Typing tool
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Typing tool
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Complete norovirus genomes
| MK753029 | GII.4 Sydney | |
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| GII.P16 |
ORF1: 1..4736
ORF2: 4717..6339
ORF3: 6339..7145
LOCUS MK753029 7146 bp RNA linear VRL 11-APR-2019
DEFINITION Norovirus GII isolate Hu/US/2016/GII.P16-GII.4 Sydney/SanDiego0043
nonstructural polyprotein (ORF1) gene, partial cds; and VP1 (ORF2)
and VP2 (ORF3) genes, complete cds.
ACCESSION MK753029
VERSION MK753029.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norovirus norwalkense.
REFERENCE 1 (bases 1 to 7146)
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JOURNAL Unpublished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 7146)
AUTHORS Barclay,L., Cannon,J.L., Pan,C.-Y., 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..7146
/organism="Norovirus GII"
/mol_type="genomic RNA"
/strain="SanDiego0043"
/isolate="Hu/US/2016/GII.P16-GII.4 Sydney/SanDiego0043"
/isolation_source="stool"
/host="Homo sapiens"
/db_xref="taxon:122929"
/geo_loc_name="USA"
/collection_date="03-Jan-2016"
/note="genotype: GII.P16-GII.4 Sydney"
gene <1..4736
/gene="ORF1"
CDS <1..4736
/gene="ORF1"
/codon_start=3
/product="nonstructural polyprotein"
/protein_id="QBS54657.1"
/translation="AKEPLTGAILEMWDGEIYHYGLYVEKGLVLGVHKPPAAISMARV
ELTPLSLYWRVVYTPQYLISPETLRRLNGEAFPYTAFDNNCYAFCCWVLDLNDSWLSR
RMVQRTTGFFRPYQEWNRKPLPTMDDSKIKKVANIFLCSLSTLFTRPIKDLIGKIKPL
NILNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPEDLAVE
LVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFPKKEE
ANELAMVRAIEDAVLDLEAIENNHMTTLLKDKDSLATYMKTLDMEEEKARRLSTKSAS
PDIVGTINALLARIAAARSLVHRAKEELSSRIRPVVVMISGKPGIGKTHLAREVARKV
ASTLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRIQELADTCPLTL
NCDRIENKGKVFDSEVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEKAKRD
FPGQPDMWKDVFKPDFSHIKLQLAPQGGFDKNGNTPHGKGVMKTLTTGSLIARASGLL
HERMDEFELQGPTITTFNFDRNRITAFRQLAAENKYGLVDTMKVGNQLKGVKTMEELK
QAIRNVTIKRCRIIYGGSTYDLESDGKGKVLVEKVKNTSVQTNNELAGALHHLKHARI
RYYVKCVQEAVYSIIQIAGAAFVTTRIVRRMNIQELWSKPQLDQNESETKEEAPKSED
DEFIISSKDIKEEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKYSIEE
YLQDRDRYYEELAIAKATEEDFCEEEEIKIRQRIFRPTRKQRKEERATLGLVTGSEIR
KRNPDDFKPKGKLWADDNRSVDYNEKLDFEAPPSIWSRIVSFGSGWGFWVSPSLFITS
THVIPAGITEAFGVPIKQIQIHKSGEFCRFRFPKPIRPDVTGMILEEGAPEGTVATVL
IKRPTGELMPLAARMGTHATMKIQGRMVGGQMGMLLTGSNAKGMDLGTTPGDCGCPYI
YKRGNDYIVIGVHTAAARGGNTVICATQGSEGEATLEGGDDKGTYCGAPILGPGGAPK
LSTKTKFWRSSNTPLPPGTYEPAYLGGRDPRVKGGPSLQQVMRDQLKPFTEPRGKPPR
