Typing tool
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Typing tool
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Complete norovirus genomes
| MK762567 | GII.4 Sydney | |
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| GII.P16 |
ORF1: 1..5049
ORF2: 5030..6652
ORF3: 6652..7458
LOCUS MK762567 7501 bp RNA linear VRL 13-APR-2019
DEFINITION Norovirus GII isolate Hu/US/2016/GII.P16-GII.4 Sydney/CS0276
nonstructural polyprotein (ORF1) gene, partial cds; and VP1 (ORF2)
and VP2 (ORF3) genes, complete cds.
ACCESSION MK762567
VERSION MK762567.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7501)
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JOURNAL Unpublished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 7501)
AUTHORS Barclay,L., Cannon,J.L., Montmayeur,A.M., Tatusov,R.L., Chhabra,P.
and Vinje,J.
TITLE Direct Submission
JOURNAL Submitted (05-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..7501
/organism="Norovirus GII"
/mol_type="genomic RNA"
/strain="CS0276"
/isolate="Hu/US/2016/GII.P16-GII.4 Sydney/CS0276"
/isolation_source="stool"
/host="Homo sapiens"
/db_xref="taxon:122929"
/country="USA"
/collection_date="23-Mar-2016"
/note="genotype: GII.P16-GII.4 Sydney"
gene <1..5049
/gene="ORF1"
CDS <1..5049
/gene="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="QBX91028.1"
/translation="NDKEKSSGEGLFTNMSSTLKKALGARPKQPAPRDEPQKPPRPPT
PELVKRIPPPPPNGEEEEEPVIRYEVKSGISGLPELTTVPQPDVANTAFSVPPLSLRE
NREAKEPLTGAILEMWDGEIYHYGLYVEKGLVLGVHKPPAAISMARVELTPLSLYWRV
VYTPQYLISPETLRRLNGEAFPYTAFDNNCYAFCCWVLDLNDSWLSRRMVQRTTGFFR
PYQEWNRKPLPTMDDSKIKKVANIFLCSLSTLFTRPIKDLIGKIKPLNILNILATCDW
TFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPEDLAVELVPVVMGGIGL
VLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFPKKEEANELAMVRAIE
DAVLDLEAIENNHMTTLLKDKDSLATYMKTLDMEEEKARRLSTKSASPDIVGTINALL
ARIAAARSLVHRAKEELSSRIRPVVVMISGKPGIGKTHLAREVARKVASTLTGDQRVG
LIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRIQELADTCPLTLNCDRIENKGKV
FDSEVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEKAKRDFPGQPDMWKDA
FKPDFSHIKLQLAPQGGFDKNGNTPHGKGVMKTLTTGSLIARASGLLHERMDEFELQG
PTITTFNFDRNRITAFRQLAAENKYGLVDTMKVGNQLKGVKTMEELKQAIRNVTIKRC
RIIYGGSTYDLESDGKGKVLVEKVKNTSVQTNNELAGALHHLKHARIRYYVKCVQEAV
YSIIQIAGAAFVTTRIARRMNIQELWSKPQLDQNESETKEEAPKSEDDEFIISSKDIK
EEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKYSIEEYLQDRDRYYEE
LAIAKATEEDFCEEEEIKIRQRIFRPTRKQRKEERATLGLVTGSEIRKRNPDDFKPKG
KLWADDNRSVDYNEKLDFEAPPSIWSRIVSFGSGWGFWVSPSLFITSTHVIPAGITEA
FGVPIKQIQIHKSGEFCRFRFPKPIRPDVTGMILEEGAPEGTVATVLIKRPTGELMPL
AARMGTHATMKIQGRMVGGQMGMLLTGSNAKGMDLGTTPGDCGCPYIYKRGNDYIAIG
VHTAAARGGNTVICATQGSEGEATLEGGDDKGTYCGAPILGPGGAPKLSTKTKFWRSS
NTPLPPGTYEPAYLGGRDPRVKGGPSLQQVMRDQLKPFTEPRGKPPRPSVLEAAKQTI
