Typing tool
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Typing tool
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Complete norovirus genomes
| OR536442 | GII.6 | |
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| GII.P7 |
ORF1: 1..5063
ORF2: 5044..6696
ORF3: 6696..7472
LOCUS OR536442 7484 bp RNA linear VRL 04-MAR-2024
DEFINITION Norovirus GII isolate
Hu/NL/2018/GII.6[P7]/Rotterdam/I89S11_P5-d2008 nonstructural
polyprotein (ORF1) gene, partial cds; and VP1 (ORF2) and VP2 (ORF3)
genes, complete cds.
ACCESSION OR536442
VERSION OR536442.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7484)
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JOURNAL Unpublished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 7484)
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..7484
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="Hu/NL/2018/GII.6[P7]/Rotterdam/I89S11_P5-d2008"
/isolation_source="feaces"
/host="Homo sapiens"
/db_xref="taxon:122929"
/country="Netherlands: Rotterdam"
/collection_date="20-Nov-2018"
/note="genotype: GII.6[P7]"
gene <1..5063
/gene="ORF1"
CDS <1..5063
/gene="ORF1"
/codon_start=3
/product="nonstructural polyprotein"
/protein_id="WMX17704.1"
/translation="FGSQKSANDSTNTTPSNKEEAGTFSNIKVGFKKMLGAVPKGTKA
PSSAQHCPTVKIGDKTLTVPPEPPNGEDVVQYDAKSETVHGLPDLTTVRNEHENTPYS
VPPLSEREHRPATEPLPGTILEMWDGEFYHYAVYVSGGKALGVHKPPAAISLATIELT
PISLYWRPVYTPSYLVCPDTLKSLAGEKFPYTAFSNNCYNFCCWVLELNDTWLSRRSI
SRTTGFFKPYQSWNRKPLPTVDDGKIKKVANAILCALGSLFTKPIKDLLGKLKPLNLL
HLLASCDWTFAGVVETVILMAELFNIFWTPPDVSNFISSLVGDFELQGPEDLAVELVP
VVMGGVGMVLGFTAEKIGRMLSSAASTLRACKDLGNYALDILKLVMKWFFPKKEEKAE
METLRAIEDAVLDMEAIGNNHLTTLLKDKDSLSAYMKTLDLEEEKARKLSTKSSSPDI
VGTINAILARISAARSLLHKAKEEMFSRARPVVVMISGKPGIGKTYMARHLAKGVANT
MSGDQRVGLVPRNGVDHWDAYRGERVVLWDDYGMGNPIKDALTLQELADTCPVTLNCD
RIENKGKMFDSDVIVITTNLVNPAPLDYVNFEACSRRIDFLVYAESPEIEKVKRDFPG
QPDMWKDHFKSDFSHIKLTLAPQGGFDKNGNTPHGRGTMRSLTQGSLIARVAGLVHER
KDEFQLQGNDLQTYNFDTNRVSAFRKLAADNKYGIMETMRVGAALKNVKTLEDLKVAL
RDVKFNECQIIYRSSKYRISSNGKGSVSIDKVEDQVSQTASEVGSAILRLRQARARYY
VSCFQDLIYTLIQVAGASFVVSRISKRFCWERWVKPTETQETNESEKEVVQGGWEIEP
KDTEPEGKKGKNKKGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKYSIEEYLQDRDR
YYEEVAVARATEEDFCEEEEAKIRQRIFRPTKKQRKEERGVLGLVTGSDIRKRRPDDF
QPKGKLWADDTRNVDYNERLDFEAPPSVWSRIVPLGTGWGFWVSSNLLITTTHVIPKG
IKELFGVELKQIQIHKSGEFCRFRFPRPIRPDVTGLVLEEGAPEGTVCSILVKRPTGE
MIPLAVRMGTHASMKIQGRTVGGQMGMLLTGANAKNMDLGTGPGDCGCPYIYKRGNDI
VVAGVHTAAARGGNTVICATQGQDGEAVLEGNEDLGTYCGAPILGPGKAPKLSTKTKF
WRSSPDALPPGTYEPAYLGGKDPRVEKGPSLQQVMRDQLKPFTEPRGKPPRPAILEEA
KKTVMNVLEQTIDPAKPWTYSQACASLDKTTSSGSPHHVRKNDHWNGESFTGPLADQA
SKANLMYEQAKHVQPVYTAALKDELVKTDKIYKKIKKRLLWGSDLGTMIRCARAFGGL
