Typing tool
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Typing tool
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Complete norovirus genomes
| OP205528 | GII.7 | |
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| GII.P7 |
ORF1: 1..5089
ORF2: 5070..6692
ORF3: 6692..7465
LOCUS OP205528 7465 bp RNA linear VRL 21-JUN-2023
DEFINITION Norovirus GII isolate RIVM-NOV-2016-0195_R01-02 nonstructural
polyprotein (ORF1) gene, partial cds; and VP1 (ORF2) and VP2 (ORF3)
genes, complete cds.
ACCESSION OP205528
VERSION OP205528.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7465)
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JOURNAL Unpublished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 7465)
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..7465
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="RIVM-NOV-2016-0195_R01-02"
/isolation_source="Human feces"
/host="Homo sapiens"
/db_xref="taxon:122929"
/country="Netherlands"
/collection_date="2016-04-08"
/note="genotype: GII.7[P7]"
gene <1..5089
/gene="ORF1"
CDS <1..5089
/gene="ORF1"
/codon_start=2
/product="nonstructural polyprotein"
/protein_id="UUV60885.1"
/translation="MASNDATAALGSQNSVTDSNNATPSNKEEVGAFSNIKVGFKKML
GAVPKSTKAPSSGQSCPTVKIGPKTLTIPPEPPNGEDTVQFDAKSETVIGLPDLTTVQ
NEHENTPYTVPPLSEREHRPATEPLPGTILEMWDGEFYHYSVYVSDGKALGVHKPPAA
ISLATIELTPISLYWRPVYTPNYLVSPDTLKGLAGEKFPYTAFSNNCYNFCCWVLELN
DTWLNRRCISRTTGFFKPYQSWNRKPLPTVDDGKIKKVANAILCALGSLFSRPIKDLL
GKLKPLNLLHLLASCDWTFAGIVETVILMAELFNVFWTPPDVSNFIASLIGDFELQGP
EDLAVELVPVVMGGIGMVLGFTAEKIGRMLSSAASTLRACKDLGNYALDILKLVMKWF
FPKKQEKAEMETLRAIEDAVLDMEAIGNNHLTTLLKDKDSLTAFMKTLDLEEEKARKL
STKSSSPDIVGTINAILARIAAARSLLHKAKEEMFSRIRPVVVMISGRPGIGKTHMAR
HLAKSIANTMSGDQRVGLVPRNGVDHWDAYRGERVVLWDDYGMGSPVKDALTLQELAD
TCPVTLNCDRIENKGKMFDSDVIIITTNLVNPAPLDYVNFEACSRRVDFLVYAESPEI
EKVKRDFPGQPDMWKDHFKPDFSHIKLTLAPQGGFDKNGNTPHGKGTMRSLTQGSLTA
RVAGLVHERRDEFQLQGNDLQTYNFDTNRVSAFRRLAADNKYGIMETMRVGAALKNVR
TLEDLKIALRDVKFNECEIIYKNSKYRVSSNGKGSVSIDKIGDNASQTANEVHSALLR
LRQARARYYISCFQDLVYTLMQVAGASFVVNRISKRFCWERWVKPTEIQDVNESEKEV
AQDKWEIEPKDTEPEGKKGKNKKGRGKKHTAFSSKGLSDEEYDEFKRIREERNGKYSI
EEYLQDRDRYYEEVAVARATEEDFCEEEEAKIRQRIFRPTKKQRKEERGVLGLVTGSD
IRKRKPDDFQPKGKLWADDTRSVDYNERLDFEAPPSVWSRIVPLGTGWGFWVSSNLLI
TATHVLPKGVKELFGVEIKQIQVHKSGEFCRFRFPRPIRPDVTGLVLEEGAPEGTVCS
VLIKRPTGEMIPLAVRMGTHASMKIQGRTVGGQMGMLLTGANAKNMDLGTGPGDCGCP
YIYKRGNDIVVAGVHTAAARGGNTVICATQGQDGEAVLEGNENLGTYCGAPILGPGKA
PKLSTKTKFWRSSPDALPPGTYEPAYLGGKDPRVEKGPSLQQVMRDQLKPFTEPRGKP
PRPAILEEAKKTVMNVLEQTIDPAKPWSYSQACASLDKTTSSGSPHHVKKNDHWNGES
FTGPLADQASKANLMYEQAKHVQPVYTAALKDELVKTDKIYKKIKKRLLWGSDLGTMI
RCARAFGGLMDSMKESCIALPCRVGMNMNEDGPIIFDKHSKYRYHYDADYSRWDSTQQ
RSILSTAMEVMVRFSAEPELAQVVAEDLLAPSQLDVGDFVISVQEGLPSGVPCTSQWN
SIAHWILTLSAMAEVSGLSPDVVQAHSCFSFYGDDEIVSTDINLDPMKLTQKLREYGL
VPTRPDKTEGPLVITEDLTGLTFLRRSIARDPAGWFGKLDQDSILRQLYWTRGPNHEN
PYESMVPHSQRATQLMALLGEASLHGPQFYKRVSKMVINEIKSGGLEFYVPRQEAMFR
WMRFSDLSTWEGDRNLAPEGVNEDGVE"
mat_peptide <1..997
/gene="ORF1"
/product="p48"
mat_peptide 998..2095
/gene="ORF1"
/product="NTPase"
mat_peptide 2096..2614
/gene="ORF1"
/product="p22"
mat_peptide 2615..3013
/gene="ORF1"
/product="VPg"
mat_peptide 3014..3556
/gene="ORF1"
/product="Pro"
mat_peptide 3557..5086
/gene="ORF1"
/product="RdRp"
gene 5070..6692
/gene="ORF2"
CDS 5070..6692
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="UUV60886.1"
/translation="MKMASNDAAPSNDGAAGLVPEINNEVMPLEPVAGASLATPVVGQ
QNIIDPWIRNNFVQAPAGEFTVSPRNSPGEILLDLELGPELNPYLAHLARMYNGHAGG
MEVQIVLAGNAFTAGKIIFAAIPPGFPYENLSPSQITMCPHVIIDVRQLEPVLLPMPD
IRNNFFHYNQGNDPKLRLVAMLYTPLRANNSGDDVFTVSCRVLTKPSPDFEFTFLVPP
TVESKTKQFTLPILKISEMTNSRFPVPVEMMYTARNENQVVQPQNGRVTLDGELLGTT
PLLAVNICKFKGEVIAKNGDVRSYRMDMEITNTDGTPIDPTEDTPGPIGSPDFQGILF
GVASQRNKNEQNPATRAHEANINTGGDQYAPKLAQVKFFSESQDFEVRQPTVFTPVGV
AGDTSHPFRQWALPRYGGHLTNNTHLAPAVAPLFPGEQILFFRSQIPSSGGHELGYMD
CLVPQEWVQHFYQEAATAQSEVALIRFINPDTGRVLFEAKLHKQGFITVAHTGDNPIV
MPPNGYFRFEAWVNQFYSLAPVGTGNGRRRIQ"
gene 6692..7465
/gene="ORF3"
CDS 6692..7465
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="UUV60887.1"
/translation="MASAFFANLAGGVASNGISSLINAGANAINQKVEFDYNKQLQNA
SFSHDKEMLQAQIEATKHLQQEMINIKQGVLTAAGFSPTDAARGSVGAPMTKLVDWSG
TRYWAPGAMRTTGYSGTFTHLPPMQSASYVNNQNRQLLKVDPSPPSSSGSSVSSLKTQ
STALSGTSRVGTLSQSTLSTRPSTRTSDWVRSQNERLSPFMNGALQTAYVTPPSSRAS
SVSTVSTVPKEVLDSWTPMFNTHRQPLFAHLRRRGESQI"
ORIGIN
1 gatggcgtct aacgacgcta ccgctgccct tggcagtcaa aactctgtca ccgacagtaa
61 taacgccacc ccttctaaca aagaagaggt tggtgcgttc tccaacatca aagttggatt
121 caagaaaatg ctgggtgccg tgccaaagag caccaaagca cccagcagtg gccaaagttg
181 ccccacagtc aagatcgggc ctaaaacact aacaatcccc cccgagcccc caaatggtga
241 ggacacggtg caatttgacg caaagtcaga aactgtaatt gggctaccgg acttgacaac
301 ggtgcaaaac gaacacgaga acaccccata caccgtccct ccattaagtg agagggagca
361 tagaccggcc actgaaccac ttcctggtac aatattggaa atgtgggacg gtgagttcta
421 ccactactct gtgtacgtca gcgacggcaa agctctggga gtccacaaac caccggcagc
481 tataagcctc gcgactatag agctcacccc catatcactt tactggaggc ctgtttatac
541 ccccaactac ttggtctccc cggacacatt gaagggcctc gctggtgaga agtttcccta
601 cacggccttc agtaacaatt gctataactt ctgttgctgg gtgcttgagc tcaacgacac
661 gtggcttaac aggagatgca tttccagaac caccggcttc tttaaaccat accagtcttg
721 gaacaggaaa ccactcccaa ccgtcgatga tggaaagatc aaaaaggtgg ccaatgcgat
781 cctctgcgca ctcggctcgc tgttttcaag accaatcaaa gatctgttag gcaaactcaa