PSVLEAAKQTIINVLEQTLDPPQKWTYAQACASLDKTTSSGHPHHVRKNEFWNGETFT
GKLADQASKANLMFEEGKHMTPVYTAALKDELVKTEKIYGKIKKRLLWGSDLSTMIRC
ARSFGGLMDEMKAHCISLPVRVGMNMNEDGPIIFEKHSRYKYHYDADYSRWDSTQQRA
VLAAALEIMVRFSAEPQLAQIVAEDLLAPSVVDVGDFKITINEGLPSGVPCTSQWNSI
AHWLLTLCALSEVTKLSPDIIQANSMFSFYGDDEIVSTDIKLDPEQLTAKLKEYGLKP
TRPDKTEGPLIISEDLNGLTFLRRTVTRDPAGWFGKLDQSSILRQMYWTRGPNHEDPN
ETMIPHSQRPIQLMALLGEASLHGPSFYSKISKLVITELKEGGMDFYVPRQEPMFRWM
RFSDLSTWEGDRNLAPNFVNEDGVE"
mat_peptide <1..632
/gene="ORF1"
/product="p48"
mat_peptide 633..1730
/gene="ORF1"
/product="NTPase"
mat_peptide 1731..2261
/gene="ORF1"
/product="p22"
mat_peptide 2262..2660
/gene="ORF1"
/product="VPg"
mat_peptide 2661..3203
/gene="ORF1"
/product="Pro"
mat_peptide 3204..4733
/gene="ORF1"
/product="RdRp"
gene 4717..6339
/gene="ORF2"
CDS 4717..6339
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="QBS54658.1"
/translation="MKMASSDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ
QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
FEVQVILAGNAFTAGKIIFAAVPPNFPTEGLSPSQVTMFPHIIVDVRQLEPVLIPLPD
VRNNFYHYNQSNDSTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT
QLSPVNICTFRGDVTHITGSRNYTMNLASQNWNNYDPTEEIPAPLGTPDFVGKIQGML
TQTTRTDGSTRGHKATVYTGSADFAPKLGRVQFETDTDHDFEANQNTKFTPVGVIQDG
STTHRNEPQQWVLPSYSGRNTHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD
CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV
IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRVV"
gene 6339..7145
/gene="ORF3"
CDS 6339..7145
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="QBS54659.1"
/translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA
SFQFSSNLQQASFQHDKEMLQAQIEATKRLQQEMMKVKQAMLLEGGFSETDAARGAIN
APMTKALDWSGTRYWAPDARTTTYNAGRFSTPQPSGALPGRANLRDAVPARGPSNKSS
NSSTATSVYSNQTISTRLGSTAGSGTSVSSLPSTARTRSWVEDQSRNLSPFMRGAHNI
SFVTPPSSRSSSQGTVSTVPKEILDSWTGAFNTRRQPLFAHIRKRGESRV"
ORIGIN
1 aggccaagga accgttaaca ggggcaatat tagagatgtg ggatggagag atataccact
61 atggcctgta cgtggagaaa ggcttagtgt tgggtgtgca caaaccacct gcagccataa
121 gcatggcaag agtggagctg acgccgctgt cattgtactg gcgtgtggtg tacactcccc
181 aatacctcat ctcccctgaa actctcagga ggctcaacgg agaggcgttc ccttacaccg
241 cctttgacaa caactgctat gccttttgct gctgggtgtt agacctcaat gactcatggc
301 ttagcaggag gatggtgcaa agaacaacgg gcttcttcag accttaccaa gagtggaaca
361 gaaaacccct gcctaccatg gatgactcca aaattaagaa ggtagcaaat atattcctat
421 gttcattgtc cacattattc accagaccca taaaagacct cataggaaaa attaaaccat
481 taaacatatt gaacatcctg gcaacgtgtg actggacgtt tgccggaata gtggagtctc
541 tgatattact tgctgaactc ttcggagttt tctggacacc cccagatgtg tctgctatga
601 tcgctccctt actcggggac tacgagttgc aagggccaga agacctcgcc gttgaactcg
