Typing tool
|
|
|
|
|
|
Typing tool
|
Complete norovirus genomes
| MK773586 | GII.4 Sydney | |
|
|---|---|---|---|
| GII.P16 |
ORF1: 3..5102
ORF2: 5083..6705
ORF3: 6705..7506
LOCUS MK773586 7506 bp RNA linear VRL 14-APR-2019
DEFINITION Norovirus GII isolate Hu/US/2017/GII.P16-GII.4 Sydney/Ramsey0269
nonstructural polyprotein (ORF1) and VP1 (ORF2) genes, complete
cds; and VP2 (ORF3) gene, partial cds.
ACCESSION MK773586
VERSION MK773586.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7506)
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JOURNAL Unpublished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 7506)
AUTHORS Barclay,L., Cannon,J.L., Cebelinski,E., Montmayeur,A.M.,
Tatusov,R.L., Chhabra,P. and Vinje,J.
TITLE Direct Submission
JOURNAL Submitted (09-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..7506
/organism="Norovirus GII"
/mol_type="genomic RNA"
/strain="Ramsey0269"
/isolate="Hu/US/2017/GII.P16-GII.4 Sydney/Ramsey0269"
/isolation_source="stool"
/host="Homo sapiens"
/db_xref="taxon:122929"
/country="USA"
/collection_date="19-Sep-2017"
/note="genotype: GII.P16-GII.4 Sydney"
gene 3..5102
/gene="ORF1"
CDS 3..5102
/gene="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="QBY34795.1"
/translation="MKIASNDATVAVACNNNNDKEKSSGEGLFTNMSSTLKKALGARP
KQPAPRDEPQKPPRPPTPELVKRIPPPPPNGEEEGEPVIRYEVKSGISGLPELTTVPQ
PDVANTAFSVPPLSLRENREAKEPLTGAILEMWDGEIYHYGLYVEKGLVLGVHKPPAA
ISMARVELTPLSLYWRVVYTPQYLISPETLRRLNGETFPYTAFDNNCYAFCCWVLDLN
DSWLSRRMVQRTTGFFRPYQEWNRKPLPTMDDSKIKKVANIFLCSLSTLFTRPIKDLI
GKIKPLNILNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGP
EDLAVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWF
FPKKEEVNELAMVRAIEDAVLDLEAIENNHMTTLLKDKDSLATYMKTLDMEEEKARRL
STKSASPDIVGTINALLARIAAARSLVHRAKEELSSRIRPVVVMISGKPGIGKTHLAR
EVARKVASTLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRIQELAD
TCPLTLNCDRIENKGKVFDSEVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEV
EKAKRDFPGQPDMWKDAFKPDFSHIKLQLAPQGGFDKNGNTPHGKGVMKTLTTGSLIA
RASGLLHERMDEFELQGPTATTFNFDRNRITAFRQLAAENKYGLVDTMKVGNQLKGVK
TMEELKQAIRNVIIKRCRIIYGGSTYDLESDGKGKVLVEKVKNTSVQTNNELAGALHH
LKHARIRYYVKCVQEAVYSIIQIAGAAFVTTRIARRMNIQELWSKPQLDQNESETKEE
TPKSEDDEFIISSKDIKEEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNG
KYSIEEYLQDRDRYYEELAIAKATEEDFCEEEEVKIRQRIFRPTRKQRKEERATLGLV
TGSEIRKRNPDDFKPKGKLWADDNRSVDYNEKLDFEAPPSIWSRIVSFGSGWGFWVSP
SLFITSTHVIPAGITEAFGVPIKQIQIHKSGEFCRFRFPKPIRPDVTGMILEEGAPEG
TVATVLIKRPTGELMPLAARMGTHATMKIQGRMVGGQMGMLLTGSNAKGMDLGTTPGD
CGCPYIYKRGNDYIVIGVHTAAARGGNTVICATQGSEGEATLEGGDDKGTYCGAPILG
PGGAPKLSTKTKFWRSSNTPLPPGTYEPAYLGGRDPRVKGGPSLQQVMRDQLKPFTEP
RGKPPRPSVLEAAKQTIINVLEQTLDPPQKWSYAQACASLDKTTSSGHPHHVRKNEFW
