Typing tool
|
|
|
|
|
|
Typing tool
|
Complete norovirus genomes
| MK762570 | GII.4 Sydney | |
|
|---|---|---|---|
| GII.P16 |
ORF1: 1..5094
ORF2: 5075..6697
ORF3: 6697..7503
LOCUS MK762570 7552 bp RNA linear VRL 13-APR-2019
DEFINITION Norovirus GII isolate Hu/US/2017/GII.P16-GII.4 Sydney/CS1010
nonstructural polyprotein (ORF1) gene, partial cds; and VP1 (ORF2)
and VP2 (ORF3) genes, complete cds.
ACCESSION MK762570
VERSION MK762570.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norovirus norwalkense.
REFERENCE 1 (bases 1 to 7552)
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JOURNAL Unpublished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 7552)
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..7552
/organism="Norovirus GII"
/mol_type="genomic RNA"
/strain="CS1010"
/isolate="Hu/US/2017/GII.P16-GII.4 Sydney/CS1010"
/isolation_source="stool"
/host="Homo sapiens"
/db_xref="taxon:122929"
/geo_loc_name="USA"
/collection_date="16-Mar-2017"
/note="genotype: GII.P16-GII.4 Sydney"
gene <1..5094
/gene="ORF1"
CDS <1..5094
/gene="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="QBX91037.1"
/translation="MASNDATVAVARNNNNDKEKSSGEGLFTNMSSTLKKALGARPKQ
PAPRDEPQKPPRPPTPELVKRIPPPPPNGEEEEEPVIRYEVKSGISGLPELTTVPQPD
VANTAFSVPPLSLRENREAKEPLTGAILEMWDGEIYHYGLYVEKGLVLGVHKPPAAIS
MARVELTPLSLYWRVVYTPQYLISPETLRRLNGEAFPYTAFDNNCYAFCCWVLDLNDS
WLSRRMVQRTTGFFRPYQEWNRKPLPTMDDSKIKKVANIFLCSLSTLFTRPIKDLIGK
IKPLNILNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPED
LAVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFP
KKEEVNELAMVRAIEDAVLDLEAIENNHMTTLLKDKDSLATYMKTLDMEEEKARRLST
KSASPDIVGTINALLARIAAARSLVHRAKEELSSRIRPVVVMISGKPGIGKTHLAREV
ARKVASTLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRIQELADTC
PLTLNCDRIENKGKVFDSEVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEK
AKRDFPGQPDMWKDAFKPDFSHIKLQLAPQGGFDKNGNTPHGKGVMKTLTTGSLIARA
SGLLHERMDEFELQGPTITTFNFDRNRITAFRQLAAENKYGLVDTMKVGNQLKGVKTM
EELKQAIRNVTIKRCRIIYGGSTYDLESDGKGKVLVEKVKNTSVQTNNELAGALHHLK
HARIRYYVKCVQEAVYSIIQIAGAAFVTTRIARRMNIQELWSKPQLDQNESEAKEEAP
KSEDDEFIISSKDIKEEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKY
SIEEYLQDRDRYYEELAIAKATEEDFCEEEEIKIRQRIFRPTRKQRKEERATLGLVTG
SEIRKRNPDDFKPKGKLWADDNRSVDYNEKLDFEAPPSIWSRIVSFGSGWGFWVSPSL
FITSTHVIPAGITEAFGVSIKQIQIHKSGEFCRFRFPKPIRPDVTGMILEEGAPEGTV
ATVLIKRPTGELMPLAARMGTHATMKIQGRMVGGQMGMLLTGSNAKGMDLGTTPGDCG
CPYIYKRGNDYIVIGVHTAAARGGNTVICATQGSEGEATLEGGDDKGTYCGAPILGPG
GAPKLSTKTKFWRSSNTPLPPGTYEPAYLGGRDPRVKGGPSLQQVMRDQLKPFTEPRG
KPPRPSVLEAAKQTIINVLEQTLDPPQKWTYAQACASLDKTTSSGHPHHVRKNEFWNG
ETFTGKLADQASKANLMFEEGKHMTPVYTAALKDELVKTEKIYGKIKKRLLWGSDLST
MIRCARSFGGLMDEMKAHCISLPVRVGMNMNEDGPIIFEKHSRYKYHYDADYSRWDST
QQRAVLAAALEIMVRFSAEPQLAQIVAEDLLAPSVVDVGDFKITINEGLPSGVPCTSQ
WNSIAHWLLTLCALSEVTKLSPDIIQANSMFSFYGDDEIVSTDIKLDPEQLTAKLKEY
GLKPTRPDKTEGPLIISEDLNGLTFLRRTVTRDPAGWFGKLDQSSILRQMYWTRGPNH
EDPNETVIPHSQRPIQLMALLGEASLHGPSFYSRISKLVITELKEGGMDFYVPRQEPM
FRWMRFSDLSTWEGDRNLAPNFVNEDGVE"
mat_peptide <1..990
/gene="ORF1"