INVLEQTLDPPQKWTYAQACASLDKTTSSGHPHHVRKNEFWNGETFTGKLADQASKAN
LMFEEGKHMTPVYTAALKDELVKTEKIYGKIKKRLLWGSDLSTMIRCARSFGGLMDEM
KAHCISLPVRVGMNMNEDGPIIFEKHSRYKYHYDADYSRWDSTQQRAVLAAALEIMVR
FSAEPQLAQIVAEDLLAPSVVDVGDFKITINEGLPSGVPCTSQWNSIAHWLLTLCALS
EVTKLSPDIIQANSMFSFYGDDEIVSTDIKLDPEQLTAKLKEYGLKPTRPDKTEGPLI
ISEDLNGLTFLRRTVTRDPAGWFGKLDQSSILRQMYWTRGPNHEDPNETMIPHSQRPI
QLMALLGEASLHGPSFYSKISKLVITELKEGGMDFYVPRQEPMFRWMRFSDLSTWEGD
RNLAPNFVNEDGVE"
mat_peptide <1..945
/gene="ORF1"
/product="p48"
mat_peptide 946..2043
/gene="ORF1"
/product="NTPase"
mat_peptide 2044..2574
/gene="ORF1"
/product="p22"
mat_peptide 2575..2973
/gene="ORF1"
/product="VPg"
mat_peptide 2974..3516
/gene="ORF1"
/product="Pro"
mat_peptide 3517..5046
/gene="ORF1"
/product="RdRp"
gene 5030..6652
/gene="ORF2"
CDS 5030..6652
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="QBX91029.1"
/translation="MKMASNDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ
QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
FEVQVILAGNAFTAGKIIFAAVPPNFPTEGLSPSQVTMFPHIIVDVRQLEPVLIPLPD
VRNNFYHYNQSNDSTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT
QLSPVNICTFRGDVTHITGSRNYTMNLASQNWNNYDPTEEIPAPLGTPDFVGKIQGML
TQTTRTDGSTRGHKATVYTGSADFAPKLGRVQFETDTDHDFEANQNTKFTPVGVIQDG
STTHRNEPQQWVLPSYSGRNAHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD
CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV
IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRAV"
gene 6652..7458
/gene="ORF3"
CDS 6652..7458
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="QBX91030.1"
/translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA
SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQEMMKVKQAMLLEGGFSETDAARGAIN
APMTKVLDWSGTRYWAPDARTTTYNAGRFSTPQPSGTLPGRANLRDAVPARGPSNKSS
NSSTATSVYSNQTISTRLGSTAGSGTSVSSLPSTARTRSWVEDQSRNLSPFMRGAHNI
SFVTPPSSRSSSQGTVSTVPKEILDSWTGAFNTRRQPLFAHIRRRGESRV"
ORIGIN
1 aacgacaagg aaaaatcttc aggtgaaggc ttattcacaa atatgtcttc caccttaaag
61 aaagccctcg gggctaggcc caaacagcct gccccgagag acgaaccaca aaagccccca
121 agaccaccaa ctcccgagtt ggtcaagagg ataccccctc ctccacctaa tggcgaagaa
181 gaagaagaac cagtcattag gtatgaggtt aagagtggga tctctggcct gcccgagctc
241 acaacagtcc cccaaccgga cgtggccaac acagcattca gtgttccacc actgagcttg
301 agagaaaaca gggaggccaa agaaccgcta acaggggcaa tattagagat gtgggatgga
361 gagatatacc actatggcct gtacgtggag aaaggcttag tgttgggtgt gcacaaacca
421 cctgcagcca taagcatggc aagagtggag ttgacgccgc tgtcattgta ctggcgtgtg
481 gtgtacactc cccaatacct catctcccct gaaactctca ggaggctcaa cggagaggcg
541 ttcccttaca ccgccttcga caacaactgc tatgcctttt gctgctgggt gttggacctc
601 aatgactcat ggcttagcag gaggatggtg caaagaacaa cgggcttctt cagaccttac
661 caagagtgga acagaaaacc cctgcctacc atggatgact ccaaaattaa gaaggtagca
