Typing tool
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Typing tool
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Complete norovirus genomes
| MW581006 | GII.4 Yerseke | |
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| GII.P4 New Orleans |
ORF1: 5..5104
ORF2: 5085..6707
ORF3: 6707..7468
LOCUS MW581006 7479 bp RNA linear VRL 01-MAR-2022
DEFINITION Norovirus GII isolate Hu/NL/2017/GII.4[P4]/Rotterdam/17004
nonstructural polyprotein (ORF1), VP1 (ORF2), and VP2 (ORF3) genes,
complete cds.
ACCESSION MW581006
VERSION MW581006.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7479)
AUTHORS de Graaf,M.
TITLE Treatment of chronic norovirus infection: lessons learned from a
patient with common variable immunodeficiency
JOURNAL Unpublished
REFERENCE 2 (bases 1 to 7479)
AUTHORS de Graaf,M.
TITLE Direct Submission
JOURNAL Submitted (08-FEB-2021) Viroscience, Erasmus MC, Wytemaweg 80,
Rotterdam 3015CN, Netherlands
COMMENT ##Assembly-Data-START##
Assembly Method :: SPAdes v. v3.11.0
Sequencing Technology :: Illumina
##Assembly-Data-END##
FEATURES Location/Qualifiers
source 1..7479
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="Hu/NL/2017/GII.4[P4]/Rotterdam/17004"
/isolation_source="feces"
/host="Homo sapiens"
/db_xref="taxon:122929"
/country="Netherlands"
/collection_date="06-Sep-2017"
/note="genotype: GII.4[P4]"
gene 5..5104
/gene="ORF1"
CDS 5..5104
/gene="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="QRI43754.1"
/translation="MKMASNDAFTAAVANSNNDNTKSSSDGVFSNMAVTFKRALGARP
KQPPPREKPQRPPRPPTPELVKNIPPPPPNGEDEMVVSYSVKDGVSGLPDLSTVRQPE
ETNTAFSVPPLNQRENRDAKEPLTGTILEMWDGEIYHYGLYVERGLVLGVHKPPAAIS
LAKIELTPLSLYWRPVYTPQYLISPDTLKKLSGETFPYVAFDNNCYTFCCWVLDLNDS
WLSRRMIQRTTGFFRPYQDWNRKPLPTMDDSKIKKVANIFMCALSSLFTRPIKDIIGK
IKPLNILNILASCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPED
LAVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFP
KKEEANELAIVRSIEDAVLDLEAIENNHMTTLLKDKDTMATYMRVLDLEEEKARKLST
KSASPDIVGTINALLARIAAARSLVHRAKEELSSRPRPVVLMISGKPGIGKTHLAREV
AKRIAASLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTC
PLTLNCDRIENKGKVFDSDVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEK
AKRDFPGQPDMWKNAFSSDFSHIKLSLAPQGGFDKNGNTPHGKGVMKTLTTGSLIARA
SGLLHERLDEFELQGPALTTFNFDRNKVLAFRQLAAENKYGLMDTMRVGKQLKDVRTM
PELKQAIKNISIKKCQIVYGGCTYMLESDGKGNVKVDRVQSAAVQTNNELAGALHHLR
SARIRYYVKCVQEALYSIIQIAGAAFVTSRIAKRMNIQNLWSKPQVENTEEVTSEDGC
PKPKDEEEFVVSSDDIKPEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNG
KYSIEEYLQDRDKYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGLV
TGAEIRKRNPDDFKPKGKLWADDDRGVDYNEKLSFEAPPSIWSRIVNFGSGWGFWVSP
SLFITSTHVIPQGAKEFFGVPIKQIQVHKSGEFCRLRFPKPIRTDVTGMILEEGAPEG
