Typing tool
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Typing tool
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Complete norovirus genomes
| OL898516 | GII.4 Sydney | |
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| GII.P4 New Orleans |
ORF1: 5..5104
ORF2: 5085..6707
ORF3: 6707..7513
LOCUS OL898516 7568 bp RNA linear VRL 22-DEC-2021
DEFINITION Norovirus GII isolate Hu/US/2017/GII.4 Sydney[P4 New
Orleans]/Kansas0853, complete genome.
ACCESSION OL898516
VERSION OL898516.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7568)
AUTHORS Montmayeur,A.M., Selvarangan,R., Chhabra,P. and Vinje,J.
TITLE Direct Submission
JOURNAL Submitted (17-DEC-2021) Viral Gastroenteritis Branch, Centers for
Disease Control and Prevention, 1600 Clifton Road NE, Atlanta, GA
30329, USA
COMMENT ##Assembly-Data-START##
Assembly Method :: Geneious v. v. 11.1.2; SPAdes v. v. 3.6
Sequencing Technology :: Illumina
##Assembly-Data-END##
FEATURES Location/Qualifiers
source 1..7568
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="Hu/US/2017/GII.4 Sydney[P4 New
Orleans]/Kansas0853"
/isolation_source="stool"
/host="Homo sapiens"
/db_xref="taxon:122929"
/country="USA"
/collection_date="02-Feb-2017"
/note="genotype: GII.4 Sydney[P4 New Orleans]"
gene 5..5104
/gene="ORF1"
CDS 5..5104
/gene="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="UHB38543.1"
/translation="MKMASNDASAAAVANSNNDTAKSSSDGVLSSMAVTFKRALGARP
KQPPPREKPQRPPRPPTPELVKNIPPPPPNGEDEIVVSYSVKDGVSGLPDLSTVRQPE
ESNTAFSVPPLNQRENRDAKEPLTGTILEMWDGEIYHYGLYVERGLVLGVHRPPAAIS
LAKVELAPLSLYWRPVYTPQYLISPDTLKKLSGETFPYTAFDNNCYAFCCWVLDLNDS
WLSRRMIQRTTGFFRPYQDWNRKPLPTMDDSKIKKVANIFLCALSSLFTRPIKDIIGK
IRPLNILNILASCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPED
LAVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFP
KKEEANELAIVRSIEDAVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARKLST
KSASPDIVGTINALLARIAAARSLVHRAKEELSSRPRPVVLMISGRPGIGKTHLAREV
AKRIAASLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTC
PLTLNCDRIENKGKVFDSDVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEK
AKRDFPGQPDMWKNAFSSDFSHIKLALAPQGGFDKNGNTPHGKGVMKTLTTGSLIARA
SGLLHERLDEFELQGSALTTFNFDRNKVLAFRQLAAENKYGLMDTMRVGKQLKDVRTM
PELKQALKNVSIKKCQIVYSGCTYMLESDGKGNVKVDRIQSAAVQTNNELAGALHHLR
CARIRYYVKCVQEALYSIIQIAGAAFVTTRIAKRMNIQDLWSKPQVENTEETTSRDGC
PKPKDDEEFVISSDDIKTEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNG
KYSIEEYLQDRDKYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERVSLGLV
TGSEIRKRNPDDFKPKGKLWADDDRSVDYNEKLSFEAPPSIWSRIVNFGSGWGFWVSP
SLFITSTHVIPQGAKEFFGVPIKQIQVHKSGEFCRLRFPKPIRTDVTGMILEEGAPEG
TVVTLLIKRSTGELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGD
CGCPYIYKRGNDYVVIGVHTAAARGGNTVICATQGSEGEATLEGGDNKGTYCGAPILG
PGSAPTLSTKTKFWRSSTASLPPGTYEPAYLGGKDPRVKGGPSLQQVMREQLKPFTEP
RGKPPKPSVLEAAKKTIINVLEQTIDPPEKWSFAQACASLDKTTSSGHPHHMRKNDCW
NGESFTGKLADQASKANLMFEEGKNVTPVYTAALKDELVKTDKIYGKIKKRLLWGSDL
ATMIRCARAFGGLMDELKAHCVTLPIRVGMNMNEDGPIIFERHSRYTYHYDADYSRWD
STQQRAVLAAALEIMVKFSPEPHLAQVVAEDLLSPSVVDVGDFTISINEGLPSGVPCT
SQWNSIAHWLLTLCALSEVTNLSPDTIQANSLFSFYGDDEIVSTDIRLDPEKLTAKLR
EYGLKPTRPDKTEGPLVISEDLNGLTFLRRTVTRDPAGWFGKLEQSSILRQIYWTRGP
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="UHB38544.1"
/translation="MKMASSDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ
QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
FEVQVILAGNAFTAGKVIFAAVPPNFPTEGLSPSQVTMFPHIVVDVRQLEPVLIPLPD
VRNNFYHYNQSNDPTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT
QLSPVNICTFRGDVTHITGSRNYTMNLASQNWNNYDPTEEIPAPLGAPDFVGKIQGML
TQTTRADGSTRGHKATVYTGSADFAPKLGRVQFETDTDRDFEANQNTKFTPVGVIQDG
STTHRNEPQQWVLPSYSGRNTHNVHLAPAVAPTFPGEQILFFRSTMPGCSGYPNMDLD
CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV
IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRVV"
gene 6707..7513
/gene="ORF3"
CDS 6707..7513
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="UHB38545.1"
/translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVDFENNRKLQQA
SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQEMMKVKQALLLEGGFSETDAARGAIN
APMTKALDWSGTRYWAPDARTTTYNAGRFSTPQPSGALPGRANLRDTVPARGSSSKSP
NPSTATSVYSNQTTSTRLGSTAGSGTSVSSLPSTARTRSWVEDQSRNLSPFMRGAHNI
SFVTPPSSKSSSQGTVSTVPKEVLDSWTGAFNTRRQPLFAHIRKRGESRA"
ORIGIN
1 gtgaatgaag atggcgtcta acgacgcttc cgctgccgct gttgctaaca gcaacaacga
61 caccgcaaaa tcttcaagtg acggagtgct ttctagcatg gctgtcactt ttaaacgagc
121 cctcggggcg cggcctaaac agccaccccc gagggaaaaa ccacaaagac ccccgcgacc
181 acctactcca gaactggtta agaatatccc ccctccccca cccaacggag aggatgaaat
241 agtggtctct tatagtgtca aagatggtgt ttccggcttg cctgaccttt ctaccgtcag
301 gcaaccggaa gagtctaaca cggccttcag tgtccctcca ctcaatcaga gggagaatag
361 agatgctaag gagccactca ctgggacaat cctggaaatg tgggacgggg aaatctacca
421 ttatggcctg tatgtggagc gaggtcttgt actaggtgtg cacagaccgc cagctgccat
481 cagccttgct aaggttgagc tggcaccact ctccttgtac tggagacctg tgtacactcc
541 tcagtacctc atctctccag acactctcaa gaaattgtcc ggagagacgt tcccctatac
601 agcctttgat aacaactgtt atgccttttg ttgctgggtt ctggacctaa atgactcgtg
661 gctgagtaga aggatgatcc agagaacgac tggtttcttc aggccctacc aggactggaa
721 taggaaaccc cttcctacta tggatgactc caaaataaag aaggtagcta acatatttct
781 gtgtgccctg tcctcgctat tcaccagacc cataaaagac ataataggga agataaggcc
841 tcttaatatc ctcaacatct tggcctcatg tgactggacc ttcgcgggta tagtggagtc
