Typing tool
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Typing tool
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Complete norovirus genomes
| MK073890 | GII.4 Sydney | |
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| GII.P16 |
ORF1: 1..5040
ORF2: 5021..6643
ORF3: 6643..7449
LOCUS MK073890 7473 bp RNA linear VRL 07-FEB-2019
DEFINITION Norovirus GII.4 isolate Hu/USA/2016/GII.P16-GII.4
Sydney/Gallatin-0036 nonstructural polyprotein (ORF1) gene, partial
cds; and VP1 (ORF2) and VP2 (ORF3) genes, complete cds.
ACCESSION MK073890
VERSION MK073890.1
DBLINK BioProject: PRJNA322324
KEYWORDS .
SOURCE Norovirus GII.4
ORGANISM Norovirus GII.4
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7473)
AUTHORS Steece,R., Moore,C., Britt,N., Kellem,R., Marine,R. and Castro,C.J.
TITLE Direct Submission
JOURNAL Submitted (19-OCT-2018) Polio and Picornavirus Laboratory Branch,
Centers for Disease Control and Prevention, 1600 Clifton Rd. NE,
Atlanta, GA 30329, USA
COMMENT ##Assembly-Data-START##
Assembly Method :: SPAdes v. 3.9
Sequencing Technology :: Illumina
##Assembly-Data-END##
FEATURES Location/Qualifiers
source 1..7473
/organism="Norovirus GII.4"
/mol_type="genomic RNA"
/isolate="Hu/USA/2016/GII.P16-GII.4 Sydney/Gallatin-0036"
/isolation_source="stool"
/host="Homo sapiens"
/db_xref="taxon:489821"
/country="USA: TN, Gallatin"
/collection_date="13-Mar-2016"
/note="genotype: GII.P16-GII.4"
gene <1..5040
/gene="ORF1"
CDS <1..5040
/gene="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="AZJ17756.1"
/translation="EKSSGEGLFTNMSSTLKKALGARPKQPAPRGELQKPPRPPTPEL
VKRIPPPPPNGEEEEEPVIRYEVKSGISGLPELTTVPQPDVANTAFSVPPLSLRENRE
AKEPLTGAILEMWDGEIYHYGLYVEKGLVLGVHKPPAAISMARVELTPLSLYWRVVYT
PQYLISPETLRRLNGEAFPYTAFDNNCYAFCCWVLDLNDSWLSRRMVQRTTGFFRPYQ
EWNRKPLPTMDDSKIKKVANIFLCSLSTLFTRPIKDLIGKIKPLNILNILATCDWTFA
GIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPEDLAVELVPVVMGGIGLVLG
FTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFPKKEEANELAMVRAIEDAV
LDLEAIENNHMTTLLKDKDSLATYMKTLDMEEEKARRLSTKSASPDIVGTINALLARI
AAARSLVHRAKEELSSRIRPVVVMISGKPGIGKTHLAREVARKVASTLTGDQRVGLIP
RNGVDHWDAYKGERVVLWDDYGMSNPIHDALRIQELADTCPLTLNCDRIENKGKVFDS
EVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEKAKRDFPGQPDMWKDAFKP
DFSHIKLQLAPQGGFDKNGNTPHGKGVMKTLTTGSLIARASGLLHERMDEFELQGPTI
TTFNFDRNRITAFRQLAAENKYGLVDTMKVGNQLKGVKTMEELKQAIRNVTIKRCQII
YGGSTYDLESDGKGKVLVEKVKNTSVQTNNELAGALHHLKHARIRYYVKCVQEAVYSI
IQIAGAAFVTTRIARRMNIQELWSKPQLDQNESETKEEAPKSEDDEFIISSKDIKEEG
KKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKYSIEEYLQDRDRYYEELAI
AKATEEDFCEEEEIKIRQRIFRPTRKQRKEERATLGLVTGSEIRKRNPDDFKPKGKLW
ADDNRSVDYNEKLDFEAPPSIWSRIVSFGSGWGFWVSPSLFITSTHVIPAGITEAFGV
PIKQIQVHKSGEFCRFRFPKPIRPDVTGMILEEGAPEGTVATVLIKRPTGELMPLAAR