721 aatatattcc tatgttcatt gtccacatta ttcaccagac ccataaaaga cctcatagga
781 aagattaaac cattaaacat attgaacatc ctggcaacgt gtgactggac gtttgccgga
841 atagtggagt ctctgatatt acttgctgaa ctcttcggag ttttctggac acccccagat
901 gtgtctgcta tgatcgctcc cttactcggg gactacgaat tgcaagggcc agaagacctc
961 gccgttgaac tcgtacctgt ggtaatggga gggattggtt tggtgttggg attcaccaaa
1021 gagaaaattg gcaaaatgtt gtcctcagca gcatcaacac tcagggcttg caaagatctt
1081 ggtgcctatg gcttagagat actcaaattg gtcatgaagt ggttcttccc aaagaaagag
1141 gaggccaatg agctagccat ggtgagggcc atagaggatg ccgtactaga tcttgaggca
1201 atagaaaata accacatgac aaccctgttg aaagacaaag acagcttagc aacatacatg
1261 aaaacactgg acatggaaga ggagaaagcc agaaggttgt ccacaaaatc tgcatcccct
1321 gacatagttg ggacaatcaa cgccctgctg gctcgaatag cagcggccag gtcattagtc
1381 cacagggcca aggaagagct gtctagcagg ataagaccag tagttgttat gatatctggc
1441 aaaccaggaa taggcaaaac tcatctggcc agggaggtgg caagaaaggt ggcatccact
1501 ctcacagggg atcaaagagt cggactcata ccaagaaacg gtgtggacca ttgggatgca
1561 tacaaaggtg agagagtcgt gctgtgggac gactatggca tgagtaaccc cattcatgat
1621 gctcttcgca tacaagaatt ggctgacacg tgtcccctta ccttaaattg tgacagaatt
1681 gaaaataagg gaaaagtttt tgacagtgag gtcataataa tcacaacaaa ccttgccaat
1741 ccagccccac ttgattatgt caactttgag gcctgttcca ggagaattga ttttctggtg
1801 tacgctgagg caccagaagt agaaaaggca aaacgggact ttcctggtca gccagatatg
1861 tggaaggacg ccttcaagcc ggacttctca cacatcaagc tacagcttgc acctcagggc
1921 ggctttgaca agaatggcaa cactccacat gggaagggag tgatgaagac cctcactacc
1981 ggttctctga ttgcccgcgc gtcaggccta ctgcatgaga ggatggatga atttgaactc
2041 caaggtccca caatcaccac cttcaatttc gaccggaaca gaatcacagc attcaggcaa
2101 ttggctgcgg aaaacaagta tggattggtg gataccatga aagttggcaa tcaactaaaa
2161 ggagtgaaaa ccatggaaga actcaaacaa gcaatcagga atgtgaccat caagaggtgc
2221 cggatcatct acggtggctc cacgtatgac cttgaatctg atggcaaggg caaagttttg
2281 gtggaaaagg tcaagaacac ctctgtacag accaacaacg agctggctgg ggccctgcac
2341 catctcaaac acgcccgaat caggtactat gtcaaatgtg tgcaagaagc agtctattcc
2401 atcatacaaa ttgccggcgc tgcgtttgtc accacgcgca ttgcgcgccg catgaacata
2461 caggaactct ggtcgaagcc acaattagat caaaatgaat cagagactaa ggaagaggcc
2521 cccaagtcag aagatgacga gttcatcata tcttctaagg acatcaagga ggaaggaaag
2581 aagggcaaaa acaagactgg ccgtggcaag aaacacactg cattctccag caagggcttg
2641 agcgatgagg agtacgacga gtacaagagg ataagagaag agagaaatgg gaagtactct
2701 atagaggagt atcttcaaga cagagacagg tactatgagg agctcgccat tgccaaggcc
2761 acggaagaag acttctgtga agaggaggag atcaaaatcc gtcagagaat tttccgtccc
2821 accaggaaac aaagaaagga agagagggcc acattagggc tagtaacagg ttcagaaatc
2881 agaaaaagaa accctgatga cttcaaaccc aaagggaagc tgtgggccga tgacaacaga
2941 agtgttgact acaatgagaa actggacttt gaggcccccc caagcatatg gtctaggatt
3001 gtgagctttg gttctggctg gggcttctgg gtatcaccaa gcctgttcat aacatcaact
3061 catgtaatcc ccgcaggcat aacagaagca tttggagtcc ccatcaaaca aattcagatt
3121 cacaaatcag gtgaattttg ccgattcaga ttcccaaaac caattagacc agatgtgaca
3181 ggaatgatct tagaagaagg tgcgcctgaa ggcaccgtag caactgtgct tatcaaacgc
3241 cccaccggag agctcatgcc tcttgcagcc agaatgggaa cacacgcaac catgaaaatt
3301 caaggccgca tggttggcgg acagatgggt atgttgctca ctggatcaaa tgctaaagga
3361 atggatttgg gaacaactcc tggtgactgt ggctgtcctt acatctataa aaggggcaat
3421 gactatatag ccattggggt gcacactgca gcagcccgtg gtggaaacac cgtcatctgt
3481 gccacacagg gaagtgaggg tgaggcaact cttgagggtg gagatgacaa aggaacatac
3541 tgtggggcac ctattctagg ccctgggggt gcaccaaaat tgagcaccaa aaccaaattt
3601 tggaggtcat cgaacacgcc ccttccacca gggacatatg agcctgccta cctcggtggc
3661 cgtgatccgc gtgttaaggg tgggccctcc ttgcagcagg taatgagaga ccagttaaag
3721 ccattcactg aacccagggg caaacctcca agaccaagtg tattggaagc agccaaacaa
3781 accattatca acgtcctcga acaaaccctg gaccctccac aaaaatggac atacgcacag
3841 gcgtgtgcat cacttgacaa aaccacctcc agcgggcatc cccatcacgt ccgaaagaat
3901 gaattctgga atggtgagac cttcactggc aaattggcag accaagcatc aaaagcaaac
3961 ctaatgtttg aggaagggaa acacatgaca ccagtgtata cagcagcact caaggacgag
4021 ctagtcaaga ctgagaaaat ctatggaaag atcaagaaga gactgctctg gggctctgac
4081 ttgtccacca tgatccggtg cgctaggtca tttggtgggc tcatggacga gatgaaggcg
4141 cactgcatat cactcccagt acgagttggc atgaatatga atgaagatgg cccaataata
4201 tttgagaaac attccagata caaataccac tatgatgcag actactctcg ttgggattca
4261 acacaacaga gggcagtgct agcagcagcc ttggaaatca tggtcagatt ctctgcagaa
4321 ccacaattgg cacaaatagt cgctgaggat ctgctggccc ctagtgtagt agatgtagga
4381 gactttaaaa tcacaataaa tgaagggctc ccatctggtg tgccatgcac ttctcaatgg
4441 aactccatcg cacactggct gctaactctc tgtgccttgt ctgaagtcac caaactgtcc
4501 cctgacatta tacaagcaaa ttccatgttc tcattttacg gtgatgacga gattgtcagc
4561 accgacataa aattggaccc tgaacagtta accgccaaat tgaaggagta cggcctgaaa
4621 ccaacccgcc cagacaagac cgagggaccc ctgattatca gtgaagattt gaacggactc
4681 actttcctcc gaaggacggt gactcgtgac ccagctggct ggtttggaaa actggaccaa
4741 agctcaattt tgaggcagat gtactggact agaggaccaa atcatgaaga ccccaatgag
4801 acaatgatac cccattctca aagacccata cagctcatgg cactgcttgg tgaagcctct
4861 cttcacggac cctctttcta cagtaaaatc agtaaattgg tcataactga actcaaagaa
4921 ggtgggatgg acttttacgt gccaaggcag gaacccatgt tcagatggat gaggttttct
4981 gacttgagca cgtgggaggg cgatcgcaat ctggctccca attttgtgaa tgaagatggc
5041 gtcgaatgac gccaacccat ctgatgggtc cgcagccaac ctcgtaccag aggtcaacaa
5101 tgaggttatg gctttggagc ccgttgttgg tgccgctatt gcggcacctg tagcgggcca
5161 acaaaatgta attgacccct ggattagaaa taattttgta caagcccctg gtggggagtt
