Typing tool
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Typing tool
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Complete norovirus genomes
| MK762561 | GII.4 Sydney | |
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| GII.P4 New Orleans |
ORF1: 1..4890
ORF2: 4871..6493
ORF3: 6493..7296
LOCUS MK762561 7333 bp RNA linear VRL 13-APR-2019
DEFINITION Norovirus GII isolate Hu/US/2018/GII.P4 New Orleans-GII.4
Sydney/CS0014 nonstructural polyprotein (ORF1) gene, partial cds;
and VP1 (ORF2) and VP2 (ORF3) genes, complete cds.
ACCESSION MK762561
VERSION MK762561.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7333)
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JOURNAL Unpublished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 7333)
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..7333
/organism="Norovirus GII"
/mol_type="genomic RNA"
/strain="CS0014"
/isolate="Hu/US/2018/GII.P4 New Orleans-GII.4
Sydney/CS0014"
/isolation_source="stool"
/host="Homo sapiens"
/db_xref="taxon:122929"
/country="USA"
/collection_date="14-Jan-2018"
/note="genotype: GII.P4 New Orleans-GII.4 Sydney"
gene <1..4890
/gene="ORF1"
CDS <1..4890
/gene="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="QBX91012.1"
/translation="PPPNGEDEIVVSYSVKDGVSGLPDLSTVRQPEESNTAFSVPPLN
QRENRDAKEPLTGTILEMWDGEIYHYGLYVERGLVLGVHKPPAAISLAKVELAPLSLY
WRPVYTPQYLISPDTLKKLSGETFPYTAFDNNCYAFCCWVLDLNDSWLSRRMIQRTTG
FFRPYQDWNRKPLPTMDDSKIKKVANIFLCALSSLFTRPIKDIIGKIRPLNILNILAS
CDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPEDLAVELVPVVMGG
IGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFPKKEEANELAMVR
SIEDAVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARKLSTKSASPDIVGTIN
ALLARIAAARSLVHRAKEELSSRPRPVVLMISGRPGIGKTHLAREVAKRIAASLTGDQ
RVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTCPLTLNCDRIENK
GKVFDSDVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPDVEKAKRDFPGQPDMW
KNAFSSDFSHIKLALAPQGGFDKNGNTPHGKGVMKTLTTGSLIARASGLLHERLDEFE
LQGPALTTFNFDRNKVLAFRQLAAENKYGLMDTMRVGKQLKVVKTMPELKQALKNVSI
KKCQIVYNGCTYMLESDGKGNVKVDRIQSAAVQTNNELAGALHHLRCARIRYYVKCVQ
EALYSIIQIAGAAFVTTRIAKRMNIQDLWSKPQVENTEETTSKDGCPKPKDDEEFVIS
SDDIKTEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKYSIEEYLQDRD
KYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERVSLGLVTGSEIRKRNPDD
FKPKGKLWADDDRSVDYNEKLSFEAPPSIWSRIVNFGSGWGFWVSPSLFITSTHVIPQ
GAKEFFGVPIKQIQVHKSGEFCRLRFPKPIRTDVTGMILEEGAPEGTVVTLLIKRSTG
ELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGDCGCPYIYKRGND
YVVIGVHTAAARGGNTVICATQGSEGEATLEGGDNKGTYCGAPILGPGSAPTLSTKTK
FWRSSTASLPPGTYEPAYLGGKDPRVKGGPSLQQVMREQLKPFTEPRGKPPKPSVLEA