MDSMKASCIALPCRVGMNVNEDGPIIFDKHSKYKYHYDADYSRWDSTQQRCILTAAME
VMVRFSAEPELAQVVAEDLLAPSQLDVGDFVISVQEGLPSGVPCTSQWNSIAHWILTL
SAMAEVSGLSPDVVQAHSCFSFYGDDEIVSTDINLDPMKLTQKLREYGLVPTRPDKTE
GPLVITEDLTGLTFLRRSIVRDPAGWFGKLDQDSILRQLYWTRGPNHENPYESMVPHS
QRATQLMALLGEAALHGPQFYKKVSKMVINEIKSGGLEFYVPRHEAMFRWMRFSDLST
WEGDRNLAPEGVNEDGVE"
mat_peptide <1..971
/gene="ORF1"
/product="p48"
mat_peptide 972..2069
/gene="ORF1"
/product="NTPase"
mat_peptide 2070..2588
/gene="ORF1"
/product="p22"
mat_peptide 2589..2987
/gene="ORF1"
/product="VPg"
mat_peptide 2988..3530
/gene="ORF1"
/product="Pro"
mat_peptide 3531..5060
/gene="ORF1"
/product="RdRp"
gene 5044..6696
/gene="ORF2"
CDS 5044..6696
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="WMX17705.1"
/translation="MKMASNDAAPSNDGAANLVPEANNEVMALEPVAGASIAAPVVGQ
QNIIDPWIRENFVQAPQGEFTVSPRNTTGEVLLNLELGPELNPYLRHLSRMYNGYAGG
MQVQVILAGNAFTAGKIIFAAVPPHFPVENISAAQITMFPHVVVDVRQLEPVLLPLPD
IRNRFFHYNQENTSRMRLVAMLYTPLRANSGEDMFTVSCRVLTRPAPDFEFTFLVPPT
VESKTKPFTLPVLTLGELSNSRFPAPIDKLYVDPSEAFVVRPQNGRCLLDGTLQGTTQ
LAPTQICSFRGTLVRHESRSADPVDSVDSARRTMNHPLYVQLGNLDGTSYDPTDEVPA
VLGAIDFKGTVYGVASQRDTKGSVGATRAHEVIINTKDAKYSPKLGSVLMYSESTDFF
GDQPIRFTPIGMGEQNDWSQWDLPDYSGAFSLNMHLAPAVAPAFPGERILFFRSVVPA
AGGYGKGEIDCLIPQEWIQHFYQEAAPTQSAVALIRYVNPDTGRNIFEAKLHREGFIT
VASSGDNPIVVPPNGYFRFEAWVNQFYTLTPMGAGQGRKRAQ"
gene 6696..7472
/gene="ORF3"
CDS 6696..7472
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="WMX17706.1"
/translation="MAGAFLAGLAGDAITNGVGSLINAGANAINQKVEYDFNKQLQSA
SFQHDKEMLQSQVLATKQLQQEMMNIKQGVLTAGGFSPTDAARGAVNAPMTKILDWNG
TRYFAPNSMKTTSYSGQFSSNYVHKQSTPPHPSPSKTNVSSGSSSVYSSLSSASSQST
HSTVLTAGSGSSRTTPSSSTASTLSRTSDWVRGQNERLSPFMSGALQTTFVTPPSSRA
SSHGSVSTVPKAVLDSWTPTFNTNRQPLFAHIRRRGESQI"
ORIGIN
1 ccttcggcag ccaaaaatct gccaatgaca gtactaacac caccccttcc aataaggaag
61 aggctggtac attctccaac attaaagttg gttttaagaa gatgctgggt gccgttccta
121 aggggaccaa agcacccagt agtgctcagc actgccccac agtcaagatc ggggacaaaa
181 cactaacagt tccacccgag cccccaaatg gtgaggacgt tgtgcagtac gatgcgaagt
241 cagaaactgt gcatggacta ccagacttga cgacggtgag aaatgagcac gaaaacacac
301 cgtactctgt tcccccattg agtgaaagag aacacagacc agccactgaa ccacttccag
361 gcacaatact ggagatgtgg gatggtgaat tttatcacta cgccgtgtat gtcagtggcg
421 gcaaagccct aggagttcac aaaccccctg cagcaataag cctcgcaacc atagagctca
481 cacccatatc tctttactgg aggcccgttt acacccccag ctacttagtc tgcccagaca
541 cgctgaaaag cctcgctggt gagaagtttc cctacacagc tttcagtaac aactgttaca
601 acttttgttg ctgggtgctt gagctcaacg acacgtggct tagcaggaga agcatctcca
661 gaaccaccgg cttcttcaaa ccataccagt cttggaacag gaaacccctc cccaccgttg
721 atgatggaaa gattaagaag gtggccaacg caatcctctg tgcgcttgga tcactgttta