901 tctgatactc ttggcagaac tctttggagt cttctggaca cccccagatg tgtctgcgat
961 gattgccccc ttacttggtg actacgagct acaaggacct gaggaccttg cagtggagct
1021 cgtccccgtg gtgatggggg gaattggttt ggtgctagga ttcaccaaag agaagattgg
1081 gaaaatgttg tcatctgctg cgtccactct gagagcttgc aaagaccttg gtgcatatgg
1141 gctagagatc ctaaagttag tcatgaagtg gttcttccca aagaaggagg aggcaaatga
1201 gctggctata gtgaggtcca ttgaggacgc agtcctggat ctcgaggcaa ttgaaaacaa
1261 tcatatgacc accttgctta aagataaaga cagcctggca acctacatga ggacacttga
1321 ccttgaagag gagaaagcca ggaaactctc aaccaagtct gcctcacctg acatcgtggg
1381 tacaatcaac gccctcctag cgagaattgc tgccgcacgt tctctggtgc atcgagcgaa
1441 ggaggagctt tccagcagac caagacctgt ggtgttgatg atatcaggca gaccaggaat
1501 agggaagacc cacctcgcta gggaagtggc taagagaatc gcagcctccc ttacagggga
1561 ccagcgtgtg ggcctcattc cacgcaatgg tgtcgaccat tgggatgcgt acaaggggga
1621 gagggtcgtc ctgtgggacg attatggaat gagcaaccct attcacgatg ccctcaggct
1681 tcaagaactc gctgacactt gtcccctcac tctgaactgt gacaggattg aaaataaagg
1741 aaaggtcttt gacagcgatg tcatcattat caccactaac ctggccaacc cagcaccact
1801 ggactatgtc aactttgaag catgctcgag gcgcattgac ttcctcgtgt atgcagaagc
1861 ccctgaagtc gaaaaggcga agcgtgactt cccaggccag cctgacatgt ggaagaacgc
1921 tttcagttct gatttctcac acataaaact agcactggcc ccacaaggtg gtttcgataa
1981 gaacggaaac accccacacg gaaagggcgt catgaagacc ctcaccactg gctcccttat
2041 tgcccgggca tcagggctac tccatgagag gttggatgaa tttgaactgc agggttcggc
2101 tcttaccacc ttcaatttcg accgcaataa agtgcttgcc tttagacagc ttgctgctga
2161 aaacaagtat ggattgatgg acacaatgag ggttgggaaa cagctcaagg atgtcagaac
2221 catgccagaa ctcaaacaag cactcaagaa tgtctcaatc aagaagtgcc aaatagtgta
2281 tagtggttgc acttacatgc ttgagtctga tggcaagggc aatgtgaaag ttgacagaat
2341 ccaaagtgcc gccgtgcaga ccaacaatga gctggctggt gccctacacc acttgaggtg
2401 cgccagaatc agatactatg tcaagtgtgt ccaggaagcc ctgtattcca tcatccaaat
2461 cgctggggct gcatttgtca ccacgcgcat tgccaagcgc atgaacatac aagacctatg
2521 gtccaagcca caagtggaaa acacagagga gactaccagc agggacgggt gcccaaaacc
2581 taaggatgat gaggagttcg tcatttcatc cgacgacatc aaaactgagg gcaagaaagg
2641 gaagaacaag actggccgtg gcaagaagca cacagcattt tcaagcaaag gcctcagtga
2701 tgaagagtat gatgaataca agaggattag agaagaaagg aatggcaagt actctataga
2761 agaatacctc caggacaggg acaaatacta tgaggaggtg gccattgcca gggcgactga
2821 ggaagacttc tgtgaagagg aggaggccaa gatccggcaa aggatcttta gaccaacaag
2881 gaaacaacgc aaggaggaaa gagtctctct tggcctggtc acaggctctg aaattaggaa
2941 aagaaaccca gatgacttca aacccaaggg gaagttgtgg gctgacgatg acaggagtgt
3001 ggactacaat gagaaactca gctttgaggc cccaccaagc atttggtcga gaatagtcaa
3061 ctttggttca ggctggggat tctgggtctc ccccagtctg ttcataacat caacccatgt
