Typing tool
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Typing tool
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Complete norovirus genomes
| MK753018 | GII.4 Sydney | |
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| GII.P16 |
ORF1: 1..5053
ORF2: 5034..6656
ORF3: 6656..7462
LOCUS MK753018 7480 bp RNA linear VRL 11-APR-2019
DEFINITION Norovirus GII isolate Hu/US/2017/GII.P16-GII.4 Sydney/Clackamas0373
nonstructural polyprotein (ORF1) gene, partial cds; and VP1 (ORF2)
and VP2 (ORF3) genes, complete cds.
ACCESSION MK753018
VERSION MK753018.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norovirus norwalkense.
REFERENCE 1 (bases 1 to 7480)
AUTHORS Barclay,L., Cannon,J.L., Wikswo,M.E., Phillips,A., Browne,H.,
Montmayeur,A.M., Tatusov,R.L., Burke,R.M., Hall,A.J. and Vinje,J.
TITLE Emergence and characterization of multiple viruses associated with
a novel GII.P16 polymerase in the United States, 2015-2018
JOURNAL Unpublished
REFERENCE 2 (bases 1 to 7480)
AUTHORS Barclay,L., Cannon,J.L., Tsaknaridis,L.J., Montmayeur,A.M.,
Tatusov,R.L., Chhabra,P. and Vinje,J.
TITLE Direct Submission
JOURNAL Submitted (04-APR-2019) Division of Viral Diseases, Centers for
Disease Control and Prevention, 1600 Clifton Road NE, Atlanta, GA
30329, USA
COMMENT ##Assembly-Data-START##
Assembly Method :: Geneious v. R10; SPAdes v. 3.6
Sequencing Technology :: Illumina
##Assembly-Data-END##
FEATURES Location/Qualifiers
source 1..7480
/organism="Norovirus GII"
/mol_type="genomic RNA"
/strain="Clackamas0373"
/isolate="Hu/US/2017/GII.P16-GII.4 Sydney/Clackamas0373"
/isolation_source="stool"
/host="Homo sapiens"
/db_xref="taxon:122929"
/geo_loc_name="USA"
/collection_date="29-Jul-2017"
/note="genotype: GII.P16-GII.4 Sydney"
gene <1..5053
/gene="ORF1"
CDS <1..5053
/gene="ORF1"
/codon_start=2
/product="nonstructural polyprotein"
/protein_id="QBS47714.1"
/translation="NNDKEKSSGEGLFTNMSSTLKKALGARPKQPAPRDEPQKPPRPP
TPELVKRIPPPPPNGEEEGEPVIRYEVKSGISGLPELTTVPQPDVANTAFSVPPLSLR
ENREAKEPLTGAILEMWDGEIYHYGLYVEKGLVLGVHKPPAAISMARVELTPLSLYWR
VVYTPQYLISPETLRRLNGEAFPYTAFDNNCYAFCCWVLDLNDSWLSRRMVQRTTGFF
RPYQEWNRKPLPTMDDSKIKKVANIFLCSLSTLFTRPIKDLIGKIKPLNILNILATCD
WTFAGIVESLILLAELFGAFWTPPDVSAMIAPLLGDYELQGPEDLAVELVPVVMGGIG
LVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFPKKEEANELAMVRAI
EDAVLDLEAIENNHMTTLLKDKDSLATYMKTLDMEEEKARRLSTKSASPDIVGTINAL
LARIAAARSLVHRAKEELSSRMRPVVVMISGKPGIGKTHLAREVARKVAATLTGDQRV
GLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRIQELADTCPLTLNCDRIENKGK
VFDSEVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEKAKRDFPGQPDMWKD
AFKPDFSHIKLQLAPQGGFDKNGNTPHGKGVMKTLTTGSLIARASGLLHERMDEFELQ
GPTTTTFNFDRNRITAFRQLAAENKYGLVDTMKVGNQLKGVKTMEELKQAIRNVTIKR
CRIIYGGSTYDLESDGKGKVLVEKVKNTSVQTNNELAGALHHLKHARIRYYVKCVQEA
VYSIIQIAGAAFVTTRIARRMNIQELWSKPQLDQNESETKEETPKSEDDEFIISSKDI
KEEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKYSIEEYLQDRDRYYE
ELAIAKATEEDFCEEEEIKIRQRIFRPTRKQRKEERATLGLVTGSEIRKRNPDDFKPK
GKLWADDNRSVDYNEKLDFEAPPSIWSRIVSFGSGWGFWVSPSLFITSTHVIPAGITE
AFGVPIKQIQIHKSGEFCRFRFPKPIRPDVTGMILEEGAPEGTVATVLIKRPTGELMP
LAARMGTHATMKIQGRMVGGQMGMLLTGSNAKGMDLGTTPGDCGCPYIYKRGNDYIAI
GVHTAAARGGNTVICATQGSEGEATLEGGDDKGTYCGAPILGPGGAPKLSTKTKFWRS
SNTPLPPGTYEPAYLGGRDPRVKGGPSLQQVMRDQLKPFTEPRGKPPRPSVLEAAKQT
IINVLEQTLDPPQKWSYAQACASLDKTTSSGHPHHARKNEFWNGETFTGKLADQASKA
NLMFEEGKHMTPVYTAALKDELVKTEKIYGKVKKRLLWGSDLSTMVRCARSFGGLMDE
MKAHCISLPVRVGMNMNEDGPIIFEKHSRYKYHYDADYSRWDSTQQRAVLASALEIMV
RFSAEPQLAQIVAEDLLAPSVVDVGDFKITINEGLPSGVPCTSQWNSIAHWLLTLCAL
SEVTKLSPDIIQANSMFSFYGDDEIVSTDIKLDPEQLTAKLKEYGLKPTRPDKTEGPL
IISEDLNGLTFLRRTVTRDPAGWFGKLDQGSILRQMYWTRGPNHEDPNETMIPHSQRP
IQLMALLGEASLHGPSFYSKISKLVITELKEGGMDFYVPRQEPMFRWMRFSDLSTWEG
DRNLAPNFVNEDGVE"
mat_peptide <1..949
/gene="ORF1"
/product="p48"
mat_peptide 950..2047
/gene="ORF1"
/product="NTPase"
mat_peptide 2048..2578
/gene="ORF1"
/product="p22"
mat_peptide 2579..2977
/gene="ORF1"
/product="VPg"
mat_peptide 2978..3520
/gene="ORF1"
/product="Pro"
mat_peptide 3521..5050
/gene="ORF1"
/product="RdRp"
gene 5034..6656
/gene="ORF2"
CDS 5034..6656
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="QBS47715.1"
/translation="MKMASSDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ
QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
FEVQVILAGNAFTAGKVIFAAVPPNFPTEGLSPSQVTMFPHIVVDVRQLEPVLIPLPD
VRNNFYHYNQSNDPTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT
QLSPVNICTFRGGVTHITGSHNYTMNLASQNWNNYDPTEEIPAPLGIPDFVGKIQGML
TQTTRTDGSTRGHKATVYTGSADFAPKLGRVQFETDTNNDFEANQNTKFTPVGVIQDG
STTHRNEPQQWVLPSYSGRNTHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD
CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV
IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRVV"
gene 6656..7462
/gene="ORF3"
CDS 6656..7462
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="QBS47716.1"
/translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA
SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQEMMKVKQAMLLEGGFSETDAARGAIN
APMTKTLDWSGTRYWAPDARTTTYNAGRFSTPQPSGALPGRANLRDAVPARGPSNKSS
NSSTATSVYSNQTISTRLGSTAGSGTSVSSLPSTARTRSWVEDQSRNLSPFMRGAHNI
SFVTPPSSRSSSQGTVSTVPKEILDSWTGAFNTRRQPLFAHIRKRGESRV"
ORIGIN
1 caacaacgac aaggaaaaat cttcaggtga aggcttattc acaaatatgt cttccacctt
61 aaagaaagcc ctcggggcta ggcccaaaca gcctgccccg agagacgaac cacaaaagcc
121 cccaagacca ccaactcccg agttggttaa gaggataccc cctcctccac ctaatggcga
181 agaagaaggg gaaccagtca ttaggtatga ggttaagagt gggatctctg gcctgcccga
241 gctcacaaca gtcccccaac cggacgtggc caacacagcg ttcagtgttc caccactgag
301 cttgagagaa aacagggagg ccaaggaacc gctaacaggg gcaatattag agatgtggga
361 tggagagata taccactacg gcctgtacgt ggagaaaggc ttagtgttgg gtgtgcacaa
