Typing tool
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Typing tool
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Complete norovirus genomes
| MK752948 | GII.4 Sydney | |
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| GII.P31 |
ORF1: 1..5052
ORF2: 5033..6655
ORF3: 6655..7457
LOCUS MK752948 7457 bp RNA linear VRL 11-APR-2019
DEFINITION Norovirus GII isolate Hu/US/2013/GII.Pe-GII.4 Sydney/Walworth0399
nonstructural polyprotein (ORF1) gene, partial cds; VP1 (ORF2)
gene, complete cds; and VP2 (ORF3) gene, partial cds.
ACCESSION MK752948
VERSION MK752948.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7457)
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JOURNAL Unpublished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 7457)
AUTHORS Barclay,L., Cannon,J.L., Davis,T., Montmayeur,A.M., Tatusov,R.L.
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..7457
/organism="Norovirus GII"
/mol_type="genomic RNA"
/strain="Walworth0399"
/isolate="Hu/US/2013/GII.Pe-GII.4 Sydney/Walworth0399"
/isolation_source="stool"
/host="Homo sapiens"
/db_xref="taxon:122929"
/country="USA"
/collection_date="24-Nov-2013"
/note="genotype: GII.Pe-GII.4 Sydney"
gene <1..5052
/gene="ORF1"
CDS <1..5052
/gene="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="QBS47675.1"
/translation="NNDIAKSSSDGVFSNMAVTFKRALGARPKQPPPKEIPPRPPRPP
TPELVKKIPPPPPNGEDELVVSYSAKDGVSGLPELTTVRQPEETNTAFSVPPLNQRES
RDAKEPLTGTIIEMWDGEIYHYGLYVERGLILGVHKPPAAISLAKVELTPLSLFWRPV
YTPQYLISPDTLRRLHGESFPYTAFDNNCYAFCCWVLDLNDSWLSRRMIQRTTGFFRP
YQDWNRKPLPTMDDSKLKKVANIFLCTLSSLFTRPIKDIIGKLKPLNILNILATCDWT
FAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPEDLAVELVPIVMGGIGLV
LGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFPKKEEANELAMVRSIED
AVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARKLSTKSASPDIVGTINSLLA
RIAAARSLVHRAKEELSSRPRPVVVMISGRPGIGKTHLARELAKKIAASLTGDQRVGL
IPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTCPLTLNCDRIENKGKVF
DSDAIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEKAKRDFPGQPDMWKNAF
SPDFSHIKLSLAPQGGFDKNGNTPHGKGVMKTLTTGSLIARASGLLHERLDEYELQGP
ALTTFNFDRNKILAFRQLAAENKYGLVDTMRVGKQLKDVKTMSDLKQALKNIEIKKCQ
IVYNGNTYTLEADGKGSVKVDKVQSATVQTNNELAGALHHLRCARIRYYVKCVQEALY
SIIQIAGAAFVTTRIAKRMNIQNLWSKPQVEDTEEMTNKDGCLKPKNDEEFVVSSEDI
RTEGKKGKNKSGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKYSIEEYLQDRDRYYE
EVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGLVTGSEIRKRNPEDFKPK
GKLWADDDRSVDYNEKLNFEAPPSIWSRIVNFGSGWGFWVSPSLFITSTHVIPQGAKE
FFGVPIKQIQIHKSGEFCRLRFPKPIRTDVTGMILEEGAPEGTVATLLIKRPTGELMP
LAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGDCGCPYIYKRGNDYVVI
GVHTAAARGGNTVICATQGSEGEATLEGGDSKGTYCGAPILGPGSAPKLSTKTKFWRS
STTPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKPFTEPRGKPPRPNVLEAAKKT
IINVLEQTIDPPQKWSFAQACASLDKTTSSGHPHHIRKNECWNGESFTGKLADQASKA
NLMFEEGKNMTPVYTGALKDELVKTDKVYGKIKKRLLWGSDLATMIRCARAFGGLMDE
LKAHCVTLPVRVGMNMNEDGPIIFEKHSRYRYHYDADYSRWDSTQQRDVLAAALEIMV
KFSPEPHLAQVVAEDLLSPSVMDVGDFQISISEGLPSGVPCTSQWNSIAHWLLTLCAL
SEVTDLSPDIIQANSLFSFYGDDEIVSTDIKLDPEKLTTKLKEYGLKPTRPDKTEGPL
VISEDLDGLTFLRRTVTRDPAGWFGKLEQSSILRQMYWTRGPNHEDPFETMIPHSQRP
IQLMSLLGEAALHGPAFYSKISKLVIAELKEGGMDFYVPRQEPMFRWMRFSDLSTWEG
DRNLAPSFVNEDGVE"
mat_peptide <1..942
/gene="ORF1"
/product="p48"
mat_peptide 943..2040
/gene="ORF1"
/product="NTPase"
mat_peptide 2041..2577
/gene="ORF1"
/product="p22"
mat_peptide 2578..2976
/gene="ORF1"
/product="VPg"
mat_peptide 2977..3519
/gene="ORF1"
/product="Pro"
mat_peptide 3520..5049
/gene="ORF1"
/product="RdRp"
gene 5033..6655
/gene="ORF2"
CDS 5033..6655
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="QBS47676.1"
/translation="MKMASSDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ
QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
FEVQVILAGNAFTAGKVIFAAVPPNFPTEGLSPSQVTMFPHIVVDVRQLEPVLIPLPD
VRNNFYHYNQSNDPTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT
QLSPVNICTFRGDVTHITGSRNYTMNLASQNWNNYDPTEEIPAPLGTPDFVGKIQGVL
TQTTRTDGSTRGHKATVYTGSADFAPKLGRVQFETDTDHDFEANQNTKFTPVGVIQDG
STTHRNEPQQWVLPSYSGRNTHNVYLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD
CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV
IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRAV"
gene 6655..>7457
/gene="ORF3"
CDS 6655..>7457
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="QBS47677.1"
/translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA
SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQEMMKVKQAVLLEGGFSETDAARGAIN
APMTKALDWSGTRYWAPDARTTTYNAGRFSTPQPSGALPGRANLRDAVPARGSSSKSS
NSSTATSVYSNQTTSTRLGSTAGSGTSVSSLPSTARTRSWVEDQSRNLSPFMRGAHNI
SFVTPPSSRSSSQGTVSTVPKEVLDSWTGAFNTRRQPLFAHIRKRGESRA"
ORIGIN
1 aacaacgaca tcgcaaaatc ttcaagtgac ggtgtgtttt ctaacatggc tgtcactttt
61 aagcgggccc tcggggcgcg gcctaaacag ccgcccccga aggagatacc acccagaccc
121 ccgcgaccac ccacaccaga attggtcaaa aagatccctc ctcccccacc caacggggag
181 gatgaactag tggtctctta cagcgccaaa gatggcgttt ccggactgcc tgagctcacc
241 actgtcagac aaccggaaga aaccaacacg gcgttcagtg tccccccact caaccaaagg
301 gagagcaggg acgccaagga gccactaact ggaacaatta ttgaaatgtg ggatggagaa
361 atctaccact acggcctgta cgtggaacgg ggccttatac ttggcgtgca caagccaccg
421 gcagccatca gccttgccaa ggtcgagcta acaccgctct ctttgttctg gagacctgta
481 tacacccccc agtatctcat ctctccagac actcttagga gattacatgg agagtcattc
541 ccctacactg catttgacaa caattgctac gccttttgtt gttgggtatt agacctaaac
601 gactcatggc taagcaggag aatgattcag agaacaacag gtttcttcag gccgtaccag
