Typing tool
|
|
|
|
|
|
Typing tool
|
Complete norovirus genomes
| MW581008 | GII.4 Yerseke | |
|
|---|---|---|---|
| GII.P4 New Orleans |
ORF1: 5..5104
ORF2: 5085..6707
ORF3: 6707..7468
LOCUS MW581008 7479 bp RNA linear VRL 01-MAR-2022
DEFINITION Norovirus GII isolate Hu/NL/2018/GII.4[P4]/Rotterdam/17008
nonstructural polyprotein (ORF1), VP1 (ORF2), and VP2 (ORF3) genes,
complete cds.
ACCESSION MW581008
VERSION MW581008.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norovirus norwalkense.
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JOURNAL Unpublished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/2018/GII.4[P4]/Rotterdam/17008"
/isolation_source="feces"
/host="Homo sapiens"
/db_xref="taxon:122929"
/geo_loc_name="Netherlands"
/collection_date="06-Feb-2018"
/note="genotype: GII.4[P4]"
gene 5..5104
/gene="ORF1"
CDS 5..5104
/gene="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="QRI43760.1"
/translation="MKMASNDAFTAAVANSNNDNTKSSSDGVFSNMAVTFKRALGARP
KQPPPREKPQRPPRPPTPELVKNIPPPPPNGEDEMVVSYSVKDGVSGLPDLSTVRQPE
ETNTAFSVPPLNQRENRDAKEPLTGTILEMWDGEIYHYGLYVERGLVLGVHKPPAAIS
LAKIELTPLSLYWRPVYTPQYLISPDTLKRLSGETFPYVAFDNNCYTFCCWVLDLNDS
WLSRRMIQRTTGFFRPYQDWNRKPLPTMDDSKIKKVANIFMCALSSLFTRPIKDIIGK
IKPLNILNILASCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPED
LAVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFP
KKEEANELAIVRSIEDAVLDLEAIENNHMTTLLKDKDTMATYMRVLDLEEEKARKLST
KSASPDIVGTINALLARIAAARSLVHRAKEELSSRPRPVVLMISGKPGIGKTHLAREM
ARKIAASLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTC
PLTLNCDRIENKGKVFDSDVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEK
AKRDFPGQPDMWKNAFSSDFTHIKLTLAPQGGFDKNGNTPHGKGVMKTLTTGSLIARA
SGLLHERLDEFELQGPALTTFNFDRNKVLAFRQLAAENKYGLMDTMRVGKQLKDVRTM
PELKQAIKNISIKKCQIVYGGCTYILESDGKGNVKVDRVQSAAVQTNNELAGALHHLR
SARIRYYVKCVQEALYSIIQIAGAAFVTSRIAKRMNIQNLWSKPQVEDTEEITSEDGC
PKPKDEEEFVVSADDIKPEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNG
KYSIEEYLQDRDKYYEELAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERVSLGLV
TGSEIRKRNPDDFKPKGKLWADDDRGVDYNEKLSFEAPPSIWSRIVNFGSGWGFWVSP
SLFITSTHVIPQGAKEFFGVPIKQIQVHKSGEFCRLRFPKPIRTDVTGMILEEGAPEG
TVVSLLIKRPTGELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGD
CGCPYIYKRGNDYVVIGVHTAAARGGNTVICATQGSEGEATLEGGDNKGTYCGAPILG
PGSAPTLSTKTKFWRSSTAPLPPGTYEPAYLGGKDPRVKGGPSLQQVMREQLKPFTEP
RGKPPKPSVLEAAKKTIINVLEQTIDPPEKWSFAQACASLDKTTSSGHPHHVRKNDCW
NGESFTGKLADQASKANLMYEEGKNMTPVYTAALKDELVKTDKIYGKIKKRLLWGSDL
ATMIRCARAFGGLMDELKAHCVTLPVRVGMNMNEDGPIIFERHSRYTYHYDADYSRWD
STQQRAVLEAALEIMVKFSPEPHLAQVVAEDLLSPSVVDVGDFTISINEGLPSGVPCT
SQWNSIAHWLLTLCALSEVTNLSPDIIQANSLFSFYGDDEIVSTDIKLDPEKLTTKLR
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="QRI43761.1"
/translation="MKMASSDANPSDGSSANLVPEVNNEVMALEPVAGAAIAAPVAGQ
QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
FEVQVILAGNAFTAGKIIFAAVPPNFPTEGLSPSQVTMFPHVITDVRQLEPVMIPLPD
VRNNFYHYNQTNDPTLKLVAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP
SVESRTKPFSIPILTVEEMTNSRFPIPLERLFTGPSNAFVVQPQNGRCTIDGVLQGTT
QLSPVNICTFRGDVTHISGSRNFTMNLASQNWNSYDPTEEIPAPLGTPDFVGKIQGML
TQTTRGDGSTRAHKATVYTGSAPFSPKLGRIQFETDTDRDLEANQNTKFTPVGVIQDG
GTAARNEPQQWVLPSYSGRSTHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD
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="QRI43762.1"
/translation="MAGAAIAGLASDVLSSGLGSLINAGAGVINQKVDFENNRKLQQD
SFQFSSKLQQASFQHDKEMLQSQIEATKRLQQELMKLKQAMLLEGGFSGTDAARGAIN
APMTKALDWSGTRYWAPDARTTTSNAGRFSTPQPSGALPGRARAAAPTRGSSSMSSIS
SSATSVYSNQTTSTRLSSTAGSGTSVSSLPSTARTRSWVEGQNRGFTPPSSRSSSQGT
VSTVPKEVLDSWTGAFNTRRQPLFAHIRRRGESRV"
ORIGIN
1 gtgaatgaag atggcgtcta acgacgcttt caccgccgct gttgccaaca gcaacaacga
61 caacacaaaa tcttcaagtg acggagtgtt ttctaacatg gctgtcacct ttaaacgagc
121 cctcggggcg cggcctaaac agcccccccc gagggaaaaa ccccaaagac ccccacgacc
181 gcctacccca gagctggtca aaaacatccc ccctccccca cccaacgggg aggacgaaat
241 ggtggtttct tacagtgtca aagatggtgt ctccggcttg cctgaccttt ccaccgtcag
301 gcaaccggaa gagaccaaca cggcatttag tgtccctcca ctcaatcaga gggagaatag
361 agatgctaag gagccactca ctggaacaat tctggaaatg tgggacgggg agatctatca
421 ctatggcctg tacgtggaac gaggtcttgt actaggtgta cacaaaccac cagctgctat
481 cagccttgct aagattgagc taacaccact ctccttgtac tggagacctg tgtacacccc
541 tcagtacctc atctctccgg acaccctcaa gagattgtcc ggagaaacgt tcccctacgt
601 ggcctttgac aacaactgtt acaccttctg ttgctgggtc ctggatctga atgattcgtg
661 gctgagcagg agaatgattc agagaacaac tggcttcttc aggccctacc aagattggaa
721 taggaaaccc ctccccacta tggatgactc caaaataaag aaggtggcca acatattcat
781 gtgtgctctg tcctcgcttt tcaccaggcc 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 ggtgctagga ttcaccaaag agaagattgg
1081 gaaaatgctg tcatcagcag cgtccacctt gagagcttgc aaagaccttg gtgcatatgg
1141 actagagatc ctaaagctgg ttatgaaatg gttcttcccg aagaaggagg aggcgaatga
1201 gctggctata gtgaggtcca ttgaggacgc agtcctggac ctcgaggcaa ttgaaaacaa
1261 ccatatgacc accttgctca aggacaaaga cactatggca acctacatga gggtgcttga
1321 cctcgaagag gagaaagcca ggaaactctc aaccaagtcc gcctcacccg acatcgtggg
1381 cacaatcaac gctctcctgg cgagaattgc tgccgcacgt tctctggtgc atcgtgcaaa
1441 ggaggagctt tccagcagac caaggcctgt ggtgttgatg atatcaggca agccaggaat
1501 agggaagacc cacctcgcta gggagatggc caggaagatc gcagcctccc ttacaggaga
1561 ccaacgcgtg ggcctcatcc cacgcaatgg tgtcgaccat tgggacgcgt acaagggaga
1621 gagagtagtc ctatgggacg actatggaat gagcaaccct attcatgatg ctctcaggct
1681 gcaagaactc gctgacacct gccccctcac tctgaactgt gacaggattg aaaacaaagg
1741 aaaggtcttt gacagtgatg tcatcattat caccactaat ctggccaacc cagcaccact