TVVTLLIKRPTGELMPLAARMGTHATMKIQGRAVGGQMGMLLTGSNAKSMDLGTTPGD
CGCPYIYKRGNDYVVIGVHTAAARGGNTVICATQGSEGEATLEGGDNKGTYCGAPILG
PGSAPTLSTKTKFWRSSTAPLPPGTYEPAYLGGKDPRVKGGPSLQQVMREQLKPFTEP
RGKPPKPSVLEAAKKTIINVLEQTIDPPEKWSFAQACASLDKTTSSGHPHHVRKNDCW
NGESFTGKLADQASKANLMFEEGKNMTPVYTAALKDELVKTDKIYGKIKKRLLWGSDL
ATMIRCARAFGGLMDELKAHCVTLPVRVGMNMNEDGPIIFERHSRYTYHYDADYSRWD
STQQRAVLAAALEIMVKFSPEPHLAQVVAEDLLSPSVVDVGDFTISINEGLPSGVPCT
SQWNSIAHWLLTLCALSEVTNLSPDIIQANSLFSFYGDDEIVSTDIKLDPEKLTAKLR
EYGLKPTRPDKTEGPLVISEDLNGLTFLRRTVTRDPAGWFGKLEQSSILRQMYWTRGP
NHGDPSETMIPHSQRPIQLMSLLGEAALHGPAFYSKISKLVIAELKEGGMDFYVPRQE
PMFRWMRFSDLSTWEGDRNLAPSFVNEDGVE"
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..6707
/gene="ORF2"
CDS 5085..6707
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="QRI43755.1"
/translation="MKMASSDANPSDGSSANLVPEVNNEVMALEPVAGAAIAAPVAGQ
QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
FEVQVILAGNAFTAGKIIFAAVPPNFPTEGLSPSQITMFPHVITDVRQLEPVMIPLPD
VRNNFYHYNQSNDPTLKLVAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP
SVESRTKPFSIPILTVEEMTNSRFPIPLERLFTGPSNAFVVQPQNGRCTIDGVLQGTT
QLSPVNICTFRGDVTHISGSRNYTMNLASQNWNSYDPTEEIPAPLGTPDFVGKIQGML
TQTTRSDGSTRAHRATVYTGSADFSPKLGRIQFATDTENDFETNQNTKFTPVGVIQDG
GTTARNEPQQWVLPSYSGRSTHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD
CLLPQEWVQHFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV
IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRAL"
gene 6707..7468
/gene="ORF3"
CDS 6707..7468
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="QRI43756.1"
/translation="MAGAAIAGLASDVLSSGLGSLINAGAGVINQKVDFENNRKLQQD
SFQFSSKLQQASFQHDKEMLQSQIEATKRLQQELMKLKQAMLLEGGFSGTDAARGAIN
APMTKALDWSGTRYWAPDARTTTSNAGRFSTPQPSGALPGRARAAAPTRGSSSMSSNS
PSATSVYSNQTTSTRLSSTAGSGTSVSSLPSTARTRSWVEGQNRGFTPPSSRSSSQGT
VSTVPKEVLDSWTGAFNTRRQPLFAHIRRRGESRV"
ORIGIN
1 gtgaatgaag atggcgtcta acgacgcttt caccgccgct gttgccaaca gcaacaacga
61 caacacaaaa tcttcaagtg acggagtgtt ttctaacatg gctgtcactt ttaaacgagc
121 cctcggggcg cggcctaaac agcccccccc gagggaaaaa ccacaaagac ccccacgacc
181 acctacccca gaactggtca aaaacatccc ccctccccca cccaacgggg aggatgaaat
241 ggtggtttct tacagtgtca aagatggtgt ctccggcttg cctgaccttt ccaccgtcag
301 gcaaccggaa gagaccaaca cggcatttag tgtccctcca ctcaatcaga gggaaaatag
361 agatgctaag gagccactca ctggaacaat tctggaaatg tgggacgggg agatctacca
421 ctatggcctg tacgtggagc gaggtcttgt actaggtgtg cacaaaccac cagctgccat
481 cagccttgct aagatagagc taacaccact ctccttatac tggaggcctg tgtacactcc
541 tcagtacctc atctctccgg acaccctcaa gaaattgtcc ggagaaacgt ttccctacgt
601 ggcctttgac aacaactgtt acaccttctg ttgctgggtc ctggatctaa atgattcgtg
661 gctgagcagg agaatgattc agagaacaac tggcttcttc aggccctacc aagactggaa