661 gattggaaca ggaaacccct tcccactatg gatgattcca aattaaagaa ggtagccaac
721 atattcttgt gcactttgtc ttcactattc actagaccca ttaaggacat aatagggaag
781 ttgaaacctc tcaacatcct taacattctg gctacatgtg attggacctt cgcaggcata
841 gtggaatctt taatactctt agcagaactc tttggagttt tctggacacc cccagatgtg
901 tctgcgatga tcgccccctt gctaggtgat tatgaactgc aaggacctga ggaccttgca
961 gtggaactgg tcccaatagt gatggggggg ataggtttgg tgttaggatt taccaaagag
1021 aaaattggaa agatgctatc atccgctgca tccactttaa gagcttgtaa agaccttggt
1081 gcatacggac tggaaatctt aaaattggtc atgaagtggt tcttcccaaa gaaagaggaa
1141 gcaaatgaac tggctatggt gagatccatc gaggatgcag tgctagacct cgaggcaatt
1201 gaaaacaacc acatgaccac cctactcaaa gacaaagaca gcttggcaac ctacatgaga
1261 accctcgacc ttgaggagga gaaagccaga aaactctcaa ccaaatctgc ttcacccgat
1321 attgtgggca caatcaactc tcttctggca agaatcgctg ctgcacgctc cctagtgcat
1381 cgggcgaaag aagagctctc cagcaggccg agacctgtcg ttgtgatgat atcgggaaga
1441 ccagggatag ggaaaactca ccttgccagg gagctggcca agaagatcgc ggcctccctc
1501 acaggggatc agcgtgtggg tctcatccca cgcaatggtg tcgaccactg ggacgcatac
1561 aagggcgaaa gagttgtcct gtgggacgac tatggaatga gcaaccccat ccatgatgcc
1621 ctcaggttgc aggagcttgc tgacacttgc cccctcacgc taaattgtga tagaattgag
1681 aacaaaggga aggtctttga cagtgatgcc ataattatca ccaccaatct ggccaaccca
1741 gcaccactgg attatgtcaa ctttgaagcg tgctcgagac gtattgactt cctcgtgtac
1801 gcagaagccc ctgaggtgga gaaggcaaag cgcgacttcc caggccaacc tgacatgtgg
1861 aagaacgctt tcagtcctga cttctcccac ataaaactgt cattggctcc acagggcggt
1921 tttgacaaga acggcaacac cccgcatgga aaaggggtca tgaaaaccct caccactggc
1981 tccctcatcg cccgagcatc agggttactc catgagaggc tagatgaata tgaactgcaa
2041 ggcccagccc tcaccacttt caactttgat cgcaacaaga tacttgcttt tagacagctt
2101 gctgctgaaa acaagtatgg gctggtggac acaatgagag ttggaaaaca gctcaaggat
2161 gtcaagacca tgtcagacct caaacaagca ctcaagaaca tcgagatcaa gaaatgccag
2221 atagtgtaca atggtaacac ctacacactt gaggccgatg gcaagggtag tgtgaaagtt
2281 gacaaagtgc aaagtgccac tgtgcagacc aacaatgaac tagccggtgc cctacaccac
2341 ctaaggtgcg ctagaatcag atactatgtt aagtgcgtcc aggaggcact gtattccatc
2401 atccaaatcg ctggggctgc attcgtcacc acgcgcattg ctaagcgcat gaatatacag
2461 aatctctggt ccaagccaca ggtggaagac acagaagaga tgaccaacaa agatggctgc
2521 ctaaaaccca aaaatgatga agagtttgtc gtctcttccg aagacatcag aactgagggc
2581 aagaaaggga agaacaagtc cggccgtggc aagaagcaca cagccttttc aagcaaaggg
2641 ctcagtgatg aggagtacga tgagtacaag agaatcagag aagaaaggaa tggtaagtac
2701 tccatagaag agtaccttca ggacagagac aggtactacg aggaggtggc cattgccagg
2761 gcaaccgaag aggacttctg tgaagaagaa gaggccaaaa tccggcagag aattttcaga
2821 ccaacaagga aacaacgcaa agaagagagg gcctctctcg gcttggtcac aggctctgaa
2881 atcaggaaga gaaacccaga agacttcaaa cccaagggaa agctgtgggc tgatgatgac