1801 ggattatgtc aactttgaag catgttcgag gcgtatcgac ttcctcgtgt atgcagaagc
1861 ccctgaagtt gaaaaggcga agcgtgactt cccaggccag cctgacatgt ggaagaacgc
1921 cttcagttcc gacttcacac acataaagct gacactggcc ccacagggtg gtttcgacaa
1981 gaacgggaac accccacacg ggaagggcgt catgaaaacc ctcaccactg gctccctcat
2041 tgcccgggca tcagggctgc tccatgagag gttagatgaa tttgagctac aaggcccagc
2101 tctcaccacc ttcaatttcg atcgcaacaa agtgctcgcc ttcagacaac ttgctgctga
2161 gaacaaatat ggactgatgg acacaatgag ggtcgggaaa caactcaagg atgtcaggac
2221 catgccagag ctcaaacaag caatcaaaaa catttcaatc aagaaatgcc aaatagtgta
2281 tggtggttgc acctacattc ttgagtctga tggtaagggc aatgtgaagg tcgacagggt
2341 ccagagcgcc gccgtgcaga ccaacaacga gctggccggt gccctgcacc atttgaggag
2401 cgctagaatc aggtactatg tcaagtgtgt ccaagaagcc ctgtattcca tcatccaaat
2461 tgctggggct gcattcgtca cctctcgcat cgccaagcgc atgaacatac aaaatctgtg
2521 gtccaagcca caggtggaag acacagagga gatcaccagc gaggacgggt gcccaaagcc
2581 taaggacgaa gaggagttcg tcgtttcagc cgacgacatc aaacccgagg gcaagaaggg
2641 gaagaacaag actggtcgcg gcaagaagca cacggcattc tcaagcaaag gcctcagtga
2701 tgaagagtac gacgagtaca agaggatcag agaagaaagg aatggcaagt actccataga
2761 agaatacctt caggacaggg acaagtacta tgaggagttg gccatagcca gggcgactga
2821 ggaagacttc tgtgaagagg aggaggccaa gatccggcaa aggatcttca gaccaacaag
2881 aaaacaacgc aaggaggaaa gagtctctct cggtctggtc acaggctctg aaatcaggaa
2941 gaggaaccca gatgacttca agcccaaggg gaaattgtgg gctgacgatg acaggggtgt
3001 ggactataat gagaaactca gttttgaggc cccaccaagc atctggtcga ggatagtcaa
3061 ctttggttca ggctggggat tctgggtctc ccctagtctg ttcataacat caacccatgt
3121 cataccccag ggtgcaaagg agttctttgg agtgcccatc aaacaaatac aggtgcacaa
3181 gtcaggcgag ttctgtcgct tgaggttccc aaaaccaatc aggactgatg tgacgggcat
3241 gatcttagaa gagggcgcac ctgagggcac cgtggtctca ctactcatca agaggcccac
3301 tggggagctc atgcccctgg cagctaggat ggggacccat gcgaccatga agatccaagg
3361 gcgcactgtt ggaggccaga tgggcatgct cctgacggga tccaacgcca agagcatgga
3421 cctgggcact acaccaggtg actgtggctg cccctatatc tacaagagag gtaatgacta
3481 tgtggtcatt ggagtccaca cggctgccgc acgtggagga aacactgtca tatgtgccac
3541 ccaggggagt gaaggagagg ccacacttga aggtggtgac aacaagggga catactgtgg
3601 tgcaccaata ttaggcccag ggagtgcccc aacactcagc accaaaacca aattttggag
3661 gtcgtccaca gcaccgctcc cacctggcac ctatgaacca gcctatcttg gtggcaagga
3721 ccctagagtc aaaggtggcc cttcactgca gcaagtcatg agagaacagc tgaagccatt
3781 cacagaacca aggggcaaac caccaaagcc aagtgtgctg gaggccgcca agaagaccat
3841 catcaatgtc cttgagcaaa cgattgaccc acccgagaaa tggtcgttcg cacaagcctg
3901 cgcgtccctt gacaagacca cttccagtgg tcatccgcac cacgtgcgga aaaacgactg
3961 ctggaacggg gagtccttca caggcaagtt agcagaccag gcttccaagg ccaacctgat
4021 gtatgaagaa gggaagaaca tgaccccagt ctacacagcc gcgctcaagg atgagctggt