NGETFTGKLADQASKANLMFEEGKHMTPVYTAALKDELVKTEKIYGKVKKRLLWGSDL
STMIRCARSFGGLMDEMKAHCISLPVRVGMNMNEDGPIIFEKHSRYKYHYDADYSRWD
STQQRAVLAAALEIMVRFSAEPQLAQIVAEDLLAPSVVDVGDFKITINEGLPSGVPCT
SQWNSIAHWLLTLCALSEVTKLSPDIIQANSMFSFYGDDEIVSTDIQVDPEQLTAKLK
EYGLKPTRPDKTEGPLIISEDLNGLTFLRRTVTRDPAGWFGKLDQSSILRQMYWTRGP
NHEDPNETMIPHSQRPIQLMALLGEASLHGPSFYSKISKLVITELKEGGMDFYVPRQE
PMFRWMRFSDLGTWEGDRNLAPNFVNEDGVE"
mat_peptide 3..998
/gene="ORF1"
/product="p48"
mat_peptide 999..2096
/gene="ORF1"
/product="NTPase"
mat_peptide 2097..2627
/gene="ORF1"
/product="p22"
mat_peptide 2628..3026
/gene="ORF1"
/product="VPg"
mat_peptide 3027..3569
/gene="ORF1"
/product="Pro"
mat_peptide 3570..5099
/gene="ORF1"
/product="RdRp"
gene 5083..6705
/gene="ORF2"
CDS 5083..6705
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="QBY34796.1"
/translation="MKMASSDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ
QNVIDPWIRSNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
FEVQVILAGNAFTAGKIIFAAVPPNFPTEGLSPSQVTMFPHIIVDVRQLEPVLIPLPD
VRNNFYHYNQSNDSTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT
QLSPVNICTFRGDVTHITGSRNYTMNLASQNWNNYDPTEEIPAPLGTPDFVGKIQGML
TQTTRTDGSTRGHKATVYTGSADFAPKLGRVQFETDTDHDFEANQNTKFTPVGVIQDG
GTTHRNEPQQWVLPSYSGRNTHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD
CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV
IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRVV"
gene 6705..>7506
/gene="ORF3"
CDS 6705..>7506
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="QBY34797.1"
/translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA
SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQEMMKVKQAMLLEGGFSETDAARGAIN
APMTKALDWSGTRYWAPDARTTTYNAGRFSTPQPSGTLPGRANLRDAVPARGPSNKSS
NSSTATSVYSNQTISTRLGSTAGSGTSVSSLPSTARTRSWVEDQSRNLSPFMRGAHNI
SFVTPPSSRSSSQGTVSTVPKEILDSWTGAFNTRRQPLFAHIRKRGESR"
ORIGIN
1 gaatgaagat agcgtctaac gacgctaccg ttgccgttgc ttgcaacaac aacaacgaca
61 aggaaaaatc ttcaggtgaa ggcttattca caaatatgtc ttccacctta aagaaagccc
121 tcggggctag gcccaaacag cctgccccga gagacgaacc acaaaagccc ccaagaccac
181 caactcccga gttggtcaag aggatacccc ctcctccacc taatggcgaa gaagaaggag
241 aaccagtcat taggtatgag gttaagagtg ggatctctgg cctgcccgag ctcacaacag
301 tcccccaacc ggacgtggcc aacacagcat tcagtgttcc accactgagc ttgagagaaa
361 acagggaggc caaggaaccg ctaacagggg caatattaga gatgtgggat ggagagatat
421 accactacgg cctgtacgtg gagaaaggct tagtgttggg tgtgcacaaa ccacctgcag
481 ccataagcat ggcaagagtg gagctgacgc cgctgtcatt gtactggcgt gtggtgtaca
541 ccccccaata cctcatctcc cctgaaactc ttaggaggct caacggagag acattccctt
601 acaccgcctt cgacaacaac tgctatgcct tttgctgctg ggtgttagac ctcaatgact
661 catggcttag taggaggatg gtgcaaagaa caacgggctt cttcagacct taccaagagt