5221 tacagtatcc cccagaaacg ctccaggtga aatactatgg agcgcgcccc taggccctga
5281 cctaaatccc tacctatccc atttggccag aatgtacaat ggttatgcag gtggttttga
5341 agtgcaggta attctcgcgg ggaacgcgtt cactgccggg aagatcatat ttgcagcagt
5401 cccaccaaat tttccaactg aaggcttaag tcctagccag gtcactatgt tcccccatat
5461 aatagtggat gttagacaat tagaacctgt gctgattccc ttacccgatg tcaggaataa
5521 tttctatcat tacaaccagt caaatgattc cactattaag ttgatagcaa tgttgtatac
5581 accacttagg gctaataatg ctggggatga tgttttcaca gtttcgtgcc gagttctcac
5641 gagaccatcc cccgattttg atttcatatt tttagtgcca cccacagttg agtcaagaac
5701 taaaccattc tctgtcccag ttttaactgt tgaggagatg accaattcaa gattccccat
5761 tcctttggaa aagttgttca cgggccccag cagtgccttt gttgttcaac cacaaaacgg
5821 caggtgcaca actgatggcg tgctcctagg caccacccaa ttgtctcctg tcaatatctg
5881 caccttcaga ggggatgtca cccacatcac aggtagtcgc aactacacaa tgaatttggc
5941 ttctcaaaat tggaacaact atgacccaac agaagaaatc ccagcccctc taggaactcc
6001 agattttgtg gggaagattc aaggcatgct cacccaaacc acaaggacag atggttcaac
6061 acgcggccac aaagctacag tgtacactgg gagcgccgac tttgctccaa aactgggtag
6121 agttcaattt gaaactgaca cagaccatga ttttgaagct aatcaaaaca caaagttcac
6181 cccagtcggt gtcatccaag atggtagcac cacccatcga aacgaacccc aacagtgggt
6241 gctcccaagt tactcaggca gaaatgctca caatgtacat ctggcccctg ctgtagcccc
6301 caccttcccg ggtgagcaac ttctcttctt cagatccacc atgcccggat gcagcgggta
6361 ccccaacatg gatttggact gtctgctccc ccaggaatgg gtgcagtact tctaccaaga
6421 ggcagcccca gcacaatctg atgtggctct gctaagattt gtgaacccag acacaggtag
6481 ggttttgttt gagtgcaagc ttcacaaatc aggctatgtt acagtggctc acactggcca
6541 acatgatttg gttatccccc ccaatggtta ctttaggttt gattcctggg tcaaccagtt
6601 ctacacgctt gcccccatgg gaaatggaac ggggcgtaga cgtgcagtat aatggctggt
6661 gctttctttg ctggattggc atccgatgtc cttggctctg gacttggttc ccttatcaat
6721 gctggggctg gggccatcaa ccaaaaagtt gagtttgaaa ataacagaaa attgcaacaa
6781 gcatccttcc aatttagcag caatctgcaa caggcttcct ttcaacatga taaagagatg
6841 ctccaagcac aaattgaggc caccaaaaag ctacaacagg aaatgatgaa agttaagcag
6901 gcaatgctcc tagagggtgg gttctctgag acagatgcag cccgcggggc aattaacgcc
6961 cccatgacaa aagttttgga ctggagcggg acaaggtact gggctcccga tgctaggact
7021 acaacataca atgcaggtcg cttttccacc cctcaaccat cggggacact gccaggaaga
7081 gctaatctta gggatgctgt ccctgctcgg ggaccctcca acaaatcttc taactcttct
7141 actgccacct ctgtgtactc aaatcaaact atctcaacga gacttggttc tacagctggt
7201 tctggaacca gtgtctcgag cctcccgtca actgcaagga ctaggagctg ggttgaggat
7261 caaagtagga atttgtcacc tttcatgagg ggggcccaca acatatcatt tgtcacccca
7321 ccatctagca gatcctctag ccaaggcaca gtctcaaccg tgcctaaaga gattttggac
7381 tcctggactg gcgctttcaa cacgcgcagg cagcctctct tcgctcacat tcgtaggcga
7441 ggggagtcac gggtgtaatg tgaaaagaca aaactgatta cctttctttt tctttagtgt
7501 c
//