4081 caagactgac aagatttatg gtaaaatcaa gaagaggctg ctctggggct cggacttggc
4141 gaccatgatc cggtgtgctc gagcgttcgg aggcctaatg gatgagctca aagctcactg
4201 tgtcacactc cccgttaggg ttggtatgaa tatgaatgag gatggcccca tcatcttcga
4261 gaggcactcc agatacacat accactatga tgctgactac tcacggtggg actcaacaca
4321 acagagggcc gtgttggaag cagctctaga aatcatggtc aaattctccc cagagccaca
4381 cttggctcag gtagtcgcag aagacctcct ttctcccagc gtggtggacg tgggcgactt
4441 cacaatatca atcaacgagg gtctcccctc gggggtgccc tgcacctccc aatggaactc
4501 catcgcccac tggctcctca ctctctgtgc gctctctgaa gtcacaaact tatcccctga
4561 catcatacag gccaactccc tcttctcctt ctacggagat gatgaaattg tcagcacaga
4621 cataaaattg gatccagaga aattgacaac aaagctcaga gagtacggat tgaaaccaac
4681 tcgccctgac aaaactgaag gacctcttgt catctctgaa gacctgaatg gcctgacctt
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 gccaggtcac tatgttcccc catgtgataa
5521 cagatgttag gcaattggaa cctgtgatga tccccctacc cgatgttagg aacaatttct
5581 accattacaa ccagacaaat gaccccaccc tcaaattggt agcaatgttg tacacaccac
5641 tcagggctaa taatgccggg gacgatgtct tcacagtctc ttgtcgagtt ctcacgagac
5701 catcccccga ttttgatttc atatttctgg tgccaccctc agttgaatca agaactaaac
5761 cattctctat cccaattcta actgttgagg agatgaccaa ttcaaggttc cccattcccc
5821 tggaaaggct gttcacgggc cccagcaatg cctttgttgt ccaaccacaa aatggcaggt
5881 gcacgattga tggcgtgctc caaggtacca cccaactgtc ccctgtcaac atctgcactt
5941 tcagagggga tgtcacccac atctcaggca gtcgtaactt cacaatgaat ttggcctccc
6001 aaaactggaa cagttacgac ccaacagaag aaatcccagc ccctctggga accccagatt
6061 tcgtggggaa gatccaaggc atgctcaccc aaaccacaag gggagatggc tcgacccgtg
6121 ctcacaaagc cacagtgtac actgggagcg cccccttttc cccaaaattg ggcagaatcc
6181 agtttgaaac cgacacggac cgtgaccttg aagccaacca aaacacaaag ttcaccccag
6241 tcggtgtcat ccaggatggc ggcaccgccg cccgaaatga accccagcaa tgggtgctcc
6301 caagctactc gggcagaagc actcacaacg tgcacctggc ccccgctgtg 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 atgtcacagt ggctcacact ggtcaacatg
6601 atttggttat cccccccaat ggctatttta gatttgattc ctgggtcaat cagttctaca
6661 cgcttgcccc catgggaaat ggaacggggc gcagacgtgc attgtaatgg ctggagccgc
6721 cattgctgga ttggcatccg atgtccttag ctctggactt ggttccctaa tcaatgctgg
6781 ggctggggtc atcaaccaaa aagttgattt tgagaacaac agaaaattgc agcaagattc
6841 cttccaattt agcagtaaat tgcagcaggc ttcctttcaa catgacaaag agatgctcca
6901 atcacaaatt gaggccacca aaaggttgca acaggaactg atgaagctca agcaagcaat
6961 gctcctagag ggcgggttct ctgggacaga cgcagctcgt ggggcaatca acgcccccat
7021 gacaaaagct ctggactgga gcgggacaag gtactgggct cccgatgcta ggaccacaac
7081 atccaatgca ggccgcttct ctacccccca accctcgggg gcgctgccag gaagagctag
7141 ggctgccgcc cccacccggg gttcctccag catgtcttct atctcctctt 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 tcgcaggcga ggggagtcac gggtgtaaag tgaaaagac
//