721 ggaacagaaa acccctgcct accatggatg actccaaaat taagaaggta gcaaatatat
781 tcctatgttc attgtccaca ttattcacca gacccataaa agacctcata ggaaaaatca
841 aaccattaaa catattgaac atcctggcaa cgtgtgactg gacatttgcc ggaatagtgg
901 agtctctgat attacttgct gaactcttcg gagttttctg gacaccccca gatgtgtctg
961 ctatgatcgc tcccttactc ggggactacg agttgcaagg gccagaagac ctcgccgttg
1021 aactcgtacc tgtggtaatg ggagggattg gtttggtgtt gggattcacc aaagagaaaa
1081 ttggcaaaat gttgtcctca gcagcatcaa cactcagggc ttgcaaagat cttggtgcct
1141 atggcttaga gatactcaaa ttggtcatga agtggttctt cccaaagaaa gaggaggtca
1201 atgagctagc catggtgagg gccatagagg atgccgtact agatcttgag gcaatagaaa
1261 ataaccacat gacaaccctg ttgaaagaca aagacagctt agcaacatac atgaaaacac
1321 tggacatgga ggaggagaaa gccagaaggt tgtccacaaa atctgcatcc cctgacatag
1381 ttgggacaat caacgctctg ctggctcgaa tagcagcggc caggtcatta gtccacaggg
1441 ccaaggaaga gctatctagc aggataagac cagtagttgt tatgatatct ggcaaaccag
1501 gaataggcaa aactcatctg gccagggagg tggcaagaaa ggtggcatcc actctcacag
1561 gggatcaaag agtcggactc ataccaagaa acggtgtgga ccattgggat gcatacaaag
1621 gtgagagagt cgtgctgtgg gacgactatg gcatgagtaa ccccattcat gatgctcttc
1681 gcatacaaga attggctgat acgtgtcccc ttaccttaaa ttgtgacaga attgaaaata
1741 agggaaaagt ttttgacagt gaagtcataa taattacaac aaaccttgcc aacccagccc
1801 cacttgatta tgtcaacttt gaggcctgtt ccaggagaat tgatttcctg gtgtacgctg
1861 aggcaccaga agtggaaaag gcaaaacggg actttcctgg tcagccagat atgtggaagg
1921 acgccttcaa gccggacttt tcacacatca agctacagct tgcacctcag ggcggctttg
1981 acaagaatgg caacacccca catgggaaag gagtgatgaa gaccctcact accggttctc
2041 tgattgcccg tgcatcaggc ctattgcatg agaggatgga tgaatttgaa ctccaaggtc
2101 ccacagccac caccttcaat ttcgaccgga acagaatcac agcattcaga caattggctg
2161 cagaaaacaa gtatggattg gtggatacca tgaaagttgg caatcaacta aaaggagtaa
2221 aaaccatgga agaactcaaa caagcaatca ggaatgtgat catcaagagg tgccggatca
2281 tctacggtgg ctccacgtat gaccttgaat ctgatggcaa gggcaaagtt ttggtggaaa
2341 aggtcaagaa cacctctgta cagaccaaca acgagttggc cggggccctg caccatctta
2401 aacacgcccg aatcaggtac tatgtcaaat gtgtgcaaga agcagtctat tccatcatac
2461 aaattgccgg cgctgcgttt gtcaccacgc gcattgcacg ccgcatgaac atacaagaac
2521 tctggtcgaa gccacaatta gatcaaaatg aatcagagac taaggaagag acccctaagt
2581 cagaagatga cgagttcatc atatcttcta aggacatcaa ggaggaggga aagaagggca
2641 aaaacaaaac tggccgtggc aagaaacaca ctgcattctc cagcaagggc ttgagcgatg
2701 aggagtatga cgagtacaag aggataagag aagagagaaa tgggaagtac tctatagagg
2761 agtatcttca agacagagac aggtactatg aggagctcgc cattgccaag gccacggaag
2821 aagacttctg tgaagaggag gaggtcaaaa tccgtcagag aattttccgt cccaccagaa
2881 aacaaaggaa ggaagagagg gccacattag ggctagtgac aggttcagaa atcagaaaaa
2941 gaaaccctga tgacttcaaa cccaaaggga agctgtgggc cgacgacaac agaagtgttg
3001 actacaatga gaaactggac tttgaggccc ccccaagcat atggtctagg attgtgagct
3061 ttggttctgg ctggggcttc tgggtatcac caagcctgtt cataacatca actcatgtaa
3121 tccccgctgg cataacagaa gcatttggag tccccatcaa acaaattcag atccacaaat
3181 caggtgaatt ttgccgattc agattcccaa aaccaattag accagatgtg acaggaatga
3241 tcttggaaga aggtgcgcct gaaggcaccg tggcaactgt gctcatcaaa cgccccaccg
3301 gggagctcat gcctctcgca gccagaatgg gaacacacgc aaccatgaaa attcaaggcc
3361 gcatggttgg cggacagatg ggtatgttgc tcactggatc aaatgctaaa ggaatggatt
3421 tgggaacaac tcctggtgac tgtggctgtc cttacatcta taaaaggggc aacgactata
3481 tagtcattgg ggtgcacact gcagcagccc gtggtggaaa caccgtcatc tgtgccacac
3541 agggaagtga gggtgaggca actcttgagg gtggagatga caaaggaaca tactgtgggg
3601 cacccattct aggccctggg ggtgcaccaa aattgagcac taaaaccaaa ttctggaggt
3661 catcgaacac gccccttcca ccagggacat atgagcctgc ctacctcggt ggccgtgatc
3721 cgcgtgttaa gggtgggccc tccttgcagc aggtaatgag agaccagttg aagccattca
3781 ctgagcccag gggcaaacct ccaagaccaa gtgtattgga agcagccaaa caaaccatta
3841 tcaatgtcct cgaacaaacc ctggaccctc cacaaaaatg gtcatacgca caggcgtgtg
3901 cctcacttga caaaaccacc tccagcgggc atccccatca cgtccgaaag aatgaattct
3961 ggaatggtga gaccttcact ggtaaattgg cagaccaagc atcaaaagca aacctaatgt
4021 ttgaggaagg gaaacatatg acaccagtgt atacagcagc actcaaggac gagctagtca
4081 agactgagaa aatctatgga aaggtcaaga agagactgct ctggggctct gacttgtcca
4141 ccatgatccg gtgcgctagg tcatttggtg ggctcatgga cgagatgaag gcacactgca
4201 tatcactccc agtacgagtt ggcatgaata tgaatgaaga tggcccaata atatttgaga
4261 aacattccag atacaaatat cactatgatg cagactactc tcgttgggat tcaacacaac
4321 agagggcagt actagcagca gccttggaaa tcatggtcag attctctgca gaaccacaat
4381 tggcacaaat agtcgctgag gatctgctgg cccctagtgt agtagatgta ggagacttta
4441 aaatcacaat aaatgaaggg ctcccatccg gtgtgccatg cacttcccaa tggaactcca
4501 tcgcacactg gctgctaact ctctgtgcct tgtctgaagt caccaaactg tcccctgaca
4561 ttatacaagc aaattccatg ttctcatttt acggtgatga cgagattgtc agcaccgaca
4621 tacaagtgga ccctgaacag ttaaccgcca aattgaagga gtacggcctg aaaccaaccc
4681 gcccagacaa gaccgaggga cccctgatca tcagtgaaga tttgaacgga ctcactttcc
4741 tccgaaggac ggtgactcgt gacccagctg gctggtttgg aaaactggac caaagctcaa
4801 ttttgaggca gatgtactgg actaggggac caaatcatga agaccccaat gagacaatga
4861 taccccattc tcaaagaccc atacagctca tggcactgct tggtgaagcc tctctccacg
4921 gaccctcttt ctacagtaaa atcagtaaat tggtcataac tgaactcaaa gaaggtggga
4981 tggactttta cgtgccaagg caggaaccca tgttcaggtg gatgaggttt tctgacttgg
5041 gcacgtggga gggcgatcgc aatctggctc ccaattttgt gaatgaagat ggcgtcgagt
5101 gacgccaacc catctgatgg gtccgcagcc aacctcgtac cagaggtcaa caatgaggtt
5161 atggctttgg agcccgttgt tggtgccgct attgcggcac ctgtagcggg ccaacaaaat
5221 gtaattgacc cctggattag aagtaacttt gtacaagccc ctggtgggga gtttacagta