781 caaagccaat taaagaccta ttgggaaagc tcaaaccact aaatttgctg cacctgctcg
841 catcatgtga ttggaccttt gcgggtgtag tagagacagt catcctaatg gcggaacttt
901 tcaacatctt ttggacaccg ccagatgttt ccaacttcat atcctccttg gtgggcgact
961 ttgagctgca agggcctgag gatctggctg tggaacttgt tcccgtggtc atgggtggcg
1021 tagggatggt tctcggcttc actgctgaga agataggccg tatgctgtcc tccgccgcat
1081 caacgctgcg agcatgcaaa gacctgggga attacgccct tgacatacta aagctggtta
1141 tgaagtggtt cttcccaaag aaagaagaga aggccgagat ggaaacttta agggcaattg
1201 aggacgccgt tctggacatg gaagctatag ggaacaatca tcttacaacc ctcctcaagg
1261 acaaggacag tctctcggcc tacatgaaga ctctggacct ggaagaagaa aaggcaagga
1321 agctgtccac caagtcatcc tcgccagaca ttgtcggcac tatcaatgcc atactggcca
1381 gaatatctgc tgccagatcc ctcctacaca aggctaaaga agaaatgttt agtagggcca
1441 gacccgtagt tgttatgatt tcaggcaaac ctggcattgg caaaacctac atggcaagac
1501 acctagctaa gggcgtcgcc aacaccatga gtggcgacca aagagttggg ctcgttccgc
1561 gcaacggggt cgaccactgg gacgcctaca ggggggagag ggtggttttg tgggatgact
1621 acggcatggg gaaccctatc aaggatgctc taacattaca agaattggcc gacacttgtc
1681 cagtcactct aaactgtgac aggattgaga acaaaggaaa gatgttcgac agtgatgtca
1741 ttgtaatcac aaccaatcta gtcaacccag cgcccctcga ttatgtgaac ttcgaggcgt
1801 gctccaggag gattgacttt ctagtctatg cagagtcacc agagattgag aaagttaaga
1861 gagacttccc tggccaacct gacatgtgga aagaccattt caaatcagac ttctcccaca
1921 taaaactgac tctggctccc cagggcggat ttgacaaaaa tggcaatacc ccgcatggta
1981 ggggcaccat gcgatccctg acccaagggt ccctgatcgc aagggttgcg ggtcttgttc
2041 atgagaggaa ggatgagttc cagctccagg ggaacgacct ccaaacatac aactttgaca
2101 ccaacagggt ctccgcattt aggaaactag ccgcagacaa caaatatggg atcatggaaa
2161 caatgagagt gggtgcggcg cttaagaatg tcaagacctt ggaagatcta aaggttgccc
2221 tgagggatgt gaagttcaat gagtgtcaaa taatttacag gagctccaaa tatcgtatct
2281 cttccaatgg aaaaggctcc gtctctattg ataaagttga ggatcaggtg tcccagactg
2341 caagtgaagt gggttcagca atccttagac tcaggcaggc aagggccaga tactatgtca
2401 gctgcttcca agatctcatc tacactttga tacaggttgc tggagcatca ttcgttgtta
2461 gcagaatctc caagaggttt tgttgggaga ggtgggtcaa accaaccgag acccaggaaa
2521 cgaatgaatc cgagaaggaa gtagtccaag gtggatggga gattgaaccc aaggacacag
2581 aaccagaagg caagaagggc aagaacaaga aaggaagagg caagaagcac acggctttct
2641 ccagcaaagg cctgagtgat gaggagtatg acgagtacaa gagaatcagg gaagagagga
2701 acggaaagta ctccattgag gaatacctgc aagaccggga ccgctactat gaggaagtgg
2761 cagttgcccg agcaacagag gaggactttt gtgaggaaga ggaggccaag ataagacaaa
2821 gaatcttccg ccccacaaag aaacagagga aggaagaaag gggggtgctt ggtttggtca
2881 ccggctcaga catcaggaag aggagaccag atgatttcca accaaagggc aaactgtggg
2941 cagatgacac cagaaatgtg gactacaacg agagacttga ctttgaggct cccccgagtg