2941 agaagtgttg actacaatga gaaactcaac tttgaggccc caccaagcat ctggtcgcgg
3001 atagtcaact ttggttcagg ctggggcttc tgggtctccc ccagtttgtt tataacatca
3061 acccatgtca taccccaagg tgcaaaagag ttcttcggag tccctatcaa gcaaatccag
3121 atacacaaat caggtgaatt ctgccggttg agattcccaa agccaatcag aactgatgtg
3181 acgggtatga ttctagaaga aggtgcgccc gaggggaccg tggccacact gctcatcaag
3241 agaccaactg gagagctcat gcctctggca gccagaatgg ggacccatgc aaccatgaaa
3301 attcaggggc gcacagttgg agggcaaatg ggtatgctcc tgacaggatc caacgccaag
3361 agtatggacc taggcacaac accaggcgac tgcggctgcc cctacatcta caagaggggg
3421 aatgactacg tggtcatagg agtccacacg gccgctgccc gtggaggaaa cactgtcata
3481 tgtgccaccc aggggagtga gggagaagcc acacttgaag gaggtgacag taaagggaca
3541 tactgtggcg caccaatctt gggcccaggg agcgctccga agctcagtac caagactaag
3601 ttttggagat catccacaac accactccca cctggcacct acgaaccagc ctacctcggt
3661 ggcaaagacc ccagagtcaa aggtggccct tcattgcaac aagttatgag ggaccagcta
3721 aagccattca cagaacccag aggcaaacca ccaagaccaa atgtgttgga agctgccaag
3781 aaaaccatca tcaatgtcct tgagcaaaca attgatccac cccaaaaatg gtcatttgcg
3841 caagcttgcg catcccttga caaaaccacc tccagcggcc acccgcacca catacggaaa
3901 aacgagtgtt ggaatgggga gtccttcaca ggaaaattgg ctgatcaagc ctccaaggcc
3961 aacctaatgt ttgaagaggg aaagaacatg actccagtct acacaggtgc acttaaagat
4021 gagttggtaa agaccgataa agtttatggt aagatcaaga agaggcttct gtggggttca
4081 gatctggcga ccatgatacg gtgcgcccga gcttttggag gccttatgga tgaactcaag
4141 gcgcactgtg tcacacttcc tgtcagagtt ggtatgaaca tgaatgagga tggccccatc
4201 atctttgaga agcactccag atatagatat cactatgatg ctgattattc ccggtgggac
4261 tcaacacagc aaagggatgt gctagcagca gcactagaaa tcatggttaa gttctctcca
4321 gaaccacacc tggcccaggt agttgcagaa gacctccttt cccctagcgt aatggatgta
4381 ggtgactttc aaatatcaat aagtgagggt cttccatctg gggtaccttg tacctcccaa
4441 tggaattcca tcgctcactg gctcctcact ctttgtgcac tctctgaagt cacggacctg
4501 tcccctgaca tcattcaggc caactccctt ttctccttct atggtgatga tgagattgta
4561 agcacagaca taaagttgga cccagagaag ctgacaacaa aactcaagga gtacgggctg
4621 aaaccaaccc gccccgacaa aactgaagga ccccttgtta tctctgaaga cctggatggc
4681 ctgacattcc tccggagaac tgtgacccgt gatccagctg gctggtttgg aaaactggaa
4741 caaagttcaa ttctcagaca aatgtactgg accaggggtc ccaaccatga agatccattt
4801 gaaacaatga taccacactc ccaaagaccc atacaattga tgtccttgct gggcgaggct
4861 gcactccacg gcccggcatt ttatagcaaa attagcaaat tagtcattgc agagttgaag
4921 gaaggtggta tggattttta cgtgcccaga caagagccaa tgttcagatg gatgagattc
4981 tcagatctga gcacgtggga gggcgatcgc aatctggctc ccagttttgt gaatgaagat
5041 ggcgtcgagt gacgccaacc catctgatgg gtccgcagcc aacctcgtcc cagaggtcaa
5101 caatgaggtt atggctctgg agcccgttgt tggtgccgcc attgcggcac ctgtagcggg
5161 ccaacaaaat gtaattgacc cctggattag aaacaatttc gtacaagccc ctggtggaga