661 tacctgtggt aatgggaggg attggtttgg tgttgggatt caccaaagag aaaattggca
721 aaatgttgtc ctcagcagca tcaacactca gggcttgcaa agatcttggt gcctatggct
781 tagagatact caaattggtc atgaagtggt tcttcccaaa gaaagaggag gccaatgagc
841 tagccatggt gagggccata gaggatgccg tactagatct tgaggcaata gaaaataacc
901 acatgacaac cctgttgaaa gacaaagaca gcttagcaac atacatgaaa acactggaca
961 tggaggagga gaaagccaga aggttgtcca caaaatctgc atcccctgac atagttggaa
1021 caatcaacgc cctgctggct cgaatagcag cggccaggtc attagtccac agggccaagg
1081 aagagctatc tagcaggata agaccagtag ttgttatgat atctggcaaa ccaggaatag
1141 gcaaaactca tctggccagg gaggtggcaa gaaaggtggc atccactctc acaggggatc
1201 aaagagtcgg actcatacca agaaacggtg tggaccattg ggatgcatac aaaggtgaga
1261 gagtcgtgct gtgggacgac tatggcatga gtaaccccat tcatgatgct cttcgcatac
1321 aggaattggc tgatacgtgt ccccttacct taaattgtga cagaattgag aataagggaa
1381 aagtttttga cagtgaagtc ataataatta caacaaacct tgccaatcca gccccacttg
1441 attatgtcaa ctttgaggcc tgttccagga gaattgattt cctggtgtac gctgaggcac
1501 cagaagtaga aaaggcaaaa cgggactttc ctggtcagcc agatatgtgg aaggacgtct
1561 tcaagccgga cttttcacac atcaagctac agcttgcacc tcagggcggt tttgacaaga
1621 atggcaacac cccacatggg aaaggagtga tgaagaccct cactaccggt tctctgattg
1681 cccgtgcatc aggcctactg catgagagga tggatgaatt tgaactccaa ggtcccacaa
1741 tcaccacctt caatttcgac cggaacagaa tcacagcatt cagacaattg gctgcagaaa
1801 acaagtatgg attggtggat accatgaaag ttggcaacca actaaaagga gtgaaaacca
1861 tggaagaact caaacaagca atcaggaatg tgaccatcaa gaggtgccgg atcatctacg
1921 gtggctccac gtatgacctt gaatctgatg gcaagggcaa agttttggtg gaaaaggtca
1981 agaacacctc tgtacagacc aacaacgagt tggccggggc cctgcaccat ctcaaacacg
2041 cccgaattag gtactatgtc aaatgtgtgc aagaagcagt ctattccatc atacaaattg
2101 ccggcgctgc gtttgtcacc acgcgcattg tacgccgcat gaacatacaa gaactctggt
2161 cgaagccaca attagatcaa aatgaatcag agactaagga agaggccccc aagtcagaag
2221 atgacgagtt catcatatct tctaaggaca tcaaggagga aggaaagaag ggcaaaaaca
2281 aaactggccg tggcaagaaa cacactgcat tctccagcaa gggcttgagc gatgaggagt
2341 atgacgagta caagaggata agagaagaga gaaatgggaa gtactctata gaggagtatc
2401 ttcaagacag agacaggtac tatgaggagc tcgccattgc caaggccacg gaagaagact
2461 tctgtgaaga ggaggaaatc aaaatccgtc agagaatttt ccgtcccacc aggaaacaaa
2521 gaaaggaaga gagggccaca ttagggctag taacaggttc agaaatcaga aaaagaaacc
2581 ctgatgactt caaacccaaa gggaagctgt gggccgatga caacagaagt gttgactaca
2641 atgagaaact agactttgag gcccccccaa gcatatggtc taggattgtg agctttggtt
2701 ctggctgggg cttctgggta tcaccaagcc tgttcataac atcaactcat gtaatccccg
2761 caggcataac agaagcattt ggagtcccca ttaaacaaat tcagatccac aaatcaggtg