421 accacctgca gccataagca tggcaagagt ggagctgacg ccgctgtcat tgtactggcg
481 tgtggtgtac accccccaat acctcatctc ccctgaaact cttaggaggc tcaacggaga
541 ggcattccct tacaccgcct tcgacaacaa ctgctatgcc ttctgctgtt gggtgttaga
601 cctcaatgac tcatggctta gcaggaggat ggtgcaaaga acaacgggct tcttcagacc
661 ttaccaagag tggaacagaa aacccctgcc taccatggat gactccaaaa ttaagaaggt
721 agcaaatata ttcctatgtt cattgtccac attgttcacc agacccataa aagacctcat
781 aggaaaaatt aaaccattaa acatattgaa catcctggca acgtgtgact ggacgtttgc
841 cggaatagtg gagtctctga tattacttgc tgaactcttc ggagctttct ggacaccccc
901 agatgtgtct gctatgatcg ctcccttact cggggactac gagttgcaag ggccagaaga
961 cctcgccgtt gagctcgtac ctgtggtaat gggagggatt ggtttggtgt tgggattcac
1021 caaagagaaa attggcaaaa tgttgtcctc agcagcatca acactcaggg cttgcaaaga
1081 tcttggtgcc tatggcttag agatactcaa attggtcatg aagtggttct tcccaaagaa
1141 agaggaggcc aatgagctag ccatggtgag ggccatagag gatgccgtac tagatcttga
1201 ggcaatagaa aataaccaca tgacaaccct gttgaaagac aaagacagct tagcaacata
1261 catgaaaaca ctggacatgg aggaggagaa agccagaagg ttgtccacaa agtctgcatc
1321 ccctgacata gttgggacaa tcaacgctct gctggctcga atagcagcgg ccaggtcatt
1381 agtccacagg gccaaggaag agttatctag caggatgaga ccagtagttg ttatgatatc
1441 tggcaaaccg ggaataggca aaactcatct ggccagggag gtggcaagaa aggtggcagc
1501 cactctcaca ggggatcaaa gagtcggact cataccaaga aacggtgtgg accattggga
1561 tgcatacaaa ggtgagagag tcgtgctgtg ggacgactat ggcatgagta accccattca
1621 tgatgctctt cgcatacaag aattggctga tacgtgtccc cttaccttaa attgtgacag
1681 aattgaaaat aaaggaaaag tttttgacag tgaagtcata ataattacaa caaaccttgc
1741 caacccagcc ccacttgatt atgtcaactt tgaggcctgt tccaggagaa ttgatttcct
1801 ggtgtacgct gaggcaccag aagtagaaaa ggcaaaacgg gactttcctg gtcagccaga
1861 tatgtggaag gacgccttca agccggactt ttcacacatc aagctacagc ttgcacctca
1921 gggcggcttt gacaagaatg gcaacacccc acatgggaaa ggagtgatga aaaccctcac
1981 taccggttct ctgattgccc gtgcatcagg cctactgcat gagaggatgg atgaatttga
2041 actccaaggt cccacaacca ccaccttcaa tttcgaccgg aacagaatca cagcattcag
2101 acaattggct gcagaaaaca agtatggatt ggtggatacc atgaaagttg gcaaccaact
2161 aaaaggagta aaaaccatgg aagaactcaa acaagcaatc aggaatgtga ccatcaagag
2221 gtgccggatc atctacggtg gctccacgta tgaccttgaa tctgatggca agggcaaagt
2281 tttggtggaa aaggtcaaga acacctctgt acagaccaac aacgagttgg ccggggccct
2341 gcaccatctc aaacacgccc gaatcaggta ctatgtcaaa tgtgtgcaag aagcagtcta
2401 ttccatcata caaattgccg gcgctgcgtt tgtcaccacg cgcattgcac gccgcatgaa
2461 catacaagaa ctctggtcga agccacaatt agatcaaaat gaatcagaga ctaaggaaga
2521 gacccccaag tcagaagatg acgagttcat catatcttct aaggatatca aggaggaggg
2581 aaagaagggc aaaaacaaaa ctggccgtgg caagaaacac actgcattct ccagcaaggg
2641 cttgagcgac gaggagtatg acgagtacaa gaggataaga gaagagagga atgggaagta
2701 ctctatagag gagtatcttc aagacagaga caggtactat gaggagctcg ccattgccaa