MGTRATMKIQGRMVGGQMGMLLTGSNAKGMDLGTTPGDCGCPYIYKRGNDYIVIGVHT
AAARGGNTVICATQGSEGEATLEGGDDKGTYCGAPILGPGGAPKLSTKTKFWRSSNTP
LPPGTYEPAYLGGRDPRVKGGPSLQQVMRDQLKPFTEPRGKPPRPSVLEAAKQTIINV
LEQTLDPPQKWTYAQACASLDKTTSSGHPHHVRKNEFWNGETFTGKLADQASKANLMF
EEGKHMTPVYTAALKDELVKTEKIYGKIKKRLLWGSDLSTMIRCARSFGGLMDEMKAH
CISLPVRVGMNMNEDGPIIFEKHSRYKYHYDADYSRWDSTQQRAVLAAALEIMVRFSA
EPQLAQIVAEDLLAPSVVDVGDFKITINEGLPSGVPCTSQWNSIAHWLLTLCALSEVT
KLSPDIIQANSMFSFYGDDEIVSTDIKLDPEQLTAKLKEYGLKPTRPDKTEGPLIISE
DLNGLTFLRRTVTRDPAGWFGKLDQNSILRQMYWTRGPNHEDPNETMIPHSQRPIQLM
ALLGEASLHGPSFYSKISKLVITELKEGGMDFYVPRQEPMFRWMRFSDLSTWEGDRNL
APNFVNEDGVE"
mat_peptide <1..936
/gene="ORF1"
/product="p48"
mat_peptide 937..2034
/gene="ORF1"
/product="NTPase"
mat_peptide 2035..2565
/gene="ORF1"
/product="p22"
mat_peptide 2566..2964
/gene="ORF1"
/product="VPg"
mat_peptide 2965..3507
/gene="ORF1"
/product="Pro"
mat_peptide 3508..5037
/gene="ORF1"
/product="RdRp"
gene 5021..6643
/gene="ORF2"
CDS 5021..6643
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="AZJ17757.1"
/translation="MKMASSDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ
QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
FEVQVILAGNAFTAGKIIFAAVPPNFPTEGLSPSQVTMFPHIIVDVRQLEPVLIPLPD
VRNNFYHYNQSNDSTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT
QLSPVNICTFRGDVTHITGSRNYTMNLASQNWNNYDPTEEIPAPLGTPDFVGKIQGML
TQTTRTDGSTRGHKATVYTGSADFSPKLGRVQFETDTDHDFEANQNTKFTPVGVIQDG
STTHRNEPQQWVLPSYSGRNTHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD
CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV
IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRVV"
gene 6643..7449
/gene="ORF3"
CDS 6643..7449
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="AZJ17758.1"
/translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA
SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQEMMKVKQAMLLEGGFSETDAARGAIN
APMTKALDWSGTRYWAPDARTTTYNAGRFSTPQPSGALPGRANLRDAVPARGPSNKSF
NSSTATSVYSNQTISTRLGSTAGSGTSVSSLPSTARTRSWVEDQSRNLSPFMRGAHNI
SSVTPPSSRSSSQGTVSTVPKEILDSWTGAFNTRRQPLFAHIRKRGESRV"
ORIGIN
1 gaaaaatctt caggtgaagg cttattcaca aatatgtctt ccaccttaaa gaaagccctc
61 ggggctaggc ccaaacagcc tgccccgaga ggcgaactac aaaagccccc aagaccacca
121 actcccgagt tggtcaagag gataccccct cctccaccta atggcgaaga agaagaagaa
181 ccagtcatta ggtatgaggt taagagtggg atctctggcc tgcccgagct cacaacagtc
241 ccccaaccgg acgtggccaa cacagcattc agtgttccac cactgagctt gagagaaaac
301 agggaggcca aggaaccgtt aacaggggca atattagaga tgtgggatgg agagatatac
361 cactatggcc tgtacgtgga gaaaggctta gtgttgggtg tgcacaaacc acctgcagcc
421 ataagcatgg caagagtgga gctgacgccg ctgtcattgt actggcgtgt ggtgtacact
481 ccccaatacc tcatctcccc tgaaactctc aggaggctca acggagaggc gttcccttac
541 accgcctttg acaacaactg ctatgccttt tgctgctggg tgttagacct caatgactca
