Typing tool
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Typing tool
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Complete norovirus genomes
| OR536469 | GII.3 | |
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| GII.P21 |
ORF1: 5..5104
ORF2: 5085..6731
ORF3: 6731..7495
LOCUS OR536469 7547 bp RNA linear VRL 04-MAR-2024
DEFINITION Norovirus GII isolate
Hu/NL/2018/GII.3[P21]/Rotterdam/I78S34_P19-d874, complete genome.
ACCESSION OR536469
VERSION OR536469.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7547)
AUTHORS Izquierdo Lara,R.W., Villabruna,N., Hesselink,D.A.,
Schapendonk,C.M.E., Ribo Pons,S., Meier,J.I.J., Goodfellow,I.,
Dalm,V.A.S.H., Fraaij,P.L.A., van Kampen,J.A., Koopmans,M.P.G. and
de Graaf,M.
TITLE Intra-host multi-lineage evolution of human Norovirus in
immunocompromised individuals: Implications for treatment
JOURNAL Unpublished
REFERENCE 2 (bases 1 to 7547)
AUTHORS Izquierdo Lara,R.W., Villabruna,N., Hesselink,D.A.,
Schapendonk,C.M.E., Ribo Pons,S., Meier,J.I.J., Goodfellow,I.,
Dalm,V.A.S.H., Fraaij,P.L.A., van Kampen,J.A., Koopmans,M.P.G. and
de Graaf,M.
TITLE Direct Submission
JOURNAL Submitted (11-SEP-2023) Viroscience, Erasmus Medical Center, Dr.
Molewaterplein 40, Rotterdam, Zuid-Holland 3015 GD, Netherlands
COMMENT ##Assembly-Data-START##
Assembly Method :: Spades v. 3.15.4; BWA-MEM v. 0.7.17
Sequencing Technology :: Illumina
##Assembly-Data-END##
FEATURES Location/Qualifiers
source 1..7547
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="Hu/NL/2018/GII.3[P21]/Rotterdam/I78S34_P19-d874"
/isolation_source="feaces"
/host="Homo sapiens"
/db_xref="taxon:122929"
/country="Netherlands: Rotterdam"
/collection_date="11-Apr-2018"
/note="genotype: GII.3[P21]"
gene 5..5104
/gene="ORF1"
CDS 5..5104
/gene="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="WMX17785.1"
/translation="MKMASNDASAAAAANSNNDNAKSSSDGVLSNMAVTFKRALGARP
KQPPPRDKPPKPPRPPTPELVKSIPPPPPNGEDEPTISYNVKEGVSGLPELSTVTQPE
ENSTAFSVPPLSQRENRDAKEPLTGTILEMWDGEIYHYGLYVERGLVLGVHKPPAAIS
LAKVELTPLSLYWRPVYTPQYLISPDTLRKLHGETFPYIAFDNNCYAFCCWVLDLNDS
WLSRRMIQRTTGFFRPYQDWNRKPLPTMDDSKVKKVANVILCALASLFTRPIKDIIGK
LKPLNILNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPED
LAVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFP
KKEEKNELEMVRAIEDAVLDLEAIENNHMTTLLKDRDSLATYMRTLDIEEEKARKLST
KSASPDIVGTINSLLARIAAARSLVHRAKEELSSRPRPVVVMISGRPGIGKTHLAREV
AKKIASTLTGDQRVGLIPRNGVDHWDSYRGERIVLWDDYGMSNPIHDALRLQELADTC
PLTLNCDRIENKGKVFDSDVIMITTNLANPAPLDYVNFEACSRRIDFLVYAESPEVEK
AKRDFPGQPDMWKDAFKPDCSHIKLTLAPQGGFDKNGNTPYGKGVMKTLTASSLVARA
SGLLHERLDEYELQGPTPTTFNFDRNKVLAFRQLAAENKYGLVDTMRVGSQLKNVKTM
TELKQALKNISVKKCQLVYGGSTYTLESDGKGNVHVEKVNNTSVQTNNELSGALHHLR