AKKTIINVLEQTIDPPERWSFAQACASLDKTTSSGHPHHMRKNDCWNGESFTGKLADQ
ASKANLMFEEGKNMTPVYTAALKDELVKTDKIYGKIKKRLLWGSDLATMIRCARAFGG
LMEELKAHCVTLPVRVGMNMNEDGPIIFERHSRYTYHYDADYSRWDSTQQRAVLAAAL
EIMVKFSPEPHLAQVVAEDLLSPSVVDVGDFTISINEGLPSGVPCTSQWNSIAHWLLT
LCALSEVTNLSPDTIQANSLFSFYGDDEIVSTDIKLDPEKLTAKLKEYGLKPTRPDKT
EGPLVISEDLNGLTFLRRTVTRDPAGWFGKLEQSSILRQMYWTRGPNHGDPSETMIPH
SQRPIQLMSLLGEAALHGPAFYSKISKLVIAELKEGGMDFYVPRQEPMFRWMRFSDLS
TWEGDRNLAPSFVNEDGVE"
mat_peptide <1..780
/gene="ORF1"
/product="p48"
mat_peptide 781..1878
/gene="ORF1"
/product="NTPase"
mat_peptide 1879..2415
/gene="ORF1"
/product="p22"
mat_peptide 2416..2814
/gene="ORF1"
/product="VPg"
mat_peptide 2815..3357
/gene="ORF1"
/product="Pro"
mat_peptide 3358..4887
/gene="ORF1"
/product="RdRp"
gene 4871..6493
/gene="ORF2"
CDS 4871..6493
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="QBX91010.1"
/translation="MKMASSDANPPDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ
QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
FEVQVILAGNAFTAGKVIFAAVPPNFPTEGLSPSQVTMFPHIVVDVRQLEPVLIPLPD
VRNNFYHYNQSNDPTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT
QLSPVNICTFRGDVTHITGSHNYTMNLASQNWNNYDPTEEIPAPLGAPDFVGKIQGML
TQTTRADGSTRGHKATVYTGSADFAPKLGRVQFETDTNHDFEANQNTKFTPVGVIQDG
STTHRNEPQQWVLPSYSGRNTHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD
CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV
IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRVV"
gene 6493..7296
/gene="ORF3"
CDS 6493..7296
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="QBX91011.1"
/translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVDFENNRKLQQA
SFQFSSNLQQASFQHDKEMLQAQVEATKKLQQEMMKVKQAMLLEGGFSETDAARGAIN
APMTKALDWSGTRYWAPDARTTTYNAGRFSTPQPSGVLPGRTNLRDAVPARGSSKSSN
SSTATSVYSNQTTSTRLGSTAGSGTSVSSLPSTARTRSWVEDQSRNLSPFMRGAHNIS
FVTPPSSRSSSQGTVSTVPKEVLDSWTGAFNTRRQPLFAHIRKRGESRA"
ORIGIN
1 cccccaccca acggagagga tgaaatagtg gtctcttata gtgtcaaaga tggtgtttcc
61 ggcttgcctg acctttccac cgtcagacag ccggaagaat ccaacacggc cttcagtgtc
121 cctccactca atcagaggga gaacagagat gctaaggaac cactcactgg aacaattctg
181 gaaatgtggg acggggagat ctaccattat ggcctgtatg tggagcgagg tcttgtacta
241 ggcgtacaca aaccgccagc tgccatcagc ctcgctaagg ttgagttggc accactctcc
301 ttatactgga ggcctgtgta cactcctcag tacctcatct ctccagacac tctcaagaaa
361 ttgtccgggg aaacgttccc ctacacagca tttgacaaca actgctatgc cttttgttgc
421 tgggttctgg acctaaatga ctcgtggctg agcaggagaa tgatccagag gacaactggt
481 ttcttcaggc cctaccaaga ctggaatagg aaaccccttc ccactatgga tgactccaaa
541 ataaagaagg tggccaatat atttctgtgt gccctgtcct cgctattcac caggcccata
601 aaagatataa tagggaaaat aaggcctctt aacatcctca acatcttggc ctcatgtgac