841 gccattgaac ctgctgcact tgctcgcgtc ttgtgattgg acgtttgcgg gtatagtgga
901 aacagtcatc ttaatggcgg aacttttcaa tgtcttctgg accccgccag atgtctctaa
961 tttcatagcc tccctgatag gtgattttga attgcaaggg cctgaggacc tggctgtaga
1021 gctcgttccc gtggttatgg gcggcatagg gatggttctc ggtttcaccg ctgagaagat
1081 aggccgcatg ctatcgtccg ctgcatcgac actgcgggcg tgcaaagacc tagggaacta
1141 tgcccttgac atacttaagt tggtcatgaa gtggttcttc ccaaagaagc aggagaaggc
1201 tgagatggag accttgaggg caattgaaga tgccgtcctg gacatggaag ctatagggaa
1261 taaccacctc acaacccttc tcaaggacaa agacagcctt acggctttta tgaagaccct
1321 ggatctggaa gaggagaagg ctaggaaact gtccaccaaa tcatcttcac cggacatagt
1381 tggcaccatt aatgccatac tagctaggat agctgccgct agatcccttc tacataaagc
1441 caaagaagag atgttcagca ggatcaggcc agtggtcgtc atgatctcag gcagacctgg
1501 cataggaaaa acccatatgg cgaggcatct ggctaagagc atcgccaaca ccatgagtgg
1561 cgaccagaga gtcggactcg ttccgcgcaa cggtgttgac cactgggacg cctatagagg
1621 agagagagtg gtcttgtggg atgactacgg tatgggcagc cctgtcaaag atgccctgac
1681 actacaggaa ttggctgaca catgtccagt cactttaaat tgtgatagga ttgagaataa
1741 agggaagatg tttgacagtg atgtcatcat aatcacgacc aacctagtca accccgcacc
1801 ccttgactat gtgaactttg aggcgtgctc taggagagtt gacttcctgg tctatgcaga
1861 gtcaccagaa attgaaaagg tcaagagaga cttccctggt cagcctgaca tgtggaaaga
1921 tcatttcaag ccagactttt cccacatcaa gctgactcta gccccccagg gtggatttga
1981 caagaatggc aacaccccac atggcaaggg caccatgcgg tccctaaccc aggggtccct
2041 gactgcgaga gttgcaggcc ttgtccatga gaggagagat gagttccagc tccaaggaaa
2101 tgacctccaa acatacaact ttgacaccaa cagagtctcc gcattcagga ggctggccgc
2161 agataacaag tatggaatca tggagacgat gagagtgggt gcggcactca agaatgtgag
2221 gaccttggag gatcttaaaa ttgcattgag ggatgtgaaa ttcaatgaat gtgaaataat
2281 ttacaagaac tctaagtatc gagtttcttc caatggtaaa ggctcagttt ctattgataa
2341 aattggagac aatgcatccc agactgcaaa cgaggtacac tcagcacttc tcaggctcag
2401 gcaagcgagg gccagatatt acatcagctg ctttcaagac ctcgtctaca ctctcatgca
2461 agttgccgga gcatcattcg ttgtcaacag gatctctaaa aggttctgct gggaaaggtg
2521 ggtcaaaccg accgagatcc aggatgtgaa tgagtccgaa aaggaagtgg ctcaagacaa
2581 atgggaaatt gagcccaagg acacagaacc agaaggtaag aaaggcaaga acaagaaagg
2641 aaggggcaag aaacacacag ctttctctag taaaggcctg agtgatgaag agtatgacga
2701 gtttaagaga atcagggaag aaaggaacgg aaagtactcc attgaggaat acctgcaaga
2761 ccgggaccgc tactatgaag aagtggcagt tgcccgggcg acagaggagg acttctgtga
2821 agaggaagag gccaagataa ggcaaagaat tttccgcccg acaaagaaac aaagaaagga
2881 ggaaaggggt gtgctcggct tggtcaccgg ttcagacatc aggaagagga aaccagacga
2941 ttttcaacca aaaggcaaat tatgggcaga tgacaccaga agtgtggact acaatgagag
3001 gctcgatttt gaagcgcccc cgagtgtttg gtcaagaata gtcccattag gtaccggttg
