Typing tool
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Typing tool
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Complete norovirus genomes
| MK753028 | GII.4 Sydney | |
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| GII.P4 New Orleans |
ORF1: 1..5099
ORF2: 5080..6702
ORF3: 6702..7508
LOCUS MK753028 7553 bp RNA linear VRL 11-APR-2019
DEFINITION Norovirus GII isolate Hu/US/2014/GII.P4NewOrleans-GII.4
Sydney/Pima0257 nonstructural polyprotein (ORF1) gene, partial cds;
and VP1 (ORF2) and VP2 (ORF3) genes, complete cds.
ACCESSION MK753028
VERSION MK753028.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7553)
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JOURNAL Unpublished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 7553)
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..7553
/organism="Norovirus GII"
/mol_type="genomic RNA"
/strain="Pima0257"
/isolate="Hu/US/2014/GII.P4NewOrleans-GII.4
Sydney/Pima0257"
/isolation_source="stool"
/host="Homo sapiens"
/db_xref="taxon:122929"
/country="USA"
/collection_date="05-Jun-2014"
/note="genotype: GII.P4 New Orleans-GII.4 Sydney"
gene <1..5099
/gene="ORF1"
CDS <1..5099
/gene="ORF1"
/codon_start=3
/product="nonstructural polyprotein"
/protein_id="QBS54654.1"
/translation="KMASNDASAAAVANSNNDTAKSSSDGVLSSMAVTFKRALGARPK
QPPPREKPQRPPRPPTPELVKNIPPPPPNGEDEIVVSYSVKDGVSGLPDLSTVRQPEE
SNTAFSVPPLNQRENRDAKEPLTGTILEMWDGEIYHYGLYVERGLVLGVHKPPAAISL
AKVELAPLSLYWRPVYTPQYLISPDTLKKLSGETFPYTAFDNNCYAFCCWVLDLNDSW
LSRRMIQRTTGFFRPYQDWNRKPLPTMDDSKIKKVANIFLCALSSLFTRPIKDIIGKI
RPLNILNILASCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPEDL
AVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFPK
KEEANELAIVRSIEDAVLDLEAIENNHMTALLKDKDSLATYMRTLDLEEEKARKLSTK
SASPDIVGTINALLARIAAARSLVHRAKEELSSRPRPVVLMISGRPGIGKTHLAREVA
KRIAASLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTCP
LTLNCDRIENKGKVFDSDVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEKA
KRDFPGQPDMWKNAFSSDFSHIKLALAPQGGFDKNGNTPHGKGVMKTLTTGSLIARAS
GLLHERLDEFELQGPALTVFNFDRNKVLAFRQLAAENKYGLMDTMRVGKQLKDVRTMP
ELKQALKNVSIKKCQIVYSGCTYTLESDGKGNVRVDRVQNAAVQTNNELAGALHHLRC
ARIRYYVKCVQEALYSIIQIAGAAFVTTRIAKRMNIQDLWSKPQVENTEETTSKDGCP
KPKDDEEFIISSDDIKTEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNGK
YSIEEYLQDRDKYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGLVT
GSEIRKRNPDDFKPKGKLWADDDRSVDYSEKLNFEAPPSIWSRIVNFGSGWGFWVSPS
LFITSTHVIPQGAKEFFGVPIKQIQVHKSGEFCRLRFPKPIRTDVTGMILEEGAPEGT
VVTLLIKRSTGELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGDC
GCPYIYKRGNDYVVIGVHTAAARGGNTVICATQGSEGEATLEGGDNKGTYCGAPILGP
GSAPTLSTKTKFWRSSTTSLPPGTYEPAYLGGKDPRVKGGPSLQQVMREQLKPFTEPR
GKPPKPSVLEAAKKTIINVLEQTIDPPEKWSFAQACASLDKTTSSGHPHHMRKNDCWN