3001 tctggtcgag aatagttcca ttgggcactg gatggggctt ctgggtttcg tccaatctcc
3061 tgatcacaac aacacatgtc atacctaagg ggattaagga actctttgga gttgaactca
3121 aacagatcca aattcataag tctggagaat tttgcaggtt caggttccca agaccaatta
3181 ggccagatgt cacagggctc gtgttggagg aaggcgctcc agaaggcacc gtctgttcca
3241 tacttgtgaa gagacctaca ggtgaaatga ttcccctagc agtgaggatg ggcacacatg
3301 cttccatgaa gatacagggt aggaccgtcg gtggccagat ggggatgctt ctcacaggag
3361 caaacgcaaa gaacatggat cttggcaccg gccctggtga ctgcggctgt ccttacatct
3421 acaaacgtgg caacgacata gttgtcgcgg gtgtccacac tgcagcagcc cgagggggca
3481 acactgtcat atgtgccacc cagggacaag atggggaggc agtccttgag ggaaacgagg
3541 accttggcac ttactgcggt gccccaattc tgggcccagg caaagcaccc aaactcagta
3601 caaagaccaa gttctggcgc tcatcaccag acgctttgcc accaggcacc tacgagcctg
3661 cctatctggg gggtaaggac cccagagtgg agaaaggacc atctctgcaa caagtcatga
3721 gggatcagct aaaacctttc acagaaccca ggggtaaacc ccctagacct gcaatattag
3781 aagaagccaa aaagacagtt atgaatgtac tagagcaaac cattgatcct gctaaaccat
3841 ggacctattc ccaggcatgt gcttcactgg acaagaccac ttccagtggt agcccccacc
3901 atgtcaggaa aaatgaccat tggaatggag aatctttcac tggccccctt gcagaccaag
3961 catccaaagc caacctcatg tatgaacagg ccaaacatgt gcagcccgta tacacggccg
4021 cgcttaaaga cgagcttgtt aagactgata agatctataa aaagataaag aagagactct
4081 tgtgggggtc ggaccttggc acgatgatca ggtgcgccag ggcctttggt ggtctcatgg
4141 atagcatgaa ggcaagttgc atagccctcc catgtagagt agggatgaat gtgaatgagg
4201 atggtcctat catatttgac aagcactcta aatacaaata ccactatgat gctgactatt
4261 ctagatggga ttccactcag caaaggtgca ttctcacggc cgctatggaa gtgatggtga
4321 ggttctctgc cgagccagag ctagcacaag tggttgcaga ggatctactg gcacccagcc
4381 aactagacgt tggcgatttt gtcatctcag tccaggaggg tctgccatca ggggtcccgt
4441 gtacatcaca gtggaactca atagcacatt ggatcctaac cttgagtgca atggcagaag
4501 tgtcaggtct ctcaccagat gttgtccaag cccactcttg tttttccttt tacggcgatg
4561 atgagatcgt cagcactgac atcaaccttg accccatgaa gttgacacaa aaactcagag
4621 aatatggtct ggtccccacc cgacctgaca aaactgaagg tccccttgta atcactgaag
4681 acctcaccgg cctgacgttc ttgcgtaggt caattgtgag agatccagct gggtggtttg
4741 gaaaattgga ccaagactca atcctcaggc agctatattg gacaaggggc cccaatcatg
4801 agaatccata cgagagcatg gtccctcata gccagcgggc aacacaactc atggcccttt
4861 taggtgaggc tgcactgcat ggcccccagt tttacaagaa agttagcaaa atggtcatca
4921 atgaaattaa aagtggtggt ctggaatttt atgtgcccag acatgaggcc atgttcagat
4981 ggatgagatt ctctgacctc agcacatggg agggcgatcg caatcttgct cccgaaggtg
5041 tgaatgaaga tggcgtcgaa tgacgctgct ccatcgaatg atggtgctgc caacctcgta
5101 ccagaggcca acaatgaggt tatggcactt gaaccggtgg cgggagcctc aatcgcagct
5161 cctgtcgtcg gccaacaaaa tataattgac ccctggatta gagaaaattt tgttcaggca
5221 ccacagggtg agttcactgt ttcaccaagg aacacaaccg gtgaggtact tctcaatctt