5281 tcccctagaa acgctccagg tgaaatacta tggagcgcgc ccctaggccc tgacctaaac
5341 ccctacctat cccatttggc cagaatgtat aatggttatg caggtggttt tgaagtgcag
5401 gtaattctcg cggggaacgc gttcaccgcc gggaagatca tatttgcagc agtcccacca
5461 aattttccaa ctgaaggcct aagtcctagc caggttacta tgttccccca tataatagta
5521 gatgttagac aattagaacc tgtgctgatt cccttacccg atgtcaggaa taatttctac
5581 cattacaatc agtcaaatga ttccactatt aagttgatag caatgttgta tacaccactt
5641 agggctaata atgctgggga tgatgttttc acagtttcgt gccgagttct cacgagacca
5701 tcccccgatt ttgattttat atttttagtg ccacctacag ttgaatcaag aactaaacca
5761 ttctctgtcc cagttttaac tgttgaggag atgaccaatt caagattccc cattcctttg
5821 gaaaagttgt tcacgggccc cagcagtgcc tttgttgttc aaccacaaaa cggcaggtgc
5881 acaactgatg gcgtgctcct aggcaccacc caactgtctc ctgtcaacat ctgcaccttc
5941 agaggggatg tcacccacat cacaggtagt cgcaactaca caatgaattt ggcttctcaa
6001 aattggaata actatgaccc aacagaagaa atcccagccc ctctaggaac tccagatttt
6061 gtggggaaga ttcaaggcat gctcacccaa accacaagga cagacggttc aacacgcggc
6121 cacaaagcta cagtgtacac tgggagcgcc gactttgctc caaaactggg tagagttcaa
6181 tttgaaactg acacagacca tgattttgaa gctaatcaaa acacaaagtt caccccagtc
6241 ggtgtcatcc aagatggtgg caccacccac cgaaacgaac cccaacagtg ggtgctccca
6301 agttactcag gtagaaatac tcacaatgta catctggccc ccgctgtagc ccccaccttt
6361 ccgggtgagc aacttctctt cttcagatcc accatgcccg gatgcagcgg gtaccccaac
6421 atggatttgg actgtctgct cccccaggaa tgggtgcagt acttctatca agaggcagcc
6481 ccagcacaat ctgatgtggc tctgctaaga tttgtgaatc cagatacagg tagggttttg
6541 tttgagtgca agcttcataa atcaggctat gttacagtgg ctcacactgg ccaacatgat
6601 ttggttatcc cccccaatgg ttactttagg tttgattcct gggtcaacca gttctacacg
6661 cttgccccca tgggaaatgg aacggggcgt agacgtgtag tataatggct ggagctttct
6721 ttgctggatt ggcgtctgat gtccttggct ctggacttgg ttcccttatc aatgctgggg
6781 ctggggccat caaccaaaaa gttgagtttg aaaataacag aaaattgcaa caagcatcct
6841 tccaatttag cagcaatctg caacaggctt cctttcaaca tgataaagag atgctccaag
6901 cacaaattga ggccaccaaa aagctacaac aggaaatgat gaaagttaag caggcaatgc
6961 tcctagaggg tgggttctct gagacagatg cagcccgcgg ggcaatcaac gctcccatga
7021 caaaagcttt ggactggagc gggacaaggt actgggctcc cgatgctagg actacaacat
7081 acaatgcagg ccgcttctcc acccctcaac catcggggac actgccagga agagctaacc
7141 ttagggatgc tgtccctgct cggggaccct ccaacaaatc ttctaactct tctactgcta
7201 cctctgtgta ttcaaatcaa actatttcaa cgagacttgg ttctacagct ggttctggaa
7261 ccagtgtctc gagcctcccg tcaactgcaa ggactaggag ctgggttgag gatcaaagta
7321 ggaatttgtc acctttcatg aggggggccc acaacatatc atttgtcacc ccaccatcta
7381 gcagatcctc tagccaaggc acagtctcaa ccgtgcctaa agagattttg gactcctgga
7441 ctggcgcttt caacacgcgc aggcagcctc tcttcgctca cattcgtaag cgaggggagt
7501 cacggg
//