3061 gggattctgg gtttcgtcca accttctgat cacggcaaca cacgttctgc ccaaaggagt
3121 taaggagctc tttggagtcg aaatcaaaca aatccaagtc cacaagtctg gagagttctg
3181 caggtttaga ttcccaagac caatcaggcc agatgtcaca ggactcgtgc tagaggaagg
3241 cgccccagag ggcactgttt gttctgtact cataaaaaga cctacaggtg agatgatccc
3301 cttggcagtg aggatgggca cacatgcatc catgaaaata caaggcagga ccgttggtgg
3361 ccagatgggg atgctcctca caggagcaaa cgccaagaac atggacctcg gcaccggtcc
3421 tggtgactgc ggttgcccct acatctacaa acgtggcaac gacattgttg tcgcgggtgt
3481 ccacaccgca gcagcccggg gaggcaacac tgtcatatgt gccacccaag ggcaagatgg
3541 ggaagcggtc cttgagggaa atgagaatct tggcacctat tgtggcgccc cgattcttgg
3601 ccctggtaaa gcgcctaaac tcagcacgaa gaccaagttt tggcgctcat caccagatgc
3661 cttaccacct ggcacatatg aacctgccta cctaggtggc aaagacccca gggtcgaaaa
3721 aggcccctcc ctgcaacaag tcatgagaga tcagttgaaa cccttcacag aacccagggg
3781 caaaccacct agacctgcaa tcttggagga agccaaaaag acagtgatga atgttctaga
3841 acagaccatt gaccccgcca agccgtggtc ctattctcag gcatgtgcct cacttgacaa
3901 gaccacatct agtggtagtc cccatcacgt taagaaaaat gaccactgga atggggagtc
3961 cttcactggc ccacttgcag atcaggcatc taaagctaac ctcatgtatg agcaggccaa
4021 gcacgtacag cccgtgtata cggccgcgct taaagatgag cttgttaaga ctgacaagat
4081 ctataagaag ataaagaaga gactcctatg ggggtcggac cttggcacaa tgatcaggtg
4141 cgccagggct tttggtggtc tcatggacag catgaaggaa agttgcatag ccctcccttg
4201 cagggtagga atgaacatga atgaagatgg ccccattata tttgacaaac attctaagta
4261 caggtaccac tatgatgctg actattctag gtgggattca acccaacaga ggagcattct
4321 ttctaccgct atggaagtga tggtgcggtt ttctgctgaa ccggaattgg cacaagtggt
4381 tgcagaggac cttttggctc ctagccagct tgatgttggc gattttgtca tctcagtcca
4441 ggagggcctg ccatcaggag tcccgtgcac atcacagtgg aattcaatag cacactggat
4501 cctgactttg agtgcgatgg cagaagtgtc aggtctctca ccagatgttg tccaagctca
4561 ctcttgtttc tcattctatg gggatgatga gatcgtcagc actgacatca accttgaccc
4621 tatgaagttg acacaaaagc tcagggagta cggcctggtc cccacccgac ctgataaaac
4681 tgaaggtccc ctcgtcataa ctgaagacct caccggcctg acattccttc gtaggtcgat
4741 tgctcgggac ccagctggtt ggtttggaaa attggaccaa gactcaattc tcaggcagtt
4801 atactggaca agggggccta accacgagaa tccgtacgag agcatggttc ctcattccca
4861 gcgggccaca cagctcatgg cccttcttgg tgaggcctca ctccatggtc cccagtttta
4921 caagagagtt agcaagatgg tcatcaatga gattaagagt ggtggtctgg agttttatgt
4981 gcccagacaa gaggccatgt tcaggtggat gagattctct gacctcagca catgggaggg
5041 cgatcgcaat cttgctcccg agggtgtgaa tgaagatggc gtcgaatgac gcagctccat
5101 ctaatgatgg tgcagcaggc ctcgtaccag agatcaacaa tgaggtcatg ccccttgagc
5161 ccgtggctgg tgcatcgctg gcgacaccag tcgtcgggca acaaaatata attgatccct
5221 ggataagaaa taattttgtg caagcccctg caggtgagtt tacagtttcc cctaggaatt