/product="p48"
mat_peptide 991..2088
/gene="ORF1"
/product="NTPase"
mat_peptide 2089..2619
/gene="ORF1"
/product="p22"
mat_peptide 2620..3018
/gene="ORF1"
/product="VPg"
mat_peptide 3019..3561
/gene="ORF1"
/product="Pro"
mat_peptide 3562..5091
/gene="ORF1"
/product="RdRp"
gene 5075..6697
/gene="ORF2"
CDS 5075..6697
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="QBX91038.1"
/translation="MKMASSDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ
QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
FEVQVILAGNAFTAGKIIFAAVPPNFPTEGLSPSQVTMFPHIIVDVRQLEPVLIPLPD
VRNNFYHYNQSNDSTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT
QLSPVNICTFRGDVTHITGSRNYTMNLASQNWNNYDPTEEIPAPLGTPDFVGKIQGML
TQTTRTDGSTRGHKATVYTGSADFAPKLGRVQFETDTDHDFEANQNTKFTPVGVIQDG
STTHRNEPQQWVLPSYSGRNTHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD
CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV
IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRVV"
gene 6697..7503
/gene="ORF3"
CDS 6697..7503
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="QBX91039.1"
/translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA
SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQEMMKVKQAMLLEGGFSETDAARGAIN
APMTKALDWNGTRYWAPDARITTYNAGHFSTPQPSRALPGRANLRDAVLARGPSNKSS
NSSTATSVYSNQTISTRLGSTAGSGTSVSSLPSTARTRSWVEDQNRNLSPFMRGAHNI
SFVTPPSSRSSSQGTVSTVPKEILDSWTGAFNTRRQPLFAHIRKRGESRV"
ORIGIN
1 atggcgtcta acgacgctac cgttgccgtt gctcgcaaca acaacaacga caaggaaaaa
61 tcttcaggtg aaggcttatt cacaaatatg tcttccacct taaagaaagc cctcggggcc
121 agacccaaac agcctgcccc gagagacgaa ccacaaaagc ccccaagacc accaactccc
181 gagttggtca agaggatacc ccctccccca cctaatggcg aagaagaaga agaaccagtc
241 attaggtatg aggttaagag tgggatctct ggcctgcccg agctcacaac agtcccccaa
301 ccggacgtgg ccaacacagc attcagtgtt ccaccactga gcttgagaga aaacagggag
361 gccaaggaac cgctaacagg ggcaatatta gagatgtggg acggagagat ataccactat
421 ggcctgtacg tggagaaagg cttagtgttg ggtgtgcaca aaccacctgc agccataagc
481 atggcaagag tagagctgac gccgctgtca ttgtactggc gtgtggtgta caccccccaa
541 tacctcatct cccctgaaac tctcaggagg ctcaacggag aggcgttccc ttacaccgcc
601 ttcgacaaca actgctatgc cttttgctgc tgggtgttag acctcaatga ctcatggctt
661 agcagaagga tggtgcaaag aacaacgggc ttcttcagac cttaccaaga gtggaacaga
721 aaacccctgc ccaccatgga tgactccaaa ataaagaagg tagcaaatat attcctatgt
781 tcattgtcca cattattcac cagacccata aaagacctca taggaaaaat taaaccatta
841 aacatattga acatcctggc aacgtgtgac tggacgtttg ccggaatagt ggagtctctg
901 atattacttg ctgaactctt cggagttttc tggacacccc cagatgtgtc tgctatgatc
961 gctcccttac tcggggacta cgagttgcaa gggccagaag acctcgccgt tgaactcgtg
1021 cctgtggtaa tgggagggat tggtttggtg ttgggattca ccaaagagaa aattggcaaa
1081 atgttgtcct cagcagcatc aacactcagg gcttgcaaag atcttggtgc ctatggctta
1141 gagatactca aattggtcat gaagtggttc ttcccaaaga aagaggaggt caatgagcta
1201 gccatggtga gggccataga ggatgccgta ctagatcttg aggcaataga aaataaccac
1261 atgacaaccc tgttgaaaga caaagacagc ttggcaacat acatgaaaac actggacatg
1321 gaggaggaga aagccagaag gttgtccