Typing tool
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Typing tool
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Complete norovirus genomes
| OR536466 | GII.3 | |
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| GII.P21 |
ORF1: 5..5104
ORF2: 5085..6731
ORF3: 6731..7495
LOCUS OR536466 7547 bp RNA linear VRL 04-MAR-2024
DEFINITION Norovirus GII isolate
Hu/NL/2015/GII.3[P21]/Rotterdam/I78S31_P19-d0, complete genome.
ACCESSION OR536466
VERSION OR536466.1
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JOURNAL Unpublished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/2015/GII.3[P21]/Rotterdam/I78S31_P19-d0"
/isolation_source="feaces"
/host="Homo sapiens"
/db_xref="taxon:122929"
/country="Netherlands: Rotterdam"
/collection_date="19-Nov-2015"
/note="genotype: GII.3[P21]"
gene 5..5104
/gene="ORF1"
CDS 5..5104
/gene="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="WMX17776.1"
/translation="MKMASNDASAAAAANSNNDNAKSSSDGVLSNMAVTFKRALGARP
KQPPPRDKPPKPPRPPTPELVKAIPPPPPNGEDEPTISYNVKEGVSGLPELSTVTQPE
ESSTAFSVPPLSQRENRDAKEPLTGTILEMWDGEIYHYGLYVERGLVLGVHKPPAAIS
LAKVELTPLSLYWRPVYTPQYLISPDTLRKLHGETFPYIAFDNNCYAFCCWVLDLNDS
WLSRRMIQRTTGFFRPYQDWNRKPLPTMDDSKVKKVANVILCALASLFTRPIKDIIGK
LKPLNILNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPED
LAVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFP
KKEEKNELAMVRAIEDAVLDLEAIENNHMTALLKDRDSLATYMRTLDIEEEKARKLST
KSASPDIVGTINSLLSRIAAARSLVHRAKEELSSRPRPVVVMISGRPGIGKTHLAREV
ARKIASSLTGDQRVGLIPRNGVDHWDSYRGERIVLWDDYGMSNPIHDALRLQELADTC
PLTLNCDRIENKGKVFDSDAIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEK
AKRDFPGQPDMWKDTFKPDCSHIKLTLAPQGGFDKNGNTPYGKGIMKTLTASSLVARA
SGLLHERLDEYELQGPTPTTFNFDRNKVLAFRQLAAENKYGLVDTMRVGSQLKNVKTM
TELKQALKNISVKKCQLVYGGSTYTLESDGKGNVHVEKVNNTSVQTNNELSGALHHLR
CARIRYYVKCVQEALYSILQIAGAAFITTRIARRMNIQNLWSKPQAEDLEETNNEEGC
PKPKNDEEFVISSDDIKAEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEFKRIREERNG
KYSIEEYLQDRDKYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGLV
TGSEIRKRNPDDFKPKGKLWADDDRSVDYNEKLSFEAPPSIWSRIVNFGSGWGFWVSP
SLFITSTHVIPQGAQEFFGVSIKQIQIHKSGEFCRLRFPKPIRTDVTGMILEEGAPEG
TVATLLIKRPTGELMPLAARMGTHATMRIQGRTVGGQMGMLLTGSNAKSMDLGTTPGD
CGCPYIYKRGNDYVVIGVHTAAARGGNTVICATQGNEGEAVLEGGDNKGTYCGAPILG
PGNAPKLSTKTKFWRSSTTPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKPFTEP
RGKPPKPSVLEAAKKTIINVLEQTIDPPQKWTYAQACASLDKTTSSGHPYHMRKNDCW
NGETFTGKLADQASKANLMFEEGKNMTPVYTGALKDELVKTDKIYGTIKKRLLWGSDL
STMIRCARAFGGLMDELKAHCVTLPIRVGMNMNEDGPIIFEKHSRYKYHYDADYSRWD
STQQRAVLAAALEIMVKFSPEPHLAQVVAEDLLSPSVMDVGDFKISINEGLPSGVPCT
SQWNSIAHWLLTLCALSEVTDLSPDIIQANSLFSFYGDDEIVSTDIKLDPEKLTTKLK
EYGLKPTRPDKTEGPLVISEDLDGLTFLRRTVTRDPAGWFGKLDQSSILRQMYWTRGP
NHEDPFETMIPHSQRPIQLMSLLGEAALHGPSFYSRISKLVISELKEGGMDFYVPRQE
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="WMX17777.1"
/translation="MKMASNDAAPSNDGAAGLVPEINNEAMALEPVAGAALAAPLTGQ
QNIIDPWIMNNFVQAPGGEFTVSPRNSPGEVLLSLELGPEINPYLAHLARMYNGYAGG
FEVQVILAGNAFTAGKIIFAAIPPNFPIDNLSAAQITMCPHVIVDVRQLEPVNLPLPD