721 taggaaaccc cttcccacta tggatgactc caaaataaag aaggtggcca acatattcat
781 gtgtgctctg tcctcgctgt tcactaggcc cataaaggac ataataggga agataaagcc
841 tcttaacatc ctcaacatct tggcctcatg tgattggact tttgcaggta tagtggagtc
901 cctgatactc ttggcagaac tctttggagt tttctggaca cccccagatg tgtctgcgat
961 gattgccccc ttacttggtg actacgagct acaagggcct gaggaccttg cagtggagct
1021 cgtccccgtg gtaatggggg gaattggttt ggtgctggga ttcaccaaag agaagattgg
1081 gaaaatgctg tcatcagcag cgtccacctt gagagcttgc aaagaccttg gtgcatatgg
1141 actagagatc ctaaagctgg ttatgaaatg gttcttcccg aaaaaggagg aggcaaatga
1201 gctggctata gtgaggtcca tcgaggacgc agtcctggac ctcgaggcaa ttgaaaacaa
1261 ccatatgacc accttgctca aggacaaaga cactatggca acctacatga gggtgcttga
1321 cctcgaagag gagaaagcca ggaaactctc aaccaagtcc gcctcacccg acatcgtggg
1381 cacaatcaac gctctcctgg cgagaatcgc tgccgcacgt tctctggtgc atcgtgcaaa
1441 ggaggagctt tccagcagac caaggcctgt ggtgctgatg atatcaggca agccaggaat
1501 agggaagacc cacctcgcta gggaggtggc caagaggatc gcagcctccc ttacaggaga
1561 ccagcgcgtg ggcctcatcc cacgcaatgg cgtcgaccat tgggacgcgt acaaggggga
1621 gagagtcgtc ctatgggacg actatggaat gagcaaccct attcacgatg ccctcaggct
1681 gcaagaactc gctgacacct gccccctcac cctaaactgt gacaggattg aaaataaagg
1741 aaaggtcttt gacagtgatg tcatcattat caccactaat ctggccaacc cagcaccact
1801 ggactatgtc aactttgaag catgttcgag gcgtatcgac ttcctcgtgt atgcagaagc
1861 ccctgaagtt gaaaaggcga agcgtgactt cccgggccag cctgacatgt ggaagaacgc
1921 tttcagttct gacttctcac acataaagct gtcactggcc ccacagggtg gtttcgacaa
1981 gaacgggaac accccacacg gaaagggcgt catgaaaacc ctcaccactg gctccctcat
2041 tgcccgggca tcagggctgc tccatgagag gttagatgaa tttgaactac agggcccagc
2101 tctcaccacc ttcaatttcg atcgcaacaa agtgctcgcc ttcagacaac ttgctgctga
2161 gaacaaatat ggactgatgg acacaatgag ggtcgggaaa cagctcaagg acgtcagaac
2221 catgccagag ctcaaacaag caatcaagaa catttcaatc aagaagtgcc aaatagtgta
2281 tggtggttgc acctacatgc ttgagtctga cggtaagggc aatgtgaaag tcgacagggt
2341 ccaaagcgcc gccgtgcaga ccaacaacga gctggccggc gccctgcacc acttgaggag
2401 cgctagaatc aggtactatg tcaagtgtgt ccaggaggcc ctgtattcca tcatccaaat
2461 tgctggggct gcattcgtca cctctcgcat cgccaagcgc atgaacatac aaaatctatg
2521 gtccaagcca caggtggaaa acacagagga ggtcaccagc gaggacgggt gcccaaagcc
2581 taaggatgaa gaggagttcg tcgtctcatc cgacgacatc aaacctgagg gcaagaaggg
2641 gaagaacaag actggccgcg gcaagaagca cacagcattt tcaagcaaag gcctcagtga
2701 tgaagagtac gatgagtaca agaggatcag ggaggaaagg aatggcaagt actccataga
2761 agaatacctt caggacaggg acaagtacta tgaggaggtg gccattgcca gggcgaccga
2821 ggaagacttc tgtgaagagg aggaggccaa gatccggcaa aggatcttca ggccaacgag
2881 gaaacaacgc aaggaggaaa gagcctctct cggtctggtc acaggtgctg aaatcaggaa
2941 aaggaaccca gatgacttca aacctaaggg aaaattgtgg gctgatgatg acaggggtgt