5281 gaattaggcc ctgagctcaa cccttatctg agacatttgt cccgcatgta caacggttat
5341 gctggtggta tgcaggttca ggtgatccta gctgggaatg cgttcacagc tggtaaaatc
5401 atctttgccg ccgttccacc acatttccct gtagaaaata ttagtgcagc ccaaatcaca
5461 atgttccccc atgtagttgt tgatgtaaga cagcttgagc cagtgctttt acccctccct
5521 gacataagga ataggttctt tcattacaat caggaaaaca cttctagaat gagacttgtg
5581 gctatgttgt acacacccct tagggcaaat tctggtgagg atatgttcac ggtgtcttgc
5641 agagtcctga cccgtccagc ccctgacttt gagttcactt ttctggtgcc accaactgta
5701 gaatcaaaga ctaaaccctt cacactccca gttctaactc ttggagaact atctaattct
5761 agattccctg ccccaataga caagctgtat gtagatccca gtgaagcatt tgtggtgagg
5821 ccacaaaatg gccgatgtct tctggacgga acacttcaag ggaccaccca gctggcgccc
5881 acccaaattt gctccttcag gggcacgctg gttcgccatg agtcgaggtc tgcagatcca
5941 gtagattcag tggactcagc tagacgaaca atgaaccatc ctctctacgt tcagctgggg
6001 aacctcgatg ggacatcata tgatccaaca gatgaggtgc cagcggttct gggtgccata
6061 gatttcaaag gaactgtgta tggggtcgct agtcaaaggg acaccaaagg ctctgtagga
6121 gcgacccgcg cccatgaagt gataataaac accaaagatg ctaaatattc tccaaaactt
6181 ggctctgtgt tgatgtattc tgaatccact gatttcttcg gtgaccagcc catccgcttc
6241 actcctattg gcatgggtga gcaaaatgat tggagccaat gggatttgcc tgattattct
6301 ggtgccttct ccctcaacat gcacctagcc cccgcagttg cccctgcttt ccctggtgag
6361 cgcattctct tctttagatc agtggtgcca gctgctggtg gttatggaaa aggtgagata
6421 gactgtctca tcccacagga atggattcag catttctatc aggaggccgc cccaacacaa
6481 tccgcagtgg cccttattag atatgttaat cctgacactg gaagaaacat ctttgaggca
6541 aagctgcaca gagaagggtt catcactgtg gcaagttctg gagacaaccc catagttgtg
6601 ccaccaaatg gctacttcag atttgaggct tgggttaacc aattctatac acttaccccc
6661 atgggagctg gacaggggcg caaaagagcc cagtaatggc aggagctttc ttagctggat
6721 tggcaggtga cgccataaca aatggtgtcg ggtccctgat caacgctggg gccaatgcaa
6781 tcaaccaaaa ggtagagtat gacttcaata aacaactcca atcggcatcc tttcaacatg
6841 acaaagagat gttgcagtca caagttctgg ccactaaaca gctccaacag gagatgatga
6901 acataaagca aggggtcttg accgctggcg gcttttcccc tacagatgct gcaagaggcg
6961 ctgtgaacgc gccgatgaca aaaattctgg attggaatgg aacgaggtat tttgccccaa
7021 acagtatgaa gacaaccagt tattcaggcc agttctccag taactatgta cataagcaat
7081 ctacaccacc ccaccctagc ccttcaaaaa ctaatgttag tagtggttct tctagtgtgt
7141 atagttctct atcttctgct tcctcacaat caactcattc aacggtcttg actgcgggat
7201 ccgggtcgtc taggacaact ccctcctcct caacagcttc caccttgtct agaactagtg
7261 attgggtaag aggacaaaat gagagactca gcccgttcat gagtggtgct ctccaaacga
7321 cttttgtcac accaccatcg agcagggcct catcacatgg gtcggtctca accgtcccca
7381 aagctgtttt ggactcctgg actcctacgt tcaacaccaa taggcagcct ctcttcgctc
7441 acattcgtag gcgaggggag tcacagattt agtgaaaaga ttga
//