2821 aattttgccg attcagattc ccaaaaccaa ttagaccaga tgtgacagga atgatcttgg
2881 aagaaggtgc gcctgaaggc accgtggcaa ctgtgctcat caaacgcccc accggagagc
2941 tcatgcctct tgcagccaga atgggaacac acgcaaccat gaaaattcaa ggccgcatgg
3001 ttggcggaca aatgggtatg ttgctcactg gatcaaatgc taaaggaatg gatttgggaa
3061 caactcctgg tgactgtggc tgtccttaca tctataaaag gggcaatgac tatatagtca
3121 ttggggtgca cactgcagca gcccgtggcg gaaacaccgt catctgtgcc acacagggaa
3181 gtgagggtga ggcaactctt gaaggtggag atgacaaagg aacatactgt ggggcaccca
3241 ttctaggccc tgggggtgca ccaaaattga gcaccaaaac caaattttgg aggtcatcga
3301 acacgcccct tccaccaggg acatatgagc ctgcctacct cggtggccgt gatccgcgtg
3361 ttaagggtgg gccctccttg cagcaggtaa tgagagacca gttgaagcca ttcactgaac
3421 ccaggggcaa acctccaaga ccaagtgtgt tggaagcagc caaacaaacc attatcaatg
3481 tcctcgaaca aaccctggac cctccacaaa aatggacata cgcacaggcg tgtgcctcac
3541 ttgacaaaac cacctccagc gggcatcccc atcacgtccg aaagaatgaa ttctggaatg
3601 gtgagacctt cactggtaaa ttggcagacc aagcatcaaa agcaaaccta atgtttgagg
3661 aagggaaaca catgacacca gtgtatacag cagcactcaa ggacgagcta gtcaagactg
3721 agaaaatcta tggaaagatc aagaagagac tgctctgggg ctctgacttg tccaccatga
3781 tccggtgcgc taggtcattt ggtgggctca tggatgagat gaaggcacac tgcatatcac
3841 tcccagtacg agttggcatg aatatgaatg aagatggccc aataatattt gagaaacatt
3901 ccagatacaa atatcactat gatgcagatt actctcgctg ggattcaaca caacaaaggg
3961 cagtactagc agcagccttg gaaatcatgg tcagattctc tgcagaacca caattggcac
4021 aaatagtcgc tgaggatctg ctggccccta gtgtagtaga tgtaggagac tttaaaatca
4081 caataaatga agggctccca tctggtgtgc catgcacttc tcaatggaac tccatcgcac
4141 actggctgct aactctctgt gccttgtctg aagtcaccaa actgtcccct gacattatac
4201 aagcaaattc catgttctca ttttacggtg atgacgagat tgtcagcacc gacataaaat
4261 tggaccctga acagttaacc gccaaattga aggagtacgg cctgaaacca acccgcccag
4321 acaagaccga gggacccctg atcatcagtg aagatttgaa cggactcact ttcctccgaa
4381 ggacggtgac tcgtgaccca gctggctggt ttggaaaact ggaccaaagc tcaattttga
4441 ggcagatgta ctggactaga ggaccaaatc atgaagaccc caatgagaca atgatacccc
4501 attctcaaag acccatacag ctcatggcac tgcttggtga agcctctctt cacggaccct
4561 ctttctacag taaaatcagt aaattggtca taactgaact caaagaaggt gggatggact
4621 tttacgtgcc aaggcaggaa cccatgttca ggtggatgag gttttctgac ttgagcacgt
4681 gggagggcga tcgcaatctg gctcccaatt ttgtgaatga agatggcgtc gagtgacgcc
4741 aacccatctg atgggtccgc agccaacctc gtaccagagg tcaacaatga ggttatggct
4801 ttggagcccg ttgttggtgc cgctattgcg gcacctgtag cgggccaaca aaatgtaatt
4861 gacccctgga ttagaaataa ttttgtacaa gcccctggtg gggagtttac agtatcccct
4921 agaaacgctc caggtgaaat actatggagc gcgcccctag gccctgacct aaatccctac