GESFTGKLADQASKANLMFEEGKNMTPVYTAALKDELVKTDKIYGKIKKRLLWGSDLA
TMIRCARAFGGLMDELKAHCVTLPIRVGMNMNEDGPIIFERHSRYTYHYDADYSRWDS
TQQRAVLAAALEIMVKFSPEPHLAQVVAEDLLSPSVVDVGDFTISINEGLPSGVPCTS
QWNSIAHWLLTLCALSEVTNLSPDTIQANSLFSFYGDDEIVSTDIKLDPEKLTAKLRE
YGLKPTRPDKTEGPLVISEDLNGLTFLRRTVTRDPAGWFGKLEQSSILRQMYWTRGPN
HGDPSETMIPHSQRPIQLMSLLGEAALHGPAFYSKISKLVIAELKEGGMDFYVPRQEP
MFRWMRFSDLSTWEGDRNLAPSFVNEDGVE"
mat_peptide <1..989
/gene="ORF1"
/product="p48"
mat_peptide 990..2087
/gene="ORF1"
/product="NTPase"
mat_peptide 2088..2624
/gene="ORF1"
/product="p22"
mat_peptide 2625..3023
/gene="ORF1"
/product="VPg"
mat_peptide 3024..3566
/gene="ORF1"
/product="Pro"
mat_peptide 3567..5096
/gene="ORF1"
/product="RdRp"
gene 5080..6702
/gene="ORF2"
CDS 5080..6702
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="QBS54655.1"
/translation="MKMASSDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ
QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
FEVQVILAGNAFTAGKIIFAAVPPNFPTEGLSPSQVTMFPHIIVDVRQLEPVLIPLPD
VRNNFYHYNQSNDSTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFSVPILTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT
QLSPVNICTFRGDITHITGSHNYTMNLASQNWNSYDPTEEIPAPLGTPDFVGKIQGVL
TQTTRADGSTRGHKATVYTGSADFAPKLGRVQFETDTNHDFEANQNTKFTPVGVIQDG
GTTHRNEPQQWVLPSYSGRSTHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD
CLLPQEWVQFFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV
IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRVV"
gene 6702..7508
/gene="ORF3"
CDS 6702..7508
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="QBS54656.1"
/translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA
SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQEMMKVKQAMLLEGGFSETDAARGAIN
APMTKVLDWSGTRYWAPDARTTTYNAGRFSTPQPSGALPGRANLRDVVPARGSSSKAS
NSSTATSVYSNQTTSTRLGSTAGSGTSVSSLPSTARTRSWVEDQNRNLSPFMRGAHNI
SFVTPPSSRSSSQGTVSTVPKEILDSWTGAFNTRRQPLFAHIRKRGESRA"
ORIGIN
1 tgaagatggc gtctaacgac gcttccgctg ccgctgttgc taacagcaac aacgacaccg
61 caaaatcttc aagtgacgga gtgctttcta gcatggctgt cacttttaaa cgagccctcg
121 gggcgcggcc taaacagccc cccccgaggg aaaaaccaca aagaccccca cgaccaccta
181 ctccagaact ggttaaaaat attccccctc ccccacctaa cggagaggat gaaatagtgg
241 tttcttatag tgtcaaagat ggtgtctccg gcttgcctga cctatccacc gtcaggcaac
301 cggaagaatc taacacggcc ttcagtgtcc ctccactcaa tcagagggag aatagagatg
361 ctaaggagcc acttactgga acaattctgg aaatgtggga cggtgaaatc taccattatg
421 gcctgtatgt ggagcgaggt cttgtgctag gtgtgcacaa accaccagct gccatcagcc
481 tcgctaaggt tgagctagca ccactctcct tgtactggag acctgtgtac actcctcagt
541 acctcatctc cccagacact cttaagaaac tatccggaga aacgttcccc tacacagcct
601 ttgacaacaa ctgttatgcc ttttgttgct gggtcctgga cctaaacgac tcgtggctaa
661 gcaggagaat gatccagaga acaactggtt tcttcaggcc ctaccaagac tggaatagga