IRNNFFHYNQRSESRVRLIAMLYTPLRANNSGDDVFTVSCRVLTRPSPDFAFNFLVPP
TVESKTKPFSLPVLTISEMSNSRFPVPIDSLHTSPTENVVVQCQNGRVTLDGELMGTT
QLLPSQICAFRGVLTGSTSRASDQADTATPRLFNNRWHIQLDNLNGTPYDPSEDIPGP
LGTPDFRGKVFGVASQRNPDATTRAHEAKIDTTSDRFTPKLGSLEISTESDDFDQNKP
TRFTPVGIGVDHEADFQQWTLPNYAGRLTHNMNLAPAVAPNFPGEQLLFFRSQLPSSG
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="WMX17778.1"
/translation="MAGAFIAGLAGDMLTNTVGSLVNAGANAINQTIDFENNKHLQNA
SFNHDKEMLNAQIEATKRLQASMIAIKQGVLTAGGFSPTDAARGAINAPMTKVLDWNG
TRHWAPGATSTTSMSGGFTNQAVHRSTPNFKTNQTPKPAPSSGSSVRSNSTQITSLSS
HSSGSSRSSGSTVVSSIPSSNRTRDWVTQQNFNLEPHMPGSLRTAFVTPPSSTASSSG
TVSTVPKNVLDSWTSAFNTRRQPLFAHLRRRGESNV"
ORIGIN
1 gtgaatgaag atggcgtcta acgacgcttc cgctgccgct gctgcaaaca gcaacaacga
61 caacgcaaaa tcttcaagtg acggagtact atctaatatg gctgtcactt ttaaacgagc
121 cctcggggcg cggcctaaac agccgccccc gagggataaa ccaccaaagc ccccaagacc
181 ccccacacca gaattggtta aagcaatccc ccctccccca cccaacgggg aggacgaacc
241 aaccatttct tacaatgtca aagagggtgt ttctggtttg cctgaactct caactgttac
301 ccaaccggaa gagagctcta cagcatttag cgttccccct cttagtcaga gggagaacag
361 agatgcaaag gaaccattga ctggaactat cctggagatg tgggatgggg agatctacca
421 ttatggctta tatgtggaac gagggttagt actaggtgtg cacaaaccac cagcagccat
481 cagccttgcc aaggttgagc tgaccccctt gtccttgtat tggagaccgg tgtacacccc
541 acagtacctc atttcccctg atactctcag aaagttgcat ggggaaacgt tcccttatat
601 agcctttgac aacaactgtt acgccttctg ctgttgggtg cttgacttga acgattcatg
661 gctgagcaga aggatgatac agaggacaac aggcttcttc cgaccctacc aggactggaa
721 taggaaaccc ctccccacga tggatgactc caaagtgaaa aaggtagcca atgttatcct
781 ctgtgctctc gcatcattgt ttacaagacc aattaaggac attattggga 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 ggataggttt ggtgctggga ttcaccaaag agaaaatcgg
1081 caaaatgctt tcatctgctg cttcaaccct gagggcatgc aaagatctcg gtgcatatgg
1141 gttggagatc ctcaagttgg tcatgaaatg gtttttccca aagaaagaag agaaaaacga
1201 attggcaatg gtgagagcca tcgaggatgc agtgctagat cttgaggcca ttgagaacaa
1261 ccatatgaca gctctactca aggatagaga cagccttgca acctacatga gaactcttga
1321 catagaggag gagaaggcga ggaaactctc caccaagtct gcctcgccgg atattgtggg
1381 cacgataaac tccctactgt caaggattgc agctgcccgg tctctagtgc acagggctaa
1441 ggaggagctg tcaagcaggc cccgaccggt cgttgtgatg atctcaggga gaccaggtat
1501 agggaaaacc catctagcta gagaggtggc aaggaagatc gcctcctcac tcacaggtga
1561 tcagagggtg ggtcttatcc cacgcaacgg ggtcgatcac tgggattcat acagaggtga
1621 aagaatcgtt ctctgggacg actatgggat gagcaacccc atccacgacg ccctcagact
1681 ccaggagctc gctgacacct gtcctctcac actcaactgt gacaggattg agaacaaagg
1741 caaagttttc gacagtgacg ccataataat aaccaccaat ttggccaacc cagcgccact
1801 ggactacgtc aactttgaag cgtgctcaag acgcatagac ttcctcgttt atgctgaagc
1861 ccctgaagtt gagaaggcta aacgggactt cccaggccaa ccagacatgt ggaaagacac
1921 ctttaaacct gactgctcac acataaaatt gacattggcc ccgcaagggg gttttgacaa
1981 aaatggtaac actccttatg ggaagggtat catgaagacc ctcactgcca gttccctcgt
2041 tgcccgagca tcagggctcc tccacgagag gttagacgaa tatgagctgc aggggccaac
2101 tcccacgaca ttcaacttcg accgcaacaa ggttctcgct tttaggcaac ttgctgctga
