taccaagagt ggaacagaaa acctctgccc
721 accatggatg actccaaaat taagaaggta gcaaatatat tcctgtgttc attgtccaca
781 ttattcacca gacccataaa agatctcata ggaaaaatta aaccattaaa catattgaat
841 atcctggcaa cgtgtgactg gacttttgcc ggaatagtag agtctatgat attacttgct
901 gaactcttcg gagttttctg gacaccccca gatgtgtctg ctatgatcgc tcccttactc
961 ggggactacg tgttgcaggg gccagaagac ctcgccgttg aactcgtacc tgtggtaatg
1021 ggggggattg gtttggtgtt gggattcacc aaagagaaaa tcggcaaaat gttgtcctca
1081 gcagcatcaa cactcagggc ttgcaaagat cttggtgcct atggcttaga gatactcaaa
1141 ttggtcatga agtggttctt cccaaagaaa gaggaggcca atgagttagc catggtgagg
1201 gccatagagg atgctgtact agatcttgag gcaatagaaa ataaccacat gacagccctg
1261 ttgaaagaca aagacagctt agcaacatac atgaaaacac tggacatgga ggaggagaaa
1321 gccaggaggt tgtccacaaa atctgcatcc cctgacatag ttgggacaat caacgccctg
1381 ctggctcgaa tagcagcggc cagatcatta gtccacaggg ccaaggaaga gctatctagc
1441 aggatgagac cagtagttgt tatgatatct ggcaaaccag gaataggcaa aactcatctg
1501 gccagggagg tggcaagaaa ggtggcgtcc actctcacag gggatcaaag agtcggactc
1561 ataccaagaa atggtgtgga ccattgggat gcatataaag gtgagagagt cgtgctgtgg
1621 gacgactatg gcatgagtaa ccccattcat gatgctctcc gcatacaaga attggctgat
1681 acgtgtcccc ttaccttaaa ttgtgataga attgaaaaca agggaaaagt ttttgacagt
1741 gaggtcataa taattacaac aaaccttgcc aatccagccc cacttgatta tgttaacttt
1801 gaggcctgtt ccaggagaat cgatttcctg gtgtacgctg atgcaccaga agtagaaaag
1861 gcaaaacggg actttcctgg tcagccagat atgtggaagg acgccttcaa gtcggacttt
1921 tcacacatca agctacagct tgcaccccag ggcggctttg acaagaatgg caacacccca
1981 catgggaaag gagtgatgaa aaccctcact accggttctc tgattgcccg tgcatcaggc
2041 ctactgcatg agaggatgga tgattttgaa ctccaaggtc ccacaatcac caccttcaat
2101 ttcgaccgga acagaatcac agcattcaga caattggctg cagaaaacaa gtatggattg
2161 gtggatacca tgagagttgg caatcaacta aaaggagtga aaaccatgga ggaacttaaa
2221 caagcaatca ggaatgtgac catcaagagg tgccggatca tctacggtgg ctccacgtat
2281 gaccttgaat ctgatggcaa gggcaaagtt ctggtggaaa aggtcaagaa catctctgta
2341 caaaccaaca acgagttggt tggggccctg caccatctca aacacgcccg aatcaggtac
2401 tatgtcaaat gtgtgcaaga agcagtctat tccatcatac aaattgccgg cgctgcgttt
2461 gtcaccacgc gcattgcacg ccgcatgaac atacaagaac tctggtcgaa gccacaatta
2521 gatcaaaatg aaccagagac taaggaagag gcccccaagt caggagatga cgagttcatc
2581 atatcttcta aggacatcaa ggaggaagga aagaagggca aaaacaaaac tggccgtggc
2641 aagaaacaca ctgcattctc cagcaagggc ttgagcgatg aggagtatga cgagtacaag
2701 aggataagag aagagagaaa tgggaagtac tccatagagg agtatcttca agacagagac
2761 aggtactatg aggagctcgc cattgccaag gccacggaag aagacttctg tgaagaggag
2821 gagatcaaaa tccgtcagag aattttccgc cccaccagga aacaaagaaa ggaagagagg
2881 gccacattag ggctagtaac aggttcagaa atcagaaaaa gaaaccctga tgacttcaaa