721 aaccccttcc cactatggat gactccaaaa taaagaaggt ggccaacatt ttcctgtgtg
781 ctctgtcctc gctgttcacc agacccataa aagatataat agggaagata aggcctctta
841 acatcctcaa catcttagcc tcatgtgatt ggacttttgc aggcatagtg gagtccctga
901 tactcttggc agaactcttt ggagttttct ggacaccccc agatgtgtct gcgatgattg
961 cccccttact tggtgactac gagctacaag ggcctgagga ccttgcagtg gagctcgttc
1021 ccgtggtgat ggggggaatt ggtttggtgc taggattcac caaggagaag attgggaaga
1081 tgttgtcatc tgccgcgtcc accttgagag cttgtaaaga ccttggtgca tatgggctag
1141 agatcctaaa gttggtcatg aagtggttct ttccgaaaaa ggaggaggca aatgagctgg
1201 ccatagtgag gtctatcgag gatgcagtcc tagatctcga ggcaatcgaa aacaatcaca
1261 tgaccgcctt actcaaagac aaagacagtc tggcaaccta tatgagaaca cttgaccttg
1321 aggaggagaa agccaggaaa ctctcaacca agtctgcctc acccgacatc gtaggcacaa
1381 tcaacgccct cctggcgaga atcgctgccg cacgttctct ggtgcatcga gcgaaggagg
1441 agctttccag cagaccaaga cctgtggttc tgatgatatc aggcaggcca ggaataggga
1501 agacccacct cgctagggaa gtggctaaga gaatcgcagc ctcccttaca ggagatcagc
1561 gtgtgggcct catcccacgc aatggcgtcg accattggga tgcgtacaag ggggagaggg
1621 tcgtcctatg ggacgactat ggaatgagca accctattca cgatgccctc aggctgcaag
1681 aactcgctga cacttgcccc ctcactctaa actgtgacag aattgaaaac aaaggaaagg
1741 tctttgacag cgatgtcatc attattacca ctaatttggc caacccagca ccactggact
1801 atgtcaactt tgaagcgtgc tcgaggcgca tcgacttcct cgtgtatgca gaagcccctg
1861 aagtcgaaaa ggcgaagcgt gacttcccag gtcagcctga catgtggaag aacgctttca
1921 gttctgattt ctcacacata aaactagcac tggccccgca gggtggtttc gacaagaacg
1981 ggaacacccc acacggaaag ggcgtcatga agactctcac cactggctcc cttattgccc
2041 gggcatcagg gctactccat gagaggttag atgagtttga actacagggc ccagctctca
2101 ccgtcttcaa tttcgatcgc aataaagtgc ttgcctttag acaacttgct gctgaaaata
2161 aatatgggtt gatggacacc atgagagttg ggaaacagct caaggatgtc aggaccatgc
2221 cagaacttaa acaagcactc aagaatgtct caatcaagaa gtgccaaata gtgtacagtg
2281 gttgcaccta cacacttgaa tctgatggca agggcaatgt gagggttgac agagtccaaa
2341 acgccgccgt gcagaccaac aatgagctgg ctggtgctct gcaccatttg aggtgcgcca
2401 ggattagata ctatgtcaag tgtgtccaag aggccctgta ctccatcatt caaattgctg
2461 gggctgcatt tgtcaccacg cgcatcgcca agcgcatgaa catacaagac ctatggtcca
2521 agccacaagt ggaaaacaca gaggagacta ccagcaagga cgggtgccca aaacctaaag
2581 atgatgagga gtttatcatt tcatccgacg acatcaaaac tgagggcaag aaagggaaga
2641 acaaaactgg ccgcggcaag aagcacacag cgttttcaag caagggcctc agtgatgaag
2701 agtacgatga gtacaagagg atcagggagg aaaggaatgg caagtactcc atagaagagt
2761 accttcagga tagggacaag tactatgagg aggtggccat tgccagggcg actgaggaag
2821 acttctgtga agaggaagag gccaagatcc ggcaaaggat ctttaggcca acaaggaaac
2881 aacgcaagga ggaaagggct tctctcggtc tggtcacagg ctctgaaatt aggaaaagaa
2941 acccagacga cttcaaaccc aaggggaaat tgtgggctga cgatgacagg agtgtggact