2161 aaacaagtac ggccttgttg acacaatgag ggtcggatca cagctcaaga atgtcaaaac
2221 catgacagaa ctcaagcagg ctctcaagaa catctcagtc aagaaatgcc agcttgtata
2281 tggtgggagc acgtacacac ttgaatctga tggcaaaggt aatgtgcatg tcgagaaggt
2341 gaacaacacc agtgtgcaaa ctaacaatga gctctccggg gctttgcacc atctcaggtg
2401 tgccagaatc aggtactatg ttaagtgtgt ccaggaagct ctctactcca tcttgcaaat
2461 tgccggggct gcattcatta ccacgcgcat tgcaaggcgc atgaacatac aaaacctttg
2521 gtccaaacca caagcagaag atttggagga gactaacaac gaggagggtt gtccaaaacc
2581 taaaaatgat gaagaatttg tcatctcctc tgatgacatc aaagccgagg gcaagaaagg
2641 aaagaacaag actggccgtg gcaagaagca cacagccttt tccagcaaag ggctcagtga
2701 tgaggagtac gatgagttta aaaggatcag ggaagagaga aatggcaagt actccataga
2761 ggaataccta caggatagag acaaatacta tgaggaggtg gccatagcta gggcaactga
2821 ggaagacttc tgtgaagaag aagaggcaaa aatccggcaa aggatattta gaccaacaag
2881 gaaacagcgc aaagaagaaa gggcctctct cggtttggtt acaggttctg agattaggaa
2941 gagaaaccca gacgacttca agcccaaagg gaaactatgg gccgatgatg acaggagtgt
3001 tgactacaat gagaaactta gtttcgaagc tccaccaagc atttggtcac gaatagtcaa
3061 ctttggctcg gggtggggtt tttgggtctc gcccagcctc ttcataacat caacccatgt
3121 catcccccaa ggcgcacagg aattctttgg ggtgtccatc aaacaaattc aaattcacaa
3181 gtcgggtgag ttctgccggc ttagattccc aaaaccaatc aggacagatg tcacaggcat
3241 gattttggag gaaggtgctc cagaaggcac tgttgccaca cttctcatca agaggccaac
3301 tggggaactc atgcccttgg cagccaggat gggcacccac gcgaccatga gaattcaggg
3361 acgcactgtt ggtggacaga tgggcatgct actcacaggg tctaacgcta agagcatgga
3421 cttgggtaca actcctggcg attgtggttg tccctatatc tacaagagag ggaacgacta
3481 cgttgtcatt ggggttcaca ctgccgccgc tcgtggaggg aacaccgtca tctgtgcaac
3541 ccaaggaaac gagggtgagg ctgtgctaga aggtggtgac aacaagggaa cttattgtgg
3601 agcaccaata ttgggacctg gaaatgcccc caaactcagc accaaaacca aattctggag
3661 gtcttccacc acccccctgc cacccggaac ctatgagcca gcttatctgg gtggcaagga
3721 ccctagagtg aagggtggcc cctcactgca acaggttatg agggatcaac taaaaccgtt
3781 cactgagccc agaggcaagc cacccaaacc aagtgtgcta gaagccgcta aaaagactat
3841 aatcaatgta cttgaacaaa caatagaccc acctcaaaaa tggacatacg cacaggcgtg
3901 tgcatcacta gataagacca cctccagcgg tcacccttac cacatgcgga agaacgactg
3961 ctggaatggg gagactttca caggaaaact ggcagaccaa gcatcaaagg ctaacctaat
4021 gtttgaggaa ggaaagaaca tgaccccagt atacacagga gctctgaaag atgagctagt
4081 taagactgat aagatctatg ggacaatcaa gaagagactc ctgtggggtt cagacctatc
4141 aaccatgata cggtgtgcac gagccttcgg tggattaatg gacgaactca aggcccactg
4201 tgtcacacta ccaatcaggg ttggcatgaa catgaatgag gatggaccca taatatttga
4261 gaaacattcc agatataaat accattatga tgcagattac tcccgctggg actcaacaca
4321 acaaagagca gtgctggctg cagccctgga aataatggtc aaattctcac cagaacccca
4381 tctggctcaa gtggttgcag aggacctctt gtcccccagt gtgatggatg tgggtgattt
4441 caagatatca atcaacgagg gattaccctc tggtgttcct tgcacctcac aatggaactc
4501 cattgcccac tggctcctca cactatgtgc actgtctgaa gtcacagacc tgtcccctga
4561 catcatccag gcaaattccc tgttctcctt ttatggtgat gatgaaatag tgagcacaga
4621 cattaaactg gatccagaga aattaacaac aaaattgaag gaatacgggc taaaaccaac