2761 ggccacggaa gaagacttct gtgaagagga ggagatcaaa atccgtcaga gaattttccg
2821 tcccaccagg aaacaaagga aggaagagag ggccacatta gggttagtga caggttcaga
2881 aatcagaaaa agaaaccctg atgacttcaa acctaaaggg aagctgtggg ccgacgacaa
2941 cagaagtgtt gattacaatg agaaactgga ctttgaggcc cccccaagca tatggtctag
3001 gattgtgagc tttggttctg gctggggctt ctgggtatca ccaagcctgt tcataacatc
3061 aactcatgta atccccgctg gcataacaga agcatttgga gtccccatca aacaaattca
3121 gatccacaaa tcaggtgaat tttgccgatt cagattccca aaaccaatta gaccagatgt
3181 gacaggaatg atcttggaag aaggtgcgcc tgaaggcacc gtggcaactg tgctcatcaa
3241 acgccccacc ggagagctca tgcctcttgc agccagaatg ggaacacacg caaccatgaa
3301 aattcaaggc cgcatggttg gcggacagat gggtatgttg ctcactggat caaatgctaa
3361 aggaatggat ttgggaacaa ctcctggcga ctgtggctgt ccttacatct ataaaagggg
3421 caatgactat atagccattg gggtgcacac tgcagcagcc cgtggtggaa acaccgtcat
3481 ctgtgccaca cagggaagtg agggtgaggc aactcttgag ggtggagatg acaaaggaac
3541 atactgtggg gcacccattc taggccctgg gggtgcacca aaattgagca ccaaaaccaa
3601 attctggagg tcatcgaaca cgccccttcc accagggaca tatgagcctg cctacctcgg
3661 tggccgtgat ccgcgtgtta agggtgggcc ctccttgcag caggtaatga gagaccagtt
3721 gaagccattc actgaaccca ggggcaaacc tccaagacca agtgtattgg aagcagccaa
3781 acaaaccatt atcaatgtcc tcgaacaaac cctggaccct ccacaaaaat ggtcatacgc
3841 acaggcgtgt gcctcacttg acaaaaccac ctccagcggg catccccacc acgcccgaaa
3901 gaatgaattc tggaatggtg agaccttcac tggtaaattg gcagaccaag catcaaaagc
3961 aaacctaatg tttgaggaag ggaaacatat gacaccagtg tatacagcag cactcaagga
4021 cgagctagtc aagactgaga aaatctatgg aaaggtcaag aagagactgc tctggggctc
4081 tgacttatcc accatggtcc ggtgcgctag gtcatttggt gggctcatgg acgagatgaa
4141 ggcacactgc atatcactcc cagtacgagt tggcatgaat atgaatgaag atggcccaat
4201 aatatttgag aaacattcca gatacaaata ccactatgat gcagactact ctcgttggga
4261 ttcaacacaa cagagggcag tattagcatc agccttggaa atcatggtca gattctctgc
4321 agaaccacaa ttggcacaaa tagtcgctga ggatctgctg gcccctagtg tagtagatgt
4381 aggagacttt aaaatcacaa taaatgaggg gctcccatct ggtgtgccat gcacttccca
4441 atggaactcc atcgcacact ggctgctgac tctctgtgcc ttgtctgaag tcaccaaact
4501 gtcccctgac attatacaag caaattccat gttctcattt tacggtgatg acgagattgt
4561 cagcaccgac ataaaattgg accctgaaca gttaaccgcc aaattgaagg agtacggcct
4621 gaaaccaacc cgcccagaca agaccgaggg acccctgatc atcagtgaag atttgaacgg
4681 actcactttc ctccgaagga cggtgactcg tgacccagct ggctggtttg gaaaactgga
4741 ccaaggctcg attttgaggc agatgtactg gactagagga ccaaatcatg aagaccccaa
4801 tgagacaatg ataccccatt ctcaaagacc catacagctc atggcactgc ttggtgaagc
4861 ctctcttcac ggaccctctt tctacagtaa gatcagtaaa ttggtcataa ctgaactcaa
4921 agaaggtggg atggactttt acgtgccaag gcaggaaccc atgttcaggt ggatgaggtt
4981 ttctgacttg agcacgtggg agggcgatcg caatctggct cccaattttg tgaatgaaga
5041 tggcgtcgag tgacgccaac ccatctgatg ggtccgcagc caacctcgta ccagaggtca
5101 acaatgaggt tatggctttg gagcccgttg ttggtgccgc tattgcggca cctgtagcgg