601 tggcttagca ggaggatggt gcaaagaaca acaggcttct tcagacctta ccaagagtgg
661 aacagaaaac ccctgcctac catggatgac tccaaaatta agaaggtagc aaatatattc
721 ctatgttcat tgtccacatt attcaccaga cccataaaag acctcatagg aaaaattaaa
781 ccattaaaca tattgaacat cctggcaacg tgtgactgga cgtttgccgg aatagtggag
841 tccctgatat tacttgctga actcttcgga gttttctgga cacccccaga tgtgtctgct
901 atgatcgctc ccttactcgg ggactacgag ttgcaagggc cagaagacct cgccgttgaa
961 ctcgtacctg tggtaatggg agggattggt ttggtgttgg gattcaccaa agagaaaatt
1021 ggcaaaatgt tgtcctcagc agcatcaaca ctcagggctt gcaaagatct tggtgcctat
1081 ggcttagaga tactcaaact ggtcatgaag tggttcttcc caaagaaaga ggaggccaat
1141 gagctagcca tggtgagggc catagaggat gccgtactag atcttgaggc aatagaaaat
1201 aaccacatga caaccctgtt gaaagacaaa gacagcttag caacatacat gaaaacactg
1261 gacatggagg aggagaaagc cagaaggttg tccacaaaat ctgcatcccc tgacatagtt
1321 gggacaatca acgccctgct ggctcgaata gcagcggcca ggtcattagt ccacagggcc
1381 aaggaagagc tatctagcag gataagacca gtagttgtta tgatatctgg caaaccagga
1441 ataggcaaaa ctcatctggc cagggaggtg gcaagaaagg tggcatccac tctcacaggg
1501 gatcaaagag tcggactcat accaagaaac ggtgtggacc attgggatgc atacaaaggt
1561 gagagagtcg tgctgtggga cgactatggc atgagtaacc ccattcatga tgctcttcgc
1621 atacaggaat tggctgatac gtgtcccctt accttaaatt gtgacagaat tgagaataag
1681 ggaaaagttt ttgacagtga agtcataata attacaacaa accttgccaa tccagcccca
1741 cttgattatg tcaactttga ggcctgttcc aggagaattg atttcctggt gtacgctgag
1801 gcaccagaag tagaaaaggc aaaacgggac tttcctggtc agccagatat gtggaaggac
1861 gccttcaagc cggacttttc acacatcaag ctacagcttg cacctcaggg cggttttgac
1921 aagaatggca acaccccgca tgggaaagga gtaatgaaga ccctcactac cggttctctg
1981 attgcccgtg catcaggcct actgcatgag aggatggatg aatttgaact ccaaggtccc
2041 acaatcacca ccttcaattt cgaccggaac agaatcacag cattcagaca attggctgca
2101 gaaaacaagt atggattggt ggataccatg aaagttggca atcaactaaa aggagtaaaa
2161 accatggaag aactcaaaca agcaatcagg aatgtgacca tcaagaggtg ccagatcatc
2221 tacggtggct ccacgtatga ccttgaatct gatggcaagg gcaaagtttt ggtggaaaag
2281 gtcaagaaca cctctgtaca gaccaacaac gagctggccg gggccctgca ccatctcaaa
2341 cacgcccgaa tcaggtacta tgtcaaatgt gtgcaagaag cagtctattc catcatacaa
2401 attgccggcg ctgcgtttgt caccacgcgc attgcacgcc gcatgaacat acaagaactc
2461 tggtcgaagc cacaattaga tcaaaatgaa tcagagacta aggaagaggc ccccaagtca
2521 gaagatgacg agttcatcat atcttctaag gacatcaagg aggaaggaaa gaagggcaaa
2581 aacaaaactg gccgtggcaa gaaacacact gcattctcca gcaagggctt gagcgatgag
2641 gagtatgacg agtacaagag gataagagaa gagagaaatg ggaagtactc tatagaggag
2701 tatcttcaag acagagacag gtactatgag gagctcgcca ttgccaaggc cacggaagaa
2761 gacttctgtg aagaggagga gatcaaaatc cgtcagagaa ttttccgtcc caccaggaaa
2821 caaagaaagg aagagagggc cacattaggg ctagtaacag gttcagaaat cagaaaaaga