3121 cataccccaa ggcgcaaagg agttctttgg agtccccatc aaacaaatac aggtgcacaa
3181 gtcaggcgag ttctgtcgct tgagattccc taaaccaatc aggactgatg tgacgggcat
3241 gatcttggaa gaaggcgcac ctgagggcac cgtggtcaca ctactcatca aaaggtccac
3301 tggggaactc atgcccctag cagctaggat ggggacccat gcgaccatga agatccaagg
3361 gcgcactgtt ggaggccaga tgggcatgct tctgacaggg tccaatgcca agagcatgga
3421 cctgggtact acaccaggtg attgtggctg cccctacatc tacaagagag gtaatgacta
3481 tgtggtcatt ggagtccaca cggctgccgc acgtggggga aacactgtca tatgtgccac
3541 ccaagggagt gaaggggagg ctacgcttga gggtggtgac aacaaaggga catactgtgg
3601 tgcaccaatc ctaggcccag ggagtgcccc aactcttagc accaagacca aattctggag
3661 atcgtccaca gcatcacttc cacctggcac ctatgaacca gcctaccttg gtggcaagga
3721 ccctagagtc aagggtggcc cttcactgca gcaagtcatg agggaacagt tgaagccgtt
3781 cacagagccc aggggcaagc caccaaaacc aagtgtatta gaagctgcca agaagaccat
3841 cattaacgtc cttgagcaaa caattgatcc acctgagaaa tggtcgttcg cacaagcttg
3901 cgcgtccctt gacaagacca cttccagtgg ccatccgcac cacatgcgga aaaacgactg
3961 ctggaacggg gagtccttca caggcaagct ggcagaccag gcttccaagg ccaacctgat
4021 gtttgaagaa gggaagaacg tgaccccagt ctacacagct gcactcaagg atgagttagt
4081 taaaactgac aaaatttatg gtaagatcaa gaagaggctt ctctggggct cggatttggc
4141 aaccatgatt cggtgtgctc gagcattcgg aggcctaatg gatgaactca aagcgcactg
4201 tgtcacactc cccattagag ttggcatgaa tatgaatgag gatggcccca tcatcttcga
4261 gaggcattcc aggtacacgt accactacga tgctgactac tctcggtggg attcaacaca
4321 acagagagcc gtgttggcag cagctctaga aatcatggtt aaattctccc cagaaccaca
4381 tttggctcag gtagtcgcgg aagaccttct ttcccccagt gtggtggacg tgggcgactt
4441 cacaatatca atcaatgagg gtcttccctc tggggtgccc tgcacctccc aatggaactc
4501 catcgcccac tggcttctca ctctctgtgc gctctctgaa gtcacaaacc tgtctcctga
4561 taccatacag gctaattccc tcttctcttt ttatggtgat gatgaaattg ttagcacaga
4621 cataagattg gacccagaga aactgacagc aaaactcaga gaatatgggt taaaaccaac
4681 ccgccctgac aaaactgaag gaccccttgt catctctgaa gacctgaatg gtctaacttt
4741 cctgcggaga actgtgaccc gcgacccagc tggttggttt ggaaaactgg agcagagttc
4801 aatactcagg caaatctact ggactagggg tcccaaccat ggagacccat ctgaaacaat
4861 gattccacac tcccaaagac ccatacaatt gatgtcccta ctgggggagg ccgctctcca
4921 cggcccagca ttttacagca aaatcagcaa attggtcatt gcagagctaa aagaaggtgg
4981 tatggatttt tacgtgccca gacaagagcc aatgttcaga tggatgagat tctcagatct
5041 gagcacgtgg gagggcgatc gcaatctggc tcccagcttt gtgaatgaag atggcgtcga
5101 gtgacgccaa cccatctgat gggtccgcag ccaacctcgt cccagaggtc aacaatgagg
5161 tcatggctct ggagcccgtt gttggtgccg ccattgcggc acctgtagcg ggccaacaaa
5221 atgtaattga cccctggatt agaaacaatt ttgtacaagc ccctggtgga gagtttacag
5281 tgtcccctag aaacgctcca ggtgaaatac tatggagcgc gcccttaggc cctgatctaa