3001 ggactacaat gagaaactca gtttcgaggc cccaccaagc atctggtcga gaatagtcaa
3061 ctttggctca ggctggggat tctgggtctc ccccagtctg ttcataacat caacccatgt
3121 cataccccag ggcgcaaagg agttctttgg agtgcccatc aaacaaatac aggtgcacaa
3181 gtcaggcgag ttctgtcgct tgagattccc aaaaccaatc aggactgatg tgacgggcat
3241 gatcctagaa gagggcgcac ctgagggcac cgtggtcaca ctactcatca aaaggcccac
3301 tggggagctc atgcccctgg cagctaggat ggggacccat gcgaccatga agatccaagg
3361 gcgcgctgtt ggaggccaga tgggcatgct tctgacggga tccaacgcca agagcatgga
3421 cctgggtact acaccaggtg actgtggctg cccctacatc tacaagagag gcaatgacta
3481 tgtggtcatt ggagtccaca cggctgccgc acgtggggga aacaccgtca tatgtgccac
3541 ccaggggagt gagggagagg ccacacttga aggtggtgac aacaagggga catactgtgg
3601 tgcaccaatc ttaggcccag ggagtgcccc aacactcagc accaagacca aattttggag
3661 atcgtccaca gcaccgctcc cacctggcac ctatgaacca gcctatcttg gtggcaagga
3721 ccctagagtc aagggtggcc cttcactgca gcaagtcatg agggaacagt tgaagccatt
3781 cacagagcca aggggtaagc caccaaagcc aagtgtgctg gaggctgcca agaagaccat
3841 catcaatgtc cttgagcaaa caattgaccc acctgagaaa tggtcgttcg cacaagcttg
3901 cgcgtccctt gacaagacca cttccagtgg tcacccgcac cacgtgcgga aaaacgactg
3961 ctggaacggg gagtccttca caggcaagtt agcagaccag gcttccaagg ccaacctgat
4021 gtttgaagaa gggaagaaca tgaccccagt ctacacagcc gcgctcaagg atgagctggt
4081 caagactgac aagatttatg gcaaaatcaa gaagaggctt ctctggggct cggacttggc
4141 gaccatgatc cggtgtgctc gagcattcgg aggcctaatg gatgagctca aagctcactg
4201 tgtcacactt cccgttaggg ttggtatgaa tatgaatgag gatggcccca tcatcttcga
4261 gaggcactcc aggtacacat atcactatga tgctgactac tctcgatggg actcaacaca
4321 acaaagggcc gtgttggcag cagctctaga aatcatggtc aaattctccc cagaaccaca
4381 cttggctcag gtagtcgcag aagaccttct ttctcccagc gtggtggacg tgggcgactt
4441 cacaatatca atcaacgagg gtcttccctc tggggtgccc tgcacctccc aatggaactc
4501 catcgcccac tggctcctca ctctctgtgc gctctctgaa gtcacaaact tatcccctga
4561 catcatacag gccaactccc tcttctcttt ctacggtgat gatgaaattg tcagcacaga
4621 cataaaattg gatccagaga aattgacagc aaagctcaga gagtatgggt tgaaaccaac
4681 tcgccctgac aaaactgaag gacctcttgt catctctgaa gacctgaatg gcctaacctt
4741 cctgcggaga actgtgaccc gtgacccagc tggttggttt ggaaaactgg agcaaagctc
4801 aatactcagg caaatgtact ggactagggg ccccaaccac ggagacccat ctgaaacaat
4861 gattccacac tcccaaaggc ccatacaatt gatgtcccta ctgggggagg ccgctctcca
4921 cggcccagcc ttttacagca aaatcagcaa gctggtcatt gcagagctaa aggaaggtgg
4981 catggatttt tacgtgccta gacaagagcc aatgttcaga tggatgaggt tctcagatct
5041 gagcacgtgg gagggcgatc gcaatctggc tcccagtttt gtgaatgaag atggcgtcga
5101 gtgacgccaa cccatctgat gggtcctcag ccaacctcgt cccagaggtc aacaatgagg
5161 ttatggcttt ggagcccgta gccggcgccg ctattgcggc acctgtggcg ggccaacaaa