2881 aaccctgatg acttcaaacc caaagggaag ctgtgggccg atgacaacag aagtgttgac
2941 tacaatgaga aactagactt tgaagccccc ccaagcatat ggtctagaat tgtgagcttt
3001 ggttctggct ggggcttctg ggtatcacca agcctgttca taacatcaac tcatgtaatc
3061 cccgcaggca taacagaagc atttggagtc cccatcaaac aaattcaggt ccacaaatca
3121 ggtgaatttt gccgattcag attcccaaaa ccaattagac cagatgtgac aggaatgatc
3181 ttggaagaag gtgcgcctga aggcaccgtg gcaactgtgc tcatcaaacg ccccaccgga
3241 gagctcatgc ctcttgcagc cagaatggga acacgcgcaa ccatgaaaat tcaaggccgc
3301 atggttggcg gacaaatggg tatgttgctc actggatcaa atgctaaagg aatggatttg
3361 ggaacaactc ctggtgactg tggctgtcct tacatctata aaaggggcaa tgactatata
3421 gtcattgggg tgcacactgc agcagcccgt ggcggaaaca ccgtcatctg tgccacacag
3481 ggaagtgagg gtgaggcaac tcttgagggt ggagatgaca aaggaacata ctgtggggca
3541 cccattctag gccctggggg tgcaccaaaa ttgagcacca aaaccaaatt ttggaggtca
3601 tcgaacacgc ctcttccacc agggacatat gagcctgcct acctcggtgg ccgtgatccg
3661 cgtgttaagg gtgggccctc cttgcagcag gtaatgagag accagttgaa gccattcact
3721 gaacccaggg gcaaacctcc aagaccaagt gtattggaag cagccaaaca aaccattatc
3781 aatgtcctcg aacaaaccct ggaccctcca caaaaatgga catacgcaca ggcgtgtgcc
3841 tcacttgaca aaaccacctc cagcgggcat ccccatcacg tccgaaagaa tgaattctgg
3901 aatggtgaga ccttcactgg taaattggca gaccaagcat caaaagcaaa cctaatgttt
3961 gaggaaggga aacacatgac accagtgtat acagcagcac tcaaggacga gctagtcaag
4021 actgagaaaa tctatggaaa gatcaagaag agactgctct ggggctctga cttgtccacc
4081 atgatccggt gcgctaggtc atttggtggg ctcatggatg agatgaaggc acactgcata
4141 tcactcccag tacgagttgg catgaatatg aatgaagatg gcccaataat atttgagaaa
4201 cattccagat acaaatacca ctatgatgca gactactctc gttgggattc aacacaacag
4261 agggcagtac tagcagcagc cttggaaatc atggtcagat tctctgcaga accacaattg
4321 gcacaaatag tcgctgagga tctgctggcc cctagtgtag tagatgtagg agactttaaa
4381 atcacaataa atgaagggct cccatctggt gtgccatgca cttctcaatg gaactccatc
4441 gcacactggc tgctaactct ctgtgccttg tctgaagtca ccaaactgtc ccctgacatt
4501 atacaagcaa attccatgtt ctcattttac ggtgatgacg agattgttag caccgacata
4561 aaattggacc ctgaacagtt aaccgccaaa ttgaaggagt acggcctgaa accaacccgc
4621 ccagacaaga ccgagggacc cctgatcatc agtgaagatt tgaacggact cactttcctc
4681 cgaaggacgg tgactcgtga cccagctggc tggtttggaa aactggacca aaactcaata
4741 ttgaggcaga tgtactggac tagaggacca aatcatgaag accccaatga gacaatgata
4801 ccccattctc aaagacccat acagctcatg gcactgcttg gtgaagcctc tcttcacgga
4861 ccctctttct acagtaaaat cagtaagttg gtcataactg aactcaaaga aggtgggatg
4921 gacttttacg tgccaaggca ggaacccatg ttcaggtgga tgaggttttc tgacttgagc
4981 acgtgggagg gcgatcgcaa tctggctccc aattttgtga atgaagatgg cgtcgagtga
5041 cgccaaccca tctgatgggt ccgcagccaa cctcgtacca gaggtcaaca atgaggttat
5101 ggctttggag cccgttgttg gtgccgctat tgcggcacct gtagcgggcc aacaaaatgt