3001 atagtgagaa actcaatttt gaggccccac caagcatctg gtcgagaata gtcaattttg
3061 gttcaggctg ggggttctgg gtctctccca gtctgttcat aacatcaacc catgtcatac
3121 cccagggtgc aaaggagttc tttggagtcc ctatcaaaca aatacaggta cacaagtcag
3181 gcgagttctg tcgcttgaga ttcccaaaac caatcaggac tgatgtgaca ggcatgatct
3241 tagaagaagg cgcgcctgag ggcaccgtgg tcacactact catcaaaagg tccactgggg
3301 aactcatgcc cctagcagct aggatgggga cccacgcgac catgaagatc caagggcgca
3361 ctgttggagg ccagatgggc atgcttctga caggatccaa cgccaagagc atggacctgg
3421 gcactacacc aggtgattgt ggctgcccct atatctacaa gagaggtaat gactatgtgg
3481 tcattggagt ccacacggct gccgcacgtg ggggaaacac tgtcatatgt gccacccagg
3541 ggagtgaagg agaagctaca cttgaaggtg gtgacaacaa ggggacgtac tgtggtgcac
3601 caatcctagg cccagggagt gccccaacac ttagcaccaa gactaaattc tggagatcgt
3661 ccacaacatc actcccacct ggcacctatg aaccagccta ccttggtggc aaggacccta
3721 gagtcaaggg tggcccttcg ctgcagcaag ttatgaggga acagttgaag ccattcacag
3781 aacccagggg taagccacca aaaccaagtg tattagaagc tgccaagaag accatcatca
3841 atgtccttga gcaaacaatt gatccacctg agaaatggtc gttcgcacaa gcttgcgcgt
3901 cccttgacaa gaccacttcc agtggtcatc cgcaccatat gcggaaaaac gactgctgga
3961 atggggagtc cttcacaggc aagctggcag accaggcttc caaggccaac ctgatgtttg
4021 aagaagggaa gaacatgacc ccagtctaca cagctgcgct caaggatgag ttagtcaaaa
4081 ctgacaaaat ttatggtaag atcaagaaga ggcttctctg gggctcggac ttggcgacca
4141 tgatccggtg tgctcgagca ttcggaggcc taatggatga actcaaagca cactgtgtca
4201 cactccccat tagagttggc atgaatatga atgaggacgg ccccatcatc ttcgagaggc
4261 attccaggta cacatatcat tatgatgctg attactctcg atgggactca acacaacaga
4321 gagccgtgtt ggcagcagct ctagaaatca tggttaaatt ctccccagaa ccacacctgg
4381 ctcaggtagt cgcggaagac cttctttctc ctagcgtggt ggacgtgggc gacttcacaa
4441 tatcaatcaa cgagggtctt ccctctggag tgccctgcac ctcccaatgg aattccatcg
4501 cccactggct tctcactctc tgcgcgctct ctgaagtcac aaatttgtcc ccagacacca
4561 tacaggctaa ttccctcttc tctttttatg gtgatgatga aattgttagt acagatataa
4621 aattggaccc agagaaatta acagcaaagc tcagggaata tggattaaaa ccaacccgcc
4681 ctgataaaac cgaaggacca cttgttatct ctgaagattt aaatggccta actttcctgc
4741 ggaggactgt gacccgcgac ccagctggtt ggtttggaaa attggagcag agttcaatac
4801 tcaggcaaat gtactggact aggggcccca accatggaga cccttctgaa acaatgattc
4861 cacactccca aagacctata caattgatgt ccctactggg ggaggccgct ctccacggcc
4921 cagcattcta cagcaaaatc agcaagctgg tcattgcaga gctaaaagag ggcggcatgg
4981 atttttacgt gcccagacaa gagccaatgt tcaggtggat gagattctca gatctgagca
5041 cgtgggaggg cgatcgcaat ctggctccca gttttgtgaa tgaagatggc gtcgagtgac
5101 gccaacccat ctgatgggtc cgcagccaac ctcgtcccag aggtcaacaa tgaggttatg
5161 gctctggagc ccgttgttgg tgccgccatt gcggcacctg tagcgggcca acaaaatgtc
5221 attgacccct ggattagaaa caattttgta caagcccctg gtggggagtt tacagtatcc