2941 cccaaaggga agctgtgggc cgatgacaac aggagtgttg actacaatga gaaactggac
3001 tttgaggccc ccccaagcat atggtctagg attgtgagct ttggttctgg ctggggcttc
3061 tgggtgtcac caagcctttt cataacgtca actcatgtaa tccccgcagg cataacagaa
3121 gcatttggag tccccatcaa acaaattcag atccacaaat caggtgaatt ttgccgattc
3181 aggttcccaa aaccaattag accagatgtg acagggatga tcttggaaga aggtgcgcct
3241 gagggcaccg tggcaactgt gctcatcaaa cgccccactg gagagctcat gcctcttgca
3301 gccagaatgg gaacacatgc aaccatgaaa attcaaggcc gcatggttgg cggacagatg
3361 ggtatgttgc tcactggatc aaatgctaaa ggaatggatt tgggaacaac tcctggtgac
3421 tgtggctgtc cttacatcta taaaaggggc aatgactata tagtcattgg ggtgcacact
3481 gcagcagccc gtggtggaaa caccgtcatc tgtgccacac agggaagtga gggtgaggca
3541 actcttgagg gtggagatga caaaggaaca tactgtgggg cacccatcct aggccctgga
3601 ggtgcaccaa aattgagcac caaaaccaaa ttttggaggt catcgaacac gccccttcca
3661 ccagggacat atgaacctgc ctacctcggt ggccgtgatc cgcgtgttaa gggtgggccc
3721 tccctgcagc aggtaatgag agaccagttg aagccattca ctgaacccag gggcaaacct
3781 ccaagaccaa gtgtattgga agcagcaaaa caaaccatca tcaatgtcct cgaacaaacc
3841 ctggaccctc cacaaaagtg gacatacgca caggcgtgtg cctcacttga caaaaccacc
3901 tccagcgggc atccctatca cgtccgaaag aatgaattct ggaatggtga gacctttact
3961 ggtaaattgg cagaccaagc atcaaaagca aacctaatgt ttgaggaagg gaaacacatg
4021 acaccagtgt acacagcagc actcaaggac gagctagtca agactgagaa agtctatgga
4081 aagatcaaga agagactgct ctggggctct gacttgtcca ccatgatccg gtgcgctagg
4141 tcatttggtg ggctcatgga cgagatgaag gcacactgca tatcactccc agtccgagtt
4201 ggcatgaata tgaatgaaga tggcccaata atatttgaga aacattccag atataaatat
4261 cactatgatg cagactactc tcgttgggat tcaacacaac agagggcagt actagcagca
4321 gccttggaaa ttatggtcag attctctgca gaaccacaat tggcacaaat agtcgctgag
4381 gatctgctgg cccctagtgc agtagatgta ggagacttta aaatcacaat aaatgaaggg
4441 ctcccctctg gtgtgccatg cacttctcaa tggaactcca tcgcacactg gctgctaaca
4501 ctctgtgcct tgtctgaagt caccaaactg tcccctgata ttgtacaggc aaactccatg
4561 ttctcatttt acggcgatga cgagattgtc agcaccgaca taaaattgga ccctgaacag
4621 ttaaccgcca aattgaagga gtacggcctg aaaccaaccc gcccagacaa aaccgaggga
4681 cccctgatta tcagtgaaga tttgaacgga ctcactttcc tccgaaggac agtgactcgt
4741 gacccagctg gctggtttgg aaaactggac caaagctcaa ttttgaggca gatgtactgg
4801 actagaggac caaatcatga agaccccagt gagacaatga taccccattc tcaaagaccc
4861 atacagctca tggcactgct tggtgaagcc tctcttcacg gaccctcttt ctacagtaaa
4921 atcagtaaat tggtcataac tgaactcaaa gaaggtggga tggactttta cgtgccaagg
4981 caggaatcca tgttcaggtg gatgaggttt tctgacttga gcacgtggga gggcgatcgc
5041 aatctggctc ccaattttgt gaatgaagat ggcgtcgaat gacgccgctc catctactga
5101 tggtgcagcc ggcctcgtgc cagaaagtaa caatgaggtc atggctcttg aacccgtggc
5161 tggtgccgcc ttggcagccc cggtcactgg tcaaacaaat attatagacc cttggattag
5221 agcaaatttt gtccaggccc ccaatggtga atttacagtc tctccccgta atgcccctgg
5281 tgaagtgcta ctgaatctag agttgggtcc agaattaaat ccttatctgg cacatttagc
5341 aagaatgtac aatgggtatg ccggtgggat ggaggtgcag gtcatgttgg ctgggaacgc
5401 gttcacagcc ggcaagttgg tcttcgccgc cgtgccacct cacttcccaa ttgaaaacct
5461 tagcccacag caaatcacca tgttccctca tgtgatcata gatgtgagaa ccttggaacc
5521 tgttctgtta ccactccctg atgttaggaa taatttcttc cattataatc agaaagatga
5581 tcccaagatg agaattgtgg ctatgcttta tacccccctt aggtctaatg gttcaggtga
5641 tgatgtgttt acagtctcct gcagagtgtt gactagacct tcccctgatt ttgatttcac
5701 atacctggtg ccaccaacag tggagtctaa aacaaaacca ttcaccctcc caatcctcac
5761 acttggggaa ctttccaatt caaggttccc agtgtccata gaccagatgt ataccagccc
5821 taatgaagtc atatcagtgc agtgtcaaaa tggtaggtgc acactggacg gggagctcca
5881 ggggacaaca caactccaag tcagtggcat ttgtgctttc aaaggtgaag tgactgccca
5941 cttgcatgac aatgatcacc tatataatgt taccatcaca aacttgaatg ggtccccttt
6001 tgatccctcc gaggatatcc ctgcccctct gggtgtacct gacttccagg gaagggtttt
6061 tggtatcatc tcccaaaggg acaaacacaa tagtcctggg cataatgaac cagcaaacag
6121 gggacacgac gttgtggtcc ccacttacac agcacagtac actccaaagc tggggcaaat
6181 tcaaattggc acatggcaga ctgacgacct tacagttaac caaccagtca aattcacccc
6241 agttggactc aatgacactg aacattttaa ccaatgggtg gtccccaggt atgctggtgc
6301 cctaaacctc aatacaaacc ttgccccttc tgttgctcca gtatttccag gagagcgtct
6361 gctcttcttc agatcatacg ttcccctcaa gggcggttat ggaaacccag ccattgattg
6421 cctactacca caagagtggg tgcagcactt ctatcaggaa gcagcccctt caatgagtga
6481 ggtggccctc gtcagataca tcaacccgga cactggtcgg gcactgtttg aggccaagct
6541 ccacagagct ggtttcatga cagtctcgag caacaccagt gccccggtgg ttgtgcctgc
6601 caacggatac ttcagatttg attcttgggt gaaccaattc tattctctcg cccccatggg
6661 aactgggaat gggcgtagaa gggttcaata atggctggag cttttgtagc tggtcttgca
6721 ggggacgtgc tcagcaatgg gcttagttca ttaattaatg caggtgctaa tgcaataaat
6781 cagagggcag aatttgattt taatcagaaa ttgcagcaaa attcttttaa tcatgataag
6841 gagatgttgc aggctcagat tcaggcaact aagcagctgc aggcagacat gatggctata
6901 aaacaagggg tcttgaccgc tggcggcttt tcccctgctg atgcagccag aggtgctgtg
6961 aacgcgccca tgacacaagc gctggactgg aatggtacaa ggtattgggc accaaactcc
7021 atgaggacca catcttactc tggaaaattc acatcaaccg ccccagtgag gcaggccgac
7081 ttccagcaca cccaaagccg gccttcgagt ggctcctctg tgtcttcctt tgccactcag
7141 tcttcaaggc caactctgac cacatccact ggttcctcac atggcacagt ctcatcaaac
7201 tcaactcgca gcacaagcct ctcccaatca acggtctcca gagctacatc taggactggt
7261 gagtgggtta gagatcaaaa tagaagtttg gaaccctaca tgcatggtgc cttacagaca
7321 gcctttgtca ccccaccttc cagcagggca tctgacggga cagtctcaac cgtcccgaag
7381 ggtgttttgg actcctggac acctgcgttt aacacccgca ggcagccgct ctttgcacac
7441 ctccgtaaga ggggggagtc acaagcttag
//