4981 ctatcccatt tggccagaat gtacaatggt tatgcaggtg gttttgaagt gcaggtaatt
5041 ctcgcgggga acgcgttcac cgccgggaag atcatatttg cagcagtccc accaaatttt
5101 ccaactgaag gcttaagtcc tagccaggtc actatgttcc cccatataat agtagatgtt
5161 agacaattag aacctgtgct gattccctta cccgatgtca ggaataattt ctatcattac
5221 aatcagtcaa atgactccac tattaagttg atagcaatgt tgtatacacc acttagggct
5281 aataatgctg gggatgatgt tttcacagtt tcgtgccgag ttctcacgag accatccccc
5341 gattttgatt ttatattttt agtgccaccc acagttgagt caagaactaa accattctct
5401 gtcccagttt taactgttga ggagatgacc aattcaagat tccccattcc tttggaaaag
5461 ttgttcacgg gccccagcag tgcctttgtt gttcaaccac aaaacggcag gtgcacaact
5521 gatggcgtgc tcctaggcac cacccaactg tctcctgtca acatctgcac cttcagaggg
5581 gatgtcaccc acatcacagg tagtcgcaac tacacaatga atttggcttc tcaaaattgg
5641 aacaactatg acccaacaga agaaatccca gctcctctag gaactccaga ttttgtgggg
5701 aagattcaag gcatgctcac ccaaaccaca agaacagatg gttcaacgcg cggccacaaa
5761 gctacagtgt acactgggag cgccgacttt gctccaaaac tgggtagagt tcaatttgaa
5821 actgacacag accatgattt tgaagctaat caaaacacaa agttcacccc agtcggtgtc
5881 atccaagatg gtagcaccac ccaccggaac gaaccccaac agtgggtgct cccaagttac
5941 tcaggcagaa atactcacaa tgtacatctg gcccccgctg tagcccccac ctttccgggt
6001 gagcaacttc tcttcttcag atccaccatg cccggatgca gcgggtaccc caacatggat
6061 ttggactgtc tgctccccca ggaatgggtg cagtacttct accaagaggc agccccagca
6121 caatctgatg tggctctgct aagatttgtg aatccagaca caggtagggt tttgtttgag
6181 tgcaagcttc acaaatcagg ctatgttaca gtggctcaca ctggccaaca tgatttggtt
6241 atccccccca atggttactt caggtttgat tcctgggtca accagttcta cacgcttgcc
6301 cccatgggaa atggaacggg gcgtagacgt gtagtataat ggctggagct ttctttgctg
6361 gattggcatc tgatgtcctt ggctctggac ttggttccct tatcaatgct ggggctgggg
6421 ccatcaacca aaaagttgag tttgaaaata acagaaaatt gcaacaagca tccttccaat
6481 ttagcagcaa tctgcaacag gcttcctttc aacatgataa agagatgctc caagcacaaa
6541 ttgaggccac caaaaggcta caacaggaaa tgatgaaagt taagcaggca atgctcctag
6601 agggtgggtt ctctgagaca gatgcagccc gcggggcaat taacgccccc atgacaaaag
6661 ctttggactg gagcgggaca aggtactggg ctcccgatgc taggactaca acatataatg
6721 caggccgctt ttccacccct caaccatcgg gggcactgcc aggaagagct aatcttaggg
6781 atgctgtccc tgctcgggga ccctccaaca aatcttctaa ctcttctact gccacctctg
6841 tgtactcaaa tcaaactatt tcaacgagac ttggttctac agctggttct ggaaccagtg
6901 tctcgagcct cccgtcaact gcaaggacta ggagctgggt tgaggatcaa agtaggaatt
6961 tgtcaccttt catgaggggg gcccacaaca tatcattcgt caccccacca tctagcagat
7021 cctctagcca aggcacagtc tcaaccgtgc ctaaagagat tttggactcc tggactggcg
7081 ctttcaacac gcgcaggcag cctctcttcg ctcacattcg taagcgaggg gagtcacggg
7141 tgtaat
//