5281 cccccggtga aatcttgctt gatttggagt tgggaccaga attgaacccc tatctcgctc
5341 acctggcccg catgtataat gggcacgctg gtggcatgga agtgcaaatt gtgttggctg
5401 ggaacgcgtt cacagctggc aagatcatat ttgctgccat ccctccaggg ttcccatatg
5461 agaatttgtc accttcacaa attacaatgt gcccccatgt tataattgat gttaggcaat
5521 tagaaccagt cctattacct atgccagata ttaggaacaa tttctttcat tacaaccagg
5581 gcaatgatcc aaaattgaga ttggtagcta tgctctacac ccccttaagg gctaataatt
5641 ctggtgatga tgtgttcaca gtttcttgta gggtcctcac taaaccgtca cccgattttg
5701 aattcacatt tttagttccc cccacggttg aatccaagac caaacagttc acattgccca
5761 tcctcaaaat atcagagatg actaactcaa gattcccagt accagtggaa atgatgtata
5821 cagctaggaa tgagaaccaa gttgtccaac cacagaacgg tagggtcaca cttgatggtg
5881 agctattagg caccacaccc ttgttggctg tcaacatctg caagttcaag ggagaggtta
5941 tagctaagaa tggagatgtg agatcctata ggatggacat ggaaatcacc aatactgatg
6001 gcaccccaat tgaccccaca gaagacacac ctggtcccat tggctcacct gacttccaag
6061 gtatactctt tggcgttgcc agccaacgca acaagaatga gcaaaacccc gccacaagag
6121 cccatgaagc caacatcaac actggtggag accaatatgc ccctaaattg gcccaagtga
6181 aattcttctc agagtcccag gatttcgagg tacgccagcc cacagttttc accccagttg
6241 gtgtggcagg tgacacttcc catcctttca gacagtgggc cctgcctcgg tacggtggac
6301 atctcaccaa caatacccac ttggctccag cagtggcccc tttgttccca ggtgagcaga
6361 ttctattctt taggtcacag atacctagct caggcggcca tgaattgggt tacatggact
6421 gccttgtccc acaggagtgg gtccagcact tctaccaaga agctgccaca gctcagtctg
6481 aggtggcact cataaggttc atcaatccag acactggtag agtcctcttt gaggccaagc
6541 tgcacaagca aggctttata actgtggctc acactggtga caacccgatt gtcatgccac
6601 caaatgggta ttttagattt gaagcctggg ttaatcagtt ttactctctc gcccccgtgg
6661 gaactgggaa tgggcgtaga aggatccaat aatggctagt gctttctttg caaatttggc
6721 agggggcgtt gcctccaatg gaattagttc actcataaat gctggggcta atgctattaa
6781 ccaaaaagtt gagtttgact ataacaagca acttcaaaat gcatccttct cccatgacaa
6841 ggaaatgctc caagcccaaa ttgaagccac taaacatctg caacaagaga tgattaatat
6901 aaaacaaggg gtgctgacag ctgcggggtt ctctcccacg gatgccgcga ggggttctgt
6961 cggcgcgcca atgacaaaat tagttgattg gagtggcact agatattggg cacctggtgc
7021 catgaggaca acaggctatt cagggacttt cactcacctg ccccctatgc agtctgcttc
7081 atatgttaat aatcaaaata gacagcttct taaagtagat ccttctcctc cttcttcgag
7141 tggttcttct gtctcttctc ttaaaacaca atcaactgct ctctcaggca cttcaagggt
7201 aggcacctta tctcagtcaa ccctgtcgac caggccgagt acaaggacat ctgattgggt
7261 acgtagccag aatgaaaggt tgagcccctt catgaatgga gcgttgcaaa cagcatatgt
7321 aacgccacca tccagtaggg catcaagtgt cagcacagtc tcgaccgtgc cgaaagaggt
7381 tttggactcc tggacgccta tgtttaacac ccacaggcag ccactcttcg cccatctgcg
7441 caggcgaggg gagtcacaga tttag
//