5161 aattgacccc tggattagaa ataattttgt acaagcccct ggtggggagt ttacagtatc
5221 ccctagaaac gctccaggtg aaatactatg gagcgcgccc ctaggccctg acctaaatcc
5281 ctacctatcc catttggcca gaatgtacaa tggttatgca ggtggttttg aagtgcaggt
5341 aattctcgcg gggaacgcgt tcaccgccgg gaagatcata tttgcagcag tcccaccaaa
5401 ttttccaact gaaggcttaa gtcctagcca ggtcactatg ttcccccata taatagtaga
5461 tgttagacaa ttagaacctg tgctgattcc cttacccgat gtcaggaata atttctatca
5521 ttacaatcag tcaaatgact ccactattaa gttgatagca atgttgtaca caccacttag
5581 ggctaataat gctggggatg atgttttcac agtttcgtgc cgagttctca cgagaccatc
5641 ccccgatttt gatttcatat ttttagtgcc acccacagtt gagtcaagaa ctaaaccatt
5701 ctctgtccca gttttaactg ttgaggagat gaccaattca agattcccca ttcctttgga
5761 aaagttgttc acgggcccca gcagtgcctt tgttgttcaa ccacaaaacg gcaggtgcac
5821 aactgatggc gtgctcctag gcaccaccca actgtctcct gtcaacatct gcaccttcag
5881 aggggatgtc acccacatca caggtagtcg caactacaca atgaatttgg cttctcaaaa
5941 ttggaacaac tatgacccaa cagaagaaat cccagcccct ctaggaactc cagattttgt
6001 ggggaagatt caaggcatgc tcacccaaac cacaaggaca gatggttcaa cacgcggcca
6061 caaagctaca gtgtacactg ggagcgccga cttttctcca aaactaggta gagttcaatt
6121 tgaaactgac acagaccatg attttgaagc taaccaaaac acaaagttca ccccagtcgg
6181 tgtcatccaa gatggtagca ccacccaccg aaacgaaccc caacagtggg tgctcccaag
6241 ttactcaggc agaaatactc acaatgtaca tctggccccc gctgtagccc ccacctttcc
6301 gggtgagcaa cttctcttct tcagatccac catgcccgga tgcagcgggt accccaacat
6361 ggatttggac tgtctgctcc cccaggaatg ggtgcagtac ttctaccaag aggcagcccc
6421 agcacaatct gatgtggctc tgctaagatt tgtgaatcca gacacaggta gggttttgtt
6481 tgagtgcaag cttcacaaat caggctatgt tacagtggct cacactggcc aacatgattt
6541 ggttatcccc cccaatggtt actttaggtt tgattcctgg gtcaaccagt tctacacgct
6601 tgcccccatg ggaaatggaa cggggcgtag acgtgtagta taatggctgg agctttcttt
6661 gctggattgg catctgatgt ccttggctcc ggacttggtt cccttatcaa tgctggggct
6721 ggggccatca accaaaaagt tgagtttgaa aataacagaa aattgcaaca agcatccttc
6781 caatttagca gcaatctgca acaggcttcc tttcaacatg ataaagagat gctccaagca
6841 caaattgagg ccaccaaaaa gctacaacag gaaatgatga aagttaagca ggcaatgctc
6901 ctagagggtg ggttctctga gacagatgca gcccgcgggg caattaacgc ccccatgaca
6961 aaagctttgg actggagcgg gacaaggtac tgggctcccg atgctaggac tacaacatat
7021 aatgcaggcc gcttttccac ccctcaacca tcgggggcac tgccaggaag agctaatctt
7081 agggatgctg tccctgctcg gggaccctcc aacaaatctt ttaactcttc tactgccacc
7141 tctgtgtact caaatcaaac tatttcaacg aggcttggtt ctacagctgg ttctggaacc
7201 agtgtctcga gcctcccgtc aactgcaagg actaggagct gggttgagga tcaaagtagg
7261 aatttgtcac ctttcatgag gggggcccac aacatatcat ctgtcacccc accatctagc
7321 agatcctcta gccaaggcac agtctcaacc gtgcctaaag agattttgga ctcctggact
7381 ggcgctttca acacgcgcag gcagcctctc ttcgctcaca ttcgtaagcg aggggagtca
7441 cgggtgtaat gtgaaaagac aaaactgatt atc
//