5281 cctagaaacg ctccaggtga aatactatgg agcgcgccct taggccctga cctaaatccc
5341 tacctatccc acttggccag gatgtacaat ggttatgcag gtggttttga agtgcaggta
5401 attcttgcgg ggaacgcgtt caccgccggg aagatcatat ttgcagcagt cccaccaaat
5461 ttcccaactg aaggcttgag ccctagccag gtcactatgt tcccccatat aatagtagat
5521 gttaggcaat tagaacctgt gttgatcccc ttacccgatg ttaggaataa tttctatcat
5581 tacaatcaat caaatgattc caccattaag ttgatagcaa tgttgtatac accacttagg
5641 gctaataatg ctggggacga tgtcttcaca gtttcctgcc gagtcctcac gagaccgtcc
5701 cccgattttg atttcatatt tctagtgcca cccacagttg agtcaagaac taaaccattc
5761 tctgtcccga ttttaactgt tgaggagatg accaattcaa gattccccat tcccttggaa
5821 aagttgttca cgggtcccag cagtgccttt gttgttcaac cacaaaacgg cagatgcacg
5881 actgatggcg tgctcctagg caccacccaa ctgtctcctg tcaacatctg caccttcaga
5941 ggggatatca cccatatcac aggtagtcat aactacacaa tgaacttggc ttcccaaaac
6001 tggaacagtt acgatccaac agaagaaatc ccagctcctc tagggactcc agattttgtg
6061 gggaagattc aaggtgtgct cacccaaacc acaagggcag atggctcgac acgcggccac
6121 aaggctacag tgtacactgg gagcgccgac tttgctccaa aactgggtag ggttcaattt
6181 gaaactgaca caaaccatga ttttgaagcc aaccaaaaca caaagttcac cccagtcggc
6241 gtcatccaag atggtggcac cacccaccga aatgaacccc aacagtgggt gctcccaagt
6301 tactcgggca gaagtactca caatgtgcac ctggcccccg ctgtagcccc cacttttccg
6361 ggcgagcaac tcctcttctt caggtccact atgcccggat gcagcgggta ccccaacatg
6421 gatttggact gtctgctccc ccaggaatgg gtgcagttct tctaccaaga ggcagcccca
6481 gcacaatctg atgtggctct gttaagattt gtgaatccag acacaggtag ggttttgttt
6541 gagtgtaagc ttcataaatc aggctatgtt acagtggctc acactggcca acatgatttg
6601 gttatccccc ccaatggtta ctttaggttt gactcctggg ttaatcagtt ctacacgctt
6661 gcccccatgg gaaatggaac ggggcgtaga cgtgtggtat aatggctgga gctttctttg
6721 ctggattggc atctgatgtc cttggctctg gacttggttc tcttatcaat gctggggctg
6781 gggccatcaa ccaaaaagtt gaatttgaaa ataacagaaa attgcaacaa gcttccttcc
6841 aatttagtag caatctacaa caggcttcct ttcaacatga caaagagatg ctccaagcac
6901 aaattgaggc caccaaaaag ctacaacagg agatgatgaa agttaagcag gcaatgctcc
6961 tagagggtgg gttctctgag acagatgcag cccgcggggc aatcaacgcc cccatgacaa
7021 aagttttgga ctggagcggg acaaggtact gggcacccga tgccaggact acaacatata
7081 atgcaggccg cttttccacc cctcaaccat cgggggcact gccaggaaga gctaatctta
7141 gggatgttgt ccctgctcgg ggttcctcta gcaaagcttc taactcttct actgctactt
7201 ctgtgtactc aaatcaaacc acttcaacga gacttggttc tacagctggt tctggcacca
7261 gtgtctcgag cctcccgtca actgcaagaa ctaggagttg ggttgaggac caaaatagga
7321 atttgtcacc tttcatgagg ggggcccaca acatatcgtt tgtcacccca ccatctagca
7381 gatcctctag ccaaggcaca gtctcaaccg tgcctaaaga gattttggac tcctggactg
7441 gcgctttcaa cacgcgcagg cagcctctct tcgctcacat tcgtaagcga ggggagtcac
7501 gggcgtaatg tgaaaagaca aaattgatta tcttcctttt tcttcagtgt cac
//