5221 gtttacagta tcccctagaa acgctccagg tgaaatacta tggagcgcgc ccttgggccc
5281 tgatctaaat ccctacctat cccatttggc cagaatgtac aatggttatg caggtggttt
5341 tgaagtgcag gtaattctcg cggggaacgc gttcaccgcc gggaaggtta tatttgcagc
5401 agtcccacca aattttccaa ctgaaggctt gagccccagc caggtcacta tgttccccca
5461 tatagtagta gatgttaggc aactagaacc tgtgttgatt cccttacccg atgttaggaa
5521 taatttctat cattataatc aatcaaatga ccccaccatt aagttgatag caatgttgta
5581 tacaccactt agggctaata atgctgggga tgatgtcttc acagtctctt gccgagttct
5641 cacgagacca tcccccgact ttgatttcat atttctagtg ccacccacag ttgagtcaag
5701 aactaaacca ttctctgtcc cagtcttaac tgttgaggag atgaccaatt caagattccc
5761 cattcctttg gaaaagttgt tcacgggtcc cagcagtgcc tttgttgtcc aaccacaaaa
5821 cggcaggtgc acgactgatg gcgtgctcct aggcaccacc caactgtctc ctgtcaacat
5881 ctgcaccttc agaggagacg tcacccatat cacaggtagt cgtaactaca caatgaattt
5941 ggcttctcaa aattggaaca attatgaccc aacagaagaa atcccagccc ctctaggaac
6001 tccagacttt gtggggaaga ttcagggcgt gctcacccaa accacaagga cagatggctc
6061 aacacgcggc cacaaagcca cagtgtacac tgggagcgcc gactttgctc caaaactggg
6121 tagagttcaa tttgaaactg acacagacca tgattttgaa gctaaccaaa acacaaagtt
6181 caccccagtc ggtgtcatcc aagatggtag caccacccac cgaaatgaac cccaacagtg
6241 ggtgctccca agttactcag gcagaaatac tcataatgtg tatctggccc ccgctgtagc
6301 ccccactttt ccgggtgagc aacttctctt cttcagatcc accatgcccg gatgcagcgg
6361 gtaccccaac atggatttgg actgcctgct cccccaggaa tgggtgcagt acttctacca
6421 agaggcagcc ccagcacaat ctgatgtggc tctgctaaga tttgtgaatc cagacacagg
6481 tagggttttg tttgagtgta agcttcataa atcaggctat gttacagtgg ctcatactgg
6541 ccaacatgat ttggttattc cccccaatgg ttattttaga tttgattcct gggtcaacca
6601 gttctacacg cttgccccca tgggaaatgg aacggggcgt agacgtgcag tataatggct
6661 ggagctttct ttgctggatt ggcatctgat gtccttggct ctggacttgg ttcccttatc
6721 aatgctgggg ctggggccat caaccaaaaa gttgagtttg aaaataacag aaaattgcaa
6781 caagcatcct tccaatttag cagcaattta caacaggctt cctttcaaca tgacaaagag
6841 atgctccaag cacaaattga ggccaccaaa aagctacaac aggaaatgat gaaagttaag
6901 caggcagtgc tcctagaggg tgggttctct gagacagatg cagcccgcgg ggcaatcaac
6961 gcccccatga caaaagctct ggactggagc gggacaaggt actgggctcc cgatgctagg
7021 actacaacat acaatgcagg ccgcttttcc acccctcaac catcgggggc actgccagga
7081 agggctaatc ttagggatgc tgtccctgct cggggttctt ctagtaaatc ttctaactct
7141 tctactgcca cttctgtgta ctcaaatcaa actacttcaa cgagacttgg ttctacagct
7201 ggttctggta ccagtgtctc gagcctcccg tcaactgcaa ggactaggag ctgggttgag
7261 gatcaaagta ggaatttgtc acctttcatg aggggggccc acaacatatc gtttgtcacc
7321 ccaccatcta gcagatcctc tagccaaggc acagtctcaa ccgtgcctaa agaggttttg
7381 gactcctgga ctggcgcttt caatacgcgc aggcagccac tcttcgctca cattcgtaag
7441 cgaggggagt cacgagc
//