5341 atccctacct atcccatttg gccagaatgt ataatggtta tgcaggtggt tttgaagtgc
5401 aggtaattct cgcggggaac gcgttcaccg ccgggaaggt catatttgca gcagtcccac
5461 caaattttcc aactgaagga ttgagcccca gccaggtcac tatgttcccc catatagtag
5521 tagatgttag gcaactagaa cctgtgttga ttcccctacc cgatgttagg aataatttct
5581 accattacaa ccaatcaaat gaccccacca ttaagttgat agcaatgttg tatacaccac
5641 ttagggccaa taatgccggg gacgatgtct tcacagtttc ttgccgagtt ctcacaagac
5701 catcccccga ttttgatttc atatttttag tgccacccac agttgagtca agaactaaac
5761 cattctctgt cccagttcta actgttgagg agatgaccaa ttcaagattc cccatccctt
5821 tggaaaagtt gttcacgggt cccagcagtg cctttgttgt tcaaccacaa aacggcaggt
5881 gcacgactga tggcgtgctc ctaggcacca cccaactgtc tcctgtcaac atctgcacct
5941 tcagagggga tgtcacccat atcacaggca gtcgtaatta cacaatgaat ttggcttctc
6001 aaaattggaa caattatgac ccaacagaag aaatcccagc ccctctagga gctccagact
6061 ttgtggggaa gatccaaggc atgctcaccc aaaccacgag ggctgatggt tcaacacgcg
6121 gccacaaagc cacagtgtac actgggagcg ccgactttgc tccaaaactg ggtagagtcc
6181 aatttgaaac tgacacagac cgtgattttg aagctaacca aaatacaaag ttcaccccag
6241 tcggtgtcat ccaagatggt agcaccaccc accgaaatga accccaacag tgggtgctcc
6301 caagttactc aggcagaaat actcataatg tgcatttggc ccccgctgta gcccccactt
6361 ttccgggtga gcaaattctc ttcttcagat ccaccatgcc cggatgcagc gggtatccca
6421 acatggattt ggactgtctg ctcccccagg aatgggtgca gtacttctac caagaggcag
6481 ccccagcaca atctgatgtg gctctgctaa gatttgtgaa tccagataca ggtagggttt
6541 tgtttgagtg taagcttcat aaatcaggct atgttacagt ggctcacact ggccaacatg
6601 atttggttat cccccccaat ggttatttta ggtttgattc ttgggtcaac cagttctaca
6661 cgcttgcccc catgggaaat ggaacggggc gtagacgtgt agtataatgg ctggagcttt
6721 ctttgctgga ttggcatctg atgtccttgg ctctggactt ggttccctca tcaatgctgg
6781 ggctggggcc atcaaccaaa aagttgattt tgaaaataac agaaaattac aacaggcatc
6841 cttccaattt agcagcaatc tgcaacaggc ttcctttcaa catgacaaag agatgctcca
6901 agcacaaatt gaggccacca aaaagctaca acaggaaatg atgaaagtta agcaggcatt
6961 gctcctagag ggtgggttct ctgagacaga tgcagcccgc ggggcaatta acgctcccat
7021 gacaaaagct ttggactgga gcgggacaag gtactgggct cccgatgcta ggactacaac
7081 atataatgca ggccgctttt ccacccctca accatcgggg gcactgccag gaagagctaa
7141 tcttagggat actgtccctg ctcggggttc ctctagtaaa tcccctaacc cttctactgc
7201 cacttctgtg tactcaaatc aaaccacttc aacgagactt ggttctacag ctggttctgg
7261 caccagtgtc tcgagcctcc cgtcaactgc aaggactagg agctgggttg aggatcaaag
7321 taggaatttg tcacctttca tgaggggggc ccacaacata tcgtttgtca ccccaccatc
7381 tagcaaatcc tctagccaag gcacagtctc aaccgtgcct aaagaggttt tggactcctg
7441 gactggcgct ttcaacacgc gcagacagcc tctcttcgct cacattcgta agcgagggga
7501 gtcacgggcg taatgtgaaa agacaaaatt gattatcttt ctctcttttt ctttctttag
7561 tgtctttt
//