5161 gccaacaaaa tgtaattgac ccctggatta gaaataattt tgtacaagcc cctggtgggg
5221 agtttacagt atcccctaga aacgctccag gtgaaatact atggagcgcg cccctaggcc
5281 ctgacctaaa cccctaccta tcccatttgg ccagaatgta caatggttat gcaggtggtt
5341 ttgaagtgca ggtaattctc gcggggaacg cgttcaccgc cgggaaggtc atatttgcag
5401 cagtcccacc aaattttcca actgaaggct taagtcctag ccaggtcact atgttccccc
5461 atatagtagt agatgttaga caattagaac ctgtgttgat tcccttaccc gatgtcagga
5521 ataatttcta tcattataat cagtcaaatg accccactat taagttgata gcaatgttgt
5581 atacaccact tagggctaat aatgctgggg atgatgtttt cacagtttcg tgccgagttc
5641 tcacgagacc atcccctgat tttgatttca tatttttagt gccacccaca gttgaatcaa
5701 gaaccaaacc attctctgtc ccagttttaa ctgttgagga gatgaccaat tcaagattcc
5761 ccattccttt ggaaaagttg ttcacgggcc ccagcagtgc ctttgttgtt caaccacaaa
5821 acggcaggtg cacaactgat ggcgtgctcc taggcaccac ccaactgtct cctgtcaaca
5881 tttgcacctt cagggggggt gtcacccaca tcacaggtag tcacaactac acaatgaatt
5941 tggcttctca aaattggaat aactatgacc caacagaaga aatcccagcc cctctaggaa
6001 ttccagattt tgtggggaag attcaaggca tgctcaccca aaccacaagg acagatggtt
6061 caacacgcgg ccacaaagct acagtgtaca ctgggagcgc cgactttgct ccaaaactgg
6121 gtagagttca gtttgaaact gacacaaaca atgattttga agctaatcaa aacacaaagt
6181 tcaccccagt cggtgtcatc caagatggta gcaccaccca ccgaaacgaa ccccaacagt
6241 gggtgctccc aagttactca ggcagaaata ctcacaatgt acatctggcc cccgctgtag
6301 cccccacctt tccgggtgag caacttctct tcttcagatc caccatgccc ggatgcagcg
6361 ggtaccccaa catggatttg gactgtctgc tcccccagga atgggtgcag tacttctatc
6421 aagaggcagc cccagcacaa tctgatgtgg ctctgctaag atttgtgaat ccagacacag
6481 gtagggtttt gtttgagtgc aagcttcata aatcaggcta tgttacagtg gctcacactg
6541 gccaacatga tttggttatc ccccccaatg gttactttag gtttgattcc tgggtcaacc
6601 agttctacac gcttgccccc atgggaaatg gaacggggcg tagacgtgtg gtataatggc
6661 tggagctttc tttgctggat tggcatctga tgtccttggc tctggacttg gttcccttat
6721 caatgctggg gctggggcca tcaaccaaaa agttgagttt gaaaataaca gaaaattgca
6781 acaagcatcc ttccaattta gcagcaatct gcaacaggct tcctttcaac atgataaaga
6841 gatgctccaa gcacaaattg aggccaccaa aaagctacaa caggaaatga tgaaagttaa
6901 gcaggcaatg ctcctagagg gtgggttctc tgagacagac gcagcccgtg gggcaatcaa
6961 cgctcccatg acaaaaactt tggactggag cgggacaagg tactgggctc ccgatgctag
7021 gactacaaca tacaatgcag gccgcttttc cacccctcaa ccatcggggg cactgccagg
7081 aagagctaac cttagggatg ctgtccctgc tcggggaccc tccaacaaat cttctaactc
7141 ttctactgcc acctctgtgt actcaaatca aactatttca acgagacttg gttctacagc
7201 tggttctgga accagtgtct cgagcctccc gtcaactgca aggactagga gctgggttga
7261 ggatcaaagt aggaatttgt cacctttcat gaggggggcc cacaacatat catttgtcac
7321 cccaccatct agcagatcct ctagccaagg cacagtctca accgtgccta aagagatttt
7381 ggactcctgg actggcgctt tcaacacgcg caggcagcct ctcttcgctc acattcgtaa
7441 gcgaggggag tcacgggtgt aatgtgaaaa gacaaaactg
//