SARIRYYVKCVQEALYSIIQIAGAAFITTRIARRMNIQNLWSKPQAEDLEETNNVEGC
PKPKSDEEFVISSDDIKAEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEFKRIREERNG
KYSIEEYLQDRDKYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGLV
TGSEIRKRNPDDFKPKGKLWADDDRNVDYNEKLSFEAPPSIWSRIVNFGSGWGFWVSP
SLFITSTHVIPQGAQEFFGVSIKQIQIHKSGEFCRLRFPKPIRTDVTGMILEEGAPEG
TVATLLIKRPTGELMPLAARMGTHATMRIQGRTVGGQMGMLLTGSNAKSMDLGTTPGD
CGCPYIYKRGNDYVVIGVHTAAARGGNTVICATQGSEGEAVLEGSDSKGTYCGAPILG
PGNAPKLSTKTKFWRSSTTPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKPFTEP
RGKPPKPSVLEAAKKTIINVLEQTIDPPQKWTYAQACASLDKTTSSGHPHHMRKNDCW
NGETFTGKLADQASKANLMFEEGKNMTPVYTGALKDELVKTDKIYGTIKKRLLWGSDL
STMIRCARAFGGLMDELKAHCVTLPVRVGMNMNEDGPIIFEKHSRYKYHYDADYSRWD
STQQRAVLAAALEIMVKFSPEPHLAQVVAEDLLSPSVMDVGDFKISINEGLPSGVPCT
SQWNSIAHWLLTLCALSEVTDLSPDIIQANSLFSFYGDDEIVSTDIKLDPEKLTTKLK
EYGLKPTRPDKTEGPLIISEDLNGLTFLRRTVTRDPAGWFGKLDQSSILRQMYWTRGP
NHEDPFETMIPHSQRPIQLMSLLGEAALHGPSFYSKISKLVISELKEGGMDFYVPRQE
PMFRWMRFSDLSTWEGDRNLAPNFVNEDGVE"
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="WMX17786.1"
/translation="MKMASNDAAPSNDGAAGLVPEINNEAMALEPVAGAALAAPLTGQ
QNIIDPWIMNNFVQAPGGEFTVSPRNSPGEVLLRLELGPEINPYLAHLSRMYNGYAGG
FEVQVILAGNAFTAGKIIFAAIPPNFPIDNLSAAQITMCPHVIVDVRQLEPVNLPLPD
IRNNFFHYNQGSDSRMCLVAMLYTPLRANNSGDDVFTVSCRVLTRPSPDFAFNFLVPP
TVESKTKPFSIPVLTISEMSNSRFPVPIDSLHTSPTDNVVVQCQNGRVTLDGELMGTT
QLLPSQICAFRGVLTRPTNRASDQADTATPRLFNNRWHIQLDNLNGTPYDPSEDIPGP
LGTPDFRGKVFGVASQRNSDATTRAHEAKIDTTSGRFTPKLGSLEIFTESEDFDQNKP
TRFTPVGIGVDNEAEFQQWTLPNYAGQLTHNMNLAPAVAPNFPGEQLLFFRSQLPSSG
GRSDGILDCLVPQEWVQHFYQESAPSQSQVALVRYINPDTGRVLFEAKLHKLGFITIA
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="WMX17787.1"
/translation="MAGAFIAGLAGDMLTNTVGSLVNAGANAINQTIDFENNKHLQNA
SFNHDKEMLNAQVEATKKLQASMIAIKQGVLTAGGFSPTDAARGAINAPMTKVLDWNG
TRHWAPGATSTTSMSGGFTNQAVHRSTPNFKTNQTPKPAPSSGSSVRSNSTQITSLSS
HSSGSSRSSGSTVVSSIPSSNRTRDWVTQQNFNLEPHMPGSLRTAFVTPPSSTASSSG
TVSTVPKNVLDSWTSAFNTRRQPLFAHLRRRGESNV"
ORIGIN
1 gtgaatgaag atggcgtcta acgacgcttc cgctgccgct gctgcaaaca gcaacaacga
61 caacgcaaaa tcttcaagtg acggagtact atctaatatg gccgtcactt tcaaacgagc
121 cctcggggcg cggcctaaac agccgccccc gagggataaa ccaccaaagc ccccaagacc
181 ccccacacca gaattggtta aatcaatccc ccctccccca cccaacgggg aggacgaacc
241 aaccatttct tacaacgtca aagagggtgt ttctggtttg cctgagctct caactgtcac
301 ccaaccggaa gagaactcta cagcatttag cgttccccct cttagtcaga gggagaacag
361 agatgcaaag gaaccattga ctggaactat cctggagatg tgggatgggg agatctacca
421 ttatggctta tatgtggaac gagggttagt actaggtgtg cacaaaccac cagcagccat
481 cagccttgcc aaggttgagc taaccccctt gtccttgtat tggagaccag tgtacacccc
541 acagtacctc atttcccctg atactctcag aaagttgcat ggggaaacgt tcccttatat
601 agcctttgac aacaactgtt acgccttctg ctgttgggtg cttgacttga acgattcatg
661 gctgagcaga aggatgatac agaggacaac aggcttcttc cgaccctacc aggactggaa