4681 ccgccctgac aaaacagaag gacccttagt tatctctgaa gatttggatg gcctaacatt
4741 cttacggaga acggtgaccc gtgatccggc cgggtggttt ggcaaactgg atcaaagttc
4801 aatactcagg cagatgtact ggaccagggg accaaaccat gaggatccct tcgaaacaat
4861 gataccacac tcccaaagac ccatacaact gatgtcatta ttgggtgaag ctgcattgca
4921 tggtccgtca ttttacagca gaatcagcaa attagtcatc tcagaattga aagagggtgg
4981 aatggatttt tacgtgccca gacaagaacc aatgtttaga tggatgagat tttcagattt
5041 gagcacgtgg gagggcgatc gcaatctggc tcccaatttt gtgaatgaag atggcgtcga
5101 atgacgccgc tccatctaat gatggtgccg ccggcctcgt cccagagatc aacaatgagg
5161 caatggcgct agaaccagtg gcgggtgcag cgttagcagc acccctcact ggtcagcaaa
5221 atataattga tccctggatt atgaataatt ttgtgcaagc acctggtggt gagtttacag
5281 tatcccctag aaattcccct ggtgaagttc ttcttagttt ggaattgggt ccagaaataa
5341 atccctattt ggcccatctt gctagaatgt ataatggtta tgcaggtgga tttgaagtgc
5401 aggtgatcct agctgggaat gcgtttacag caggaaagat aatctttgca gctattcccc
5461 ccaattttcc aatcgacaac ctaagtgcag cacagatcac aatgtgtcca catgtgatcg
5521 tggacgtcag acagctggaa ccagtcaacc tcccgttgcc tgacattcgc aacaatttct
5581 ttcattacaa tcaaaggtct gaatcaagag tgcgcttaat tgcaatgttg tatacacctc
5641 ttagggcaaa taattctggg gatgatgttt ttactgtgtc ttgcagagtg ttaactagac
5701 ctagtcctga cttcgcattt aatttccttg tgccacctac tgtggagtca aagacaaaac
5761 ccttttccct ccctgttctg actatctctg aaatgtccaa ttcgaggttc ccagtgccaa
5821 ttgattccct gcacaccagc cctactgaga atgttgttgt ccagtgtcag aatgggcgcg
5881 tcacccttga cggtgagttg atgggcacta cccaactctt acctagtcaa atctgtgctt
5941 tcaggggcgt gctcaccgga tcaacaagca gggccagtga ccaggccgat acagcaaccc
6001 ccagattgtt taataatcgt tggcacatac aattggataa tctaaatgga actccttatg
6061 acccttcaga agatatacca ggccccttgg ggacaccaga tttccggggc aaagtctttg
6121 gcgtggccag ccagagaaat cctgatgcta caactagggc acatgaagca aagatagaca
6181 caacatctga ccgtttcacc ccgaaattag gttcattaga gatttccact gaatccgatg
6241 actttgatca aaataaacca acaagattca ccccagttgg cattggggtc gaccatgagg
6301 cagactttca acaatggact cttcccaact atgctggccg gctcacccac aacatgaact
6361 tagccccagc tgttgctccc aacttccctg gtgagcaact ccttttcttc cgctcacagt
6421 tgccatcttc tggtgggcga tccgacggga ttctagactg cctggtcccc caagaatggg
6481 tacagcactt ctaccaagaa tcagccccct cccaatctca agtagccctg gttaggtata
6541 tcaaccctga cactggtaga gtgttatttg aggccaaact gcacaaattg ggtttcataa
6601 ctatagccaa aaatggtgac tctccaataa cagtccctcc aaatggatac tttaggtttg
6661 aatcttgggt gaaccccttt tatacacttg cccccatggg aacagggaat gggcgtagaa
6721 ggattcaata atggctgggg cttttatagc aggattggct ggtgacatgc tcacaaatac
6781 tgtggggtct ttagttaatg caggggctaa tgccattaat caaacaattg attttgaaaa
6841 taataaacat ttgcaaaatg cttcttttaa tcatgataag gagatgttga atgcacaaat
6901 tgaggcaaca aagaggttac aggccagcat gattgctatc aaacaagggg ttttgaccgc
6961 tggcggcttc tcccctactg atgcagcccg cggggcaatc aacgccccca tgacaaaagt
7021 cctagattgg aatggaacga gacactgggc accaggtgcc acctccacaa cctcgatgtc
7081 gggtggcttc acaaatcaag ctgtgcacag atctacacca aattttaaaa cgaatcagac
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 taaattagat ttaatttgga agctttt
//