5221 atgtaattga cccctggatt agaaataatt ttgtacaagc ccctggtgga gagtttacag
5281 tatcccctag aaacgctcca ggtgaaatac tatggagcgc acccttgggc cctgatttga
5341 acccctacct ttcccatttg gctagaatgt acaatggtta tgcaggtggc tttgaagtgc
5401 aggtaatcct cgcggggaac gcgttcaccg ctggaaagat catatttgca gcagtcccac
5461 caaattttcc aactgaaggt ttgagcccca gccagatcac tatgttcccc catgtgataa
5521 cagatgttag gcaattggaa cctgtgatga tccccttacc cgatgttagg aacaatttct
5581 accattacaa ccaatcaaat gaccccaccc tcaaattggt agcaatgttg tacacaccac
5641 tcagggctaa taatgccggg gacgatgtct tcacagtctc ttgtcgagtt ctcacgagac
5701 catcccccga ttttgatttc atatttctgg tgccaccctc agttgaatca agaactaaac
5761 cattctctat cccaatttta actgttgagg agatgaccaa ttcaaggttc cccattcccc
5821 tggaaaggct gttcacgggc cccagcaatg cctttgttgt tcaaccacaa aatggcaggt
5881 gcacgattga tggcgtgctc caaggtacca cccaactgtc ccctgtcaac atctgcactt
5941 tcagagggga tgtcacccac atctcaggca gtcgtaacta cacaatgaat ttggcctccc
6001 aaaactggaa cagttacgac ccaacagaag aaatcccagc ccctctggga actccagatt
6061 tcgtggggaa gatccaaggt atgctcaccc agaccacaag gtcagatggc tcgactcgtg
6121 cccacagagc cacagtgtac actgggagcg ccgacttttc tccaaaactg ggcagaatcc
6181 aatttgccac tgacacagaa aatgattttg aaaccaacca aaacacaaag ttcaccccag
6241 tcggtgtcat ccaggatggc ggcaccaccg cccgaaatga accccaacaa tgggtgctcc
6301 caagctactc gggcagaagc actcacaacg tgcacctggc tcccgctgtg gcccccacct
6361 tcccgggcga gcagctcctc ttcttcagat ccaccatgcc cggatgcagc gggtacccca
6421 acatggattt ggactgcctg ctccctcagg agtgggtgca gcacttctac caagaggcag
6481 ccccagcaca atctgatgtg gctttgttga gatttgtgaa tccagataca ggcagagttt
6541 tgtttgagtg caagcttcat aaatcaggct atgttacagt ggctcacact ggtcaacatg
6601 atttggttat cccccccaat ggctatttta gatttgattc ctgggtcaat cagttctaca
6661 cgcttgcccc catgggaaat ggaacggggc gcagacgtgc attgtaatgg ctggagccgc
6721 cattgctgga ttggcatctg acgtccttag ctctggactt ggttccctaa tcaatgctgg
6781 ggctggggtc atcaaccaaa aagttgattt tgagaataac agaaaattgc agcaagattc
6841 cttccaattt agtagtaaat tgcagcaggc ttcctttcaa catgacaaag agatgctcca
6901 atcacaaatt gaggccacca aaaggttgca acaggaattg atgaagctca agcaagcaat
6961 gctcctagag ggtggattct ctgggacaga cgcagctcgt ggggcaatca acgctcccat
7021 gacaaaagct ctggactgga gcgggacaag gtactgggct cccgatgcta ggaccacaac
7081 atccaatgca ggccgcttct ctacccccca accctcgggg gcgctgccag gaagagctag
7141 ggctgccgcc cccacccggg gttcctccag catgtcttct aactcccctt ctgctacctc
7201 tgtgtattca aatcaaacca cttcaacgag gcttagttct acagctggtt ctggaactag
7261 tgtctcgagc ctcccgtcaa ctgcaaggac taggagttgg gtcgagggtc agaatagggg
7321 tttcacccca ccatctagca gatcctccag ccaaggcaca gtctcaaccg tgcccaaaga
7381 agttttggac tcctggactg gcgctttcaa cacgcgcagg cagcctctct tcgcccacat
7441 ccgcaggcga ggggagtcac gggtgtaaag tgaaaagac
//