721 taggaagccc ctccccacga tggatgactc caaagtgaaa aaggtggcca atgttatcct
781 ctgtgctctc gcatcattgt ttacaagacc aattaaggac attattggaa agttgaaacc
841 cctaaacatc ctcaacatcc tagccacatg tgattggact tttgcgggca tagtagaatc
901 cctgatcctc ttggctgaac tgtttggagt tttctggaca cccccagatg tgtctgcaat
961 gatcgctcct ttactgggtg attatgagct gcagggaccc gaggaccttg ctgtggagct
1021 cgtacccgta gtaatgggag ggataggtct ggtgctggga ttcaccaaag agaaaatcgg
1081 caaaatgctt tcatctgctg cttcaacctt gagggcatgc aaagatctcg gtgcatatgg
1141 gttggagatc ctcaaattgg tcatgaaatg gtttttccca aagaaagaag agaaaaacga
1201 attggaaatg gtgagagcca tcgaggatgc agtgctagat cttgaggcca ttgagaacaa
1261 ccatatgaca actctactca aggatagaga cagccttgca acctacatga gaactcttga
1321 catagaggag gagaaggcga ggaaactctc caccaagtct gcctcgccgg atattgtggg
1381 cacgataaac tccctactgg caaggattgc agctgcccgg tctctagtgc acagggctaa
1441 ggaggagctg tcaagcaggc ctcgaccggt cgttgtgatg atctcaggga gaccaggtat
1501 agggaaaacc catctagcta gagaggtggc aaagaagatc gcctccacac tcacaggtga
1561 tcagagggtg ggtcttatcc cacgcaacgg ggtcgatcac tgggattcat acagaggtga
1621 aagaatcgtt ctctgggacg actatggaat gagcaacccc atccacgacg ccctcagact
1681 ccaggagctc gctgacacct gtcctctcac actcaactgt gacaggattg agaacaaagg
1741 caaagttttt gacagtgacg tcataatgat aaccaccaat ttggcaaacc cagcgccact
1801 ggactacgtc aactttgaag cgtgctcaag acgcatagac ttcctcgttt atgctgaatc
1861 ccctgaagtt gagaaggcta aacgggactt cccaggccaa ccagacatgt ggaaagatgc
1921 cttcaaacct gattgctcac acataaaatt gacattggcc ccacaagggg gttttgacaa
1981 aaatggtaac actccttatg ggaagggtgt catgaagacc ctcactgcca gttccctcgt
2041 tgcccgagca tcagggctcc tccatgagag gttagacgaa tatgagctgc aggggccaac
2101 tcccacgaca ttcaacttcg accgcaacaa ggttctcgct tttaggcaac ttgctgctga
2161 aaacaagtac ggccttgttg acacaatgag ggtcggatcg cagctcaaga atgtcaaaac
2221 catgacagaa ctcaagcagg ctctcaagaa catctcagtc aagaaatgcc agcttgtata
2281 tggtgggagc acgtacacac ttgaatctga tggtaaaggt aatgtgcatg tcgagaaggt
2341 gaacaacacc agtgtgcaaa ctaacaatga gctctccggg gctttgcacc acctcaggag
2401 tgccagaatc aggtactatg ttaagtgtgt ccaggaagct ctctactcca tcattcaaat
2461 tgccggggct gcattcatta ccacgcgcat tgcaaggcgc atgaacatac aaaacctttg
2521 gtccaaacca caagcagaag atttggagga gactaacaac gtggagggtt gtccaaaacc
2581 taaaagtgat gaagaatttg tcatctcctc tgacgacatc aaagccgagg gcaagaaagg
2641 taagaacaag actggccgtg gcaagaagca cacagccttt tccagcaaag ggcttagtga
2701 tgaagagtac gatgagttca aaaggatcag ggaagagaga aatggcaaat actccataga
2761 ggaataccta caggatagag acaaatacta tgaggaggtg gccatagcta gggcaactga
2821 ggaagacttc tgtgaagaag aagaggcaaa aatccgacaa aggatattta gaccaacaag
2881 gaaacagcgc aaagaagaaa gggcctctct cggtttggtc acaggttctg agattaggaa
2941 gagaaaccca gatgacttca agcccaaagg gaaactatgg gccgatgatg acaggaatgt