661 tggacctttg cgggcatagt agagtccttg atactcttag cagagctctt tggagttttc
721 tggacacccc cagatgtgtc tgcaatgatt gcccccttac ttggtgacta cgagctacaa
781 ggacctgagg accttgcagt ggagctcgtc cccgtggtga tggggggaat tggtttggtg
841 ctaggattca ccaaagagaa aattgggaaa atgttgtcat cagctgcgtc caccttaaga
901 gcttgcaaag accttggtgc atatgggcta gagatcctaa agctagtcat gaagtggttc
961 ttcccgaaga aggaggaggc aaatgagctg gctatggtga ggtccatcga ggatgcagtc
1021 ctggacctcg aagcaattga aaacaatcat atgaccacct tgcttaaaga taaagacagt
1081 ctggcaacct acatgagaac actcgacctt gaagaggaga aagccaggaa actctcaacc
1141 aagtctgcct cacctgacat cgtgggcaca atcaacgccc tcctggcgag aatcgctgcc
1201 gcacgttctc tggtgcatcg agcgaaggag gagctttcca gcagaccaag acctgtggtg
1261 ttgatgatat caggtaggcc aggaataggg aagacccacc tcgctaggga agtggctaag
1321 agaatcgcag cctcccttac aggagaccag cgtgttggtc tcatcccacg caatggcgtc
1381 gaccactggg atgcgtataa gggggagagg gtcgtcctat gggacgatta tggaatgagc
1441 aaccctattc acgatgccct caggctgcaa gaactcgctg acacttgccc cctcactctg
1501 aactgtgaca ggattgaaaa taagggaaag gtctttgaca gcgatgtcat cattatcacc
1561 actaacctgg ccaacccagc cccactagac tatgtcaact ttgaagcatg ctcgaggcgc
1621 attgacttcc tcgtatatgc agaagcccct gatgtcgaaa aggcgaagcg tgacttccca
1681 ggccagcctg acatgtggaa gaacgctttc agttccgatt tctcacacat aaaactagca
1741 ctggccccac agggtggttt cgacaagaac gggaacaccc cacacggaaa gggcgtcatg
1801 aagactctca ccactggctc ccttatcgcc cgggcatcag ggctactcca tgagaggtta
1861 gatgaatttg aactgcaggg cccagctctc accaccttca atttcgatcg caataaagtg
1921 cttgccttta gacagcttgc tgctgaaaac aaatatggac tgatggacac aatgagggtt
1981 gggaaacagc tcaaggttgt caaaaccatg ccagaactca aacaagcact caagaatgtc
2041 tcaatcaaga agtgtcaaat agtgtataat ggttgcacct acatgcttga gtctgatggc
2101 aagggcaatg tgaaagttga caggatccag agcgccgccg tgcagaccaa caatgagctg
2161 gctggtgccc tgcaccactt gaggtgcgcc agaatcagat actatgtcaa gtgtgtccag
2221 gaagccctgt actccatcat tcaaattgct ggggctgcat ttgtcaccac gcgcattgcc
2281 aagcgcatga acatacagga tctatggtcc aagccacaag tggaaaacac agaggaaact
2341 accagcaagg acgggtgccc aaaacccaag gatgatgagg agtttgtcat ttcatccgac
2401 gacatcaaaa ctgagggcaa gaaagggaag aacaagactg gccgtggcaa gaagcacaca
2461 gcattttcaa gcaaaggcct cagtgatgaa gagtacgatg aatacaagag gatcagagaa
2521 gaaaggaatg gcaagtactc tatagaagag tacctccagg acagggacaa atattatgag
2581 gaggtggcca ttgccagagc gactgaggaa gacttctgtg aagaggagga agccaagatc
2641 cgacaaagga tctttaggcc aacaaggaaa caacgcaagg aggaaagagt ctctctcggt
2701 ttagtcacgg gttctgaaat taggaagaga aacccagatg atttcaaacc caaagggaaa
2761 ttgtgggctg acgatgacag gagtgtggac tacaatgaga aactcagttt tgaggccccg
2821 ccaagcattt ggtcaagaat agtcaacttt ggttcaggct ggggattctg ggtctccccc