3001 tgactataat gagaaactca gtttcgaggc tccaccaagc atttggtcac gaatagtcaa
3061 ctttggctcg gggtggggtt tctgggtctc gcccagcctc ttcataacat caacccatgt
3121 catcccccaa ggcgcacagg aattctttgg ggtgtccatc aagcaaattc aaattcacaa
3181 gtcgggtgag ttctgccggc ttagattccc aaaaccaatc aggacagatg ttacaggcat
3241 gattttggag gaaggtgctc cagaaggcac tgttgccaca cttctcatca agaggccaac
3301 tggggaactc atgcccttgg cagccaggat gggcacccac gcgaccatga gaattcaggg
3361 acgcactgtt ggtggacaga tgggcatgct actcacaggg tctaacgcta agagcatgga
3421 cttgggcaca actcccggcg attgtggttg tccctatatc tacaaaagag ggaacgacta
3481 cgttgtcatt ggggttcaca cagccgccgc tcgtggagga aacaccgtca tctgtgcaac
3541 ccaaggaagc gagggtgagg ctgtgctaga aggtagtgac agcaagggaa cttattgtgg
3601 agcaccaata ttgggacctg gaaatgcccc caaactcagc accaaaacca aattctggag
3661 gtcttccacc acccccctgc cacccggaac ctatgaacca gcttatctgg gtggcaagga
3721 ccctagagtg aagggtggcc cctcactgca acaggttatg agggatcagc taaaaccgtt
3781 cactgagccc agaggcaagc caccaaaacc aagtgtgcta gaagccgcta aaaagactat
3841 aatcaatgta cttgagcaaa caatagaccc acctcaaaaa tggacatacg cacaggcgtg
3901 tgcatcatta gataagacca cctccagcgg ccaccctcac cacatgcgga agaacgactg
3961 ctggaatggg gagaccttca caggaaaatt ggcagaccaa gcatcaaaag ctaacctaat
4021 gtttgaggaa ggaaagaaca tgaccccagt atacacaggg gccctaaaag atgagctagt
4081 taagactgat aagatctatg ggacaatcaa gaagagactc ctgtggggtt cagacctatc
4141 aaccatgata cggtgtgcac gagccttcgg tggattgatg gacgaactca aggcccattg
4201 tgtcacacta ccagtcagag ttggcatgaa catgaatgag gatggaccca taatatttga
4261 gaaacattcc agatataaat atcattatga tgcagattac tcccgctggg actcaacaca
4321 acaaagagca gtactggctg cagccctgga aataatggtc aaattctcac cagaacccca
4381 tctggctcaa gtggttgcag aggacctctt gtcccccagt gtgatggatg tgggtgattt
4441 caagatatca atcaacgagg gattaccctc tggtgttccc tgcacctcac agtggaactc
4501 cattgcccac tggctcctca cactatgtgc actgtctgaa gtcacagacc tgtcccctga
4561 catcatccag gcaaattccc tgttctcctt ttatggtgat gatgaaatag tgagcacaga
4621 cattaaactg gatccagaga aattaacaac aaaattgaag gaatacggac taaaaccaac
4681 ccgtcctgac aaaacagaag gacccttgat tatctctgaa gatttgaatg gcctaacatt
4741 cttacggaga acggtaaccc gtgatccggc cgggtggttt ggcaaactgg atcaaagctc
4801 aatactcagg cagatgtact ggaccagagg accaaaccat gaggatccct ttgaaacaat
4861 gataccacac tcccaaagac ccatacaact gatgtcatta ttgggtgaag ctgcgttgca
4921 tggtccgtca ttttacagta aaatcagcaa attagtcatc tcagaattga aagagggtgg
4981 aatggatttt tacgtgccca ggcaagaacc aatgttcaga tggatgagat tttcagactt
5041 gagcacgtgg gagggcgatc gcaatctggc tcccaatttt gtgaatgaag atggcgtcga
5101 atgacgccgc tccatctaat gatggtgccg ccggcctcgt cccagagatc aacaatgagg
5161 caatggcgct agaaccagtg gcgggtgcag cgttagcagc gcccctcact ggtcagcaaa
5221 atataattga tccctggatt atgaacaatt ttgtacaagc acctggtggt gagttcacag
5281 tatcccctag aaattcccct ggtgaagttc tccttaggtt ggaactgggt ccagaaataa
5341 atccctattt ggcccatctt tctaggatgt ataatggtta tgcaggtgga tttgaagtgc
5401 aggtgatcct agctggaaat gcgtttacag caggaaagat aatctttgca gctattcccc
5461 ccaattttcc aatcgacaac ctgagtgcag cacagatcac aatgtgtcca catgtgatcg
5521 tggacgtcag acagctggaa ccagtcaacc tcccgttgcc tgacattcgc aacaatttct
5581 ttcattataa tcaagggtct gattcaagaa tgtgcttagt tgcaatgttg tatacacctc
5641 ttagggcaaa taattctggg gatgatgttt ttactgtgtc ttgcagagtg ttaactagac
5701 ctagtcctga cttcgcattt aatttccttg tgccacctac tgtggagtca aagacaaaac
5761 ccttttccat ccctgttctg actatctctg aaatgtccaa ttcgaggttc ccagtgccaa
5821 ttgattccct gcacaccagc cctactgata atgttgttgt ccagtgtcag aatgggcgcg
5881 tcacccttga cggtgagttg atgggcacta cccaactctt acctagtcaa atctgtgctt
5941 tcaggggcgt gctcaccaga ccaacaaaca gggccagtga ccaggccgat acagcaaccc
6001 ccagattgtt taataatcgt tggcacatac aattggataa tctaaatgga actccttatg
6061 acccttcaga agatatacca ggccccttgg ggacaccaga tttccggggc aaagtctttg
6121 gcgtggccag ccagagaaat tctgatgcta caactagggc acatgaagca aagatagaca
6181 caacatctgg ccgtttcacc ccaaaattag gttcattaga aattttcact gaatccgaag
6241 actttgatca aaataaacca acaagattca ccccagttgg cattggggtc gacaatgagg
6301 cagaatttca acaatggact cttcccaact atgctggcca gctcacccac aacatgaact
6361 tagccccagc tgttgctccc aacttccctg gtgagcaact ccttttcttc cgctcacagt
6421 tgccatcttc tggtgggcga tccgatggga tcctagactg cctggtcccc caagaatggg
6481 tacagcactt ctaccaagaa tcagccccct cccaatctca agtggccctg gttaggtata
6541 tcaaccctga cactggtaga gtgttatttg aggccaaact gcacaaattg ggtttcataa
6601 ctatagccaa aaatggtgat tctccaataa cagtccctcc aaatggatat tttaggtttg
6661 aatcttgggt gaaccccttt tatacacttg cccccatggg aacagggaat gggcgtagaa
6721 ggattcaata atggctgggg cttttatagc aggattggct ggtgacatgc tcacaaatac
6781 tgtagggtct ttagttaatg caggggctaa tgccattaat caaacaattg attttgaaaa
6841 taataaacat ttgcaaaatg cttcttttaa tcatgataag gagatgttga atgcacaagt
6901 tgaggcaaca aagaagttac aggccagcat gattgctatc aaacaagggg ttttgaccgc
6961 tggcggcttc tcccctactg atgcagcccg cggggcaatc aacgccccca tgacaaaagt
7021 cctagattgg aatggaacga gacactgggc accaggtgcc acctccacaa cctcgatgtc
7081 gggtggcttc acaaatcaag ctgtgcacag atctacacca aattttaaaa cgaaccagac
7141 ccccaaaccc gcacccagta gtgggtcttc agtaaggtca aattcaaccc aaatcactag
7201 cttgagctca cactcgtccg ggtcgtctcg atccagcggg tctacagttg tcagctcaat
7261 accatcctct aacaggacta gggactgggt cacccaacaa aattttaatt tggaaccaca
7321 catgcctggg tctcttagga cagcttttgt cactccacca tctagcacag cctctagctc
7381 aggcacagtc tcaactgtac ctaaaaatgt tttggactcc tggacatctg cgtttaacac
7441 gcgcagacag ccgctattcg cacaccttcg cagaaggggg gagtcaaatg tttagtgaaa
7501 agattatttt aaatttgatt taaattaggt ttaatttgga atctttt
//