2881 agcttgttca taacatcaac ccatgttata ccccagggcg caaaggagtt ctttggagtc
2941 cccatcaaac aaatacaggt acacaagtca ggcgagttct gtcgcttgag attccctaaa
3001 ccaatcagga ctgatgtgac gggcatgatc ttagaagaag gcgcacctga gggcaccgtg
3061 gttacactac tcatcaaaag gtccaccggg gaacttatgc ccctagcagc taggatgggg
3121 acccatgcga ccatgaagat ccaagggcgc actgttgggg gccagatggg catgcttctg
3181 acagggtcca acgccaagag tatggacctg ggtactacac caggtgattg tggctgcccc
3241 tacatctaca agagaggtaa tgactatgtg gtcattggag tccacacggc tgccgcacgt
3301 ggggggaaca ctgtcatatg cgccacccag gggagtgagg gagaggctac acttgagggt
3361 ggtgacaaca aggggactta ctgtggtgca ccaatcctag gcccagggag tgccccaaca
3421 cttagcacca agaccaaatt ctggagatcg tccacagcat cacttccacc tggcacctac
3481 gaaccagcct atcttggtgg caaggaccct agagtcaagg gtggcccttc actacagcaa
3541 gtcatgaggg aacagttgaa gccattcaca gagcccagag gtaagccacc aaaaccaagt
3601 gtgttagaag ctgccaagaa aaccatcatc aatgttcttg agcaaacaat tgatccacct
3661 gagagatggt cgttcgcaca agcttgcgcg tctcttgaca agaccacttc cagtggtcat
3721 ccgcatcaca tgcggaaaaa cgactgctgg aacggggagt ccttcacagg caagctggca
3781 gaccaggctt ctaaggccaa cctgatgttt gaagaaggaa agaacatgac cccagtctac
3841 acagctgcgc tcaaggacga gctagttaaa actgacaaaa tttatggtaa gatcaagaag
3901 aggcttcttt ggggctcgga cttggcgacc atgatccggt gtgctcgggc attcggaggc
3961 ctaatggaag aactcaaagc acactgtgtc acacttcccg ttagagttgg catgaatatg
4021 aatgaggatg gccccatcat cttcgagagg cattccaggt acacgtacca ctatgatgct
4081 gattactctc gatgggattc aacacaacag agagccgtgt tggcggcagc tctagaaatc
4141 atggtgaagt tctccccaga accacatttg gcccaggtag tcgctgaaga ccttctttct
4201 cctagcgtgg tggacgtggg cgacttcaca atatcaatca acgagggtct tccctctggg
4261 gtgccctgca cctcccaatg gaactccatc gcccactggc ttctcactct ctgcgcgctc
4321 tccgaagtca caaacctgtc tcctgatacc atacaggcta attctctctt ttctttttat
4381 ggtgatgatg aaattgttag tacagacata aaattggacc cagagaaatt gacagcaaaa
4441 ctcaaagaat acgggttaaa accaacccgc cctgacaaaa ctgaaggacc ccttgtcatc
4501 tctgaagacc tgaatggcct aactttcctg cggagaactg tgacccgcga cccagctggt
4561 tggtttggaa aactggagca gagttcaata cttaggcaaa tgtactggac taggggtccc
4621 aaccatggag acccatctga aacaatgatt ccacattccc aaagacccat acaattgatg
4681 tccctactgg gggaggccgc tctccacggc ccagcatttt acagtaagat tagcaaattg
4741 gtcattgcag agctaaaaga aggcggcatg gatttttacg tgcccagaca agagccaatg
4801 ttcagatgga tgagattctc agatctgagc acgtgggagg gcgatcgcaa tctggctccc
4861 agttttgtga atgaagatgg cgtcgagtga cgccaaccca cctgatgggt ccgcagccaa
4921 cctcgtccca gaggtcaaca atgaggttat ggctctggag cccgttgttg gtgccgctat
4981 tgcggcaccc gtagcgggcc aacaaaatgt aattgacccc tggattagaa acaattttgt
5041 acaagcccct ggtggagagt ttacagtgtc ccccagaaac gctccaggtg aaatactatg
5101 gagcgcgccc ttaggccctg atttaaatcc ctacctatcc cacttggcca gaatgtataa
5161 tggttatgca ggtggttttg aagtgcaggt gattctcgcg gggaacgcgt tcaccgccgg
5221 gaaggtcata tttgcagcag tcccaccaaa ttttccaact gaaggcttga gccccagcca
5281 ggtcactatg ttcccccata tagtagtgga tgttaggcaa ctagaacctg tgttgattcc
5341 cttacccgat gttaggaata atttctacca ttataatcaa tcaaatgacc ccaccattaa
5401 gttgatagca atgttatata caccacttag ggctaataat gctggggatg atgtcttcac
5461 agtttcttgc cgagttctca cgaggccgtc ccccgatttt gatttcatat ttctagtgcc
5521 acccacagtt gagtctagaa ccaaaccatt ttctgtccca gttttgactg ttgaggagat
5581 gaccaattca agattcccca ttcctttgga aaagttgttc acgggcccca gtagtgcctt
5641 tgttgttcaa ccacaaaacg gtaggtgcac gactgatggt gtgctcctag gcaccaccca
5701 attgtctcct gtcaacatct gcacctttag aggggatgtc acccacatta caggtagtca
5761 taactacaca atgaatttgg cttctcaaaa ttggaacaat tatgacccaa cagaagaaat
5821 cccagcccct ctaggagctc cagattttgt ggggaagatt caaggcatgc tcacccaaac
5881 cacaagggca gatggctcaa cacgcggcca caaggctacg gtgtacactg ggagcgccga
5941 cttcgctcca aaactgggca gagttcaatt tgaaactgac acaaaccatg attttgaagc
6001 taaccaaaac acaaagttca ctccagtcgg tgtcatccaa gatggcagca ccacccaccg
6061 aaatgaaccc caacagtggg tgctcccaag ttactcaggt agaaacactc ataatgttca
6121 tctggccccc gctgtggccc ccacttttcc gggtgaacaa cttctcttct ttagatccac
6181 catgcccggg tgtagcgggt atcccaacat ggatttggac tgtttgctcc cccaggaatg
6241 ggtgcagtac ttctaccaag aggcagcccc agcacaatct gatgtggccc tgctaagatt
6301 tgtgaatcca gacacaggta gggttttgtt tgaatgcaaa cttcataagt caggctatgt
6361 tacagtggct cacactggcc aacatgattt ggtcatcccc cccaatggtt attttaggtt
6421 tgattcctgg gtcaaccagt tctacacgct tgcccccatg ggaaatggaa cggggcgtag
6481 acgcgtagta taatggctgg agctttcttt gctgggttag catctgatgt cctcggctct
6541 ggacttggtt cccttatcaa tgctggggct ggggccatca accaaaaagt tgattttgaa
6601 aataacagaa aattgcaaca agcatccttc caatttagca gcaatttaca acaggcttcc
6661 tttcaacatg acaaagaaat gcttcaagca caagttgagg ccaccaaaaa gctacaacag
6721 gaaatgatga aagttaagca ggcaatgctc ctggagggtg ggttctctga aacagatgca
6781 gcccgcgggg caatcaacgc ccccatgaca aaagctttgg actggagcgg gacaaggtac
6841 tgggctcctg atgctaggac tacaacttat aatgcaggcc gcttttccac ccctcaacca
6901 tcgggggtac taccaggaag aactaatctt agggatgctg tccctgctcg gggttcctct
6961 aaatcttcta actcttctac tgctacttct gtatactcaa atcaaaccac ttcaacgaga
7021 cttggttcta cagctggttc tggcaccagt gtctcgagtc tcccgtcaac tgcaaggacc
7081 aggagctggg ttgaggatca aagtaggaat ttgtctcctt tcatgagggg ggcccacaac
7141 atatcgtttg tcaccccacc atctagcaga tcctctagcc aaggcacagt ctcaaccgtg
7201 cctaaagagg ttttggactc ctggactggc gctttcaaca cgcgcaggca gcctctcttc
7261 gctcacattc gtaaacgagg ggagtcacgg gcgtaatgtg aaaagacaaa attgatcatc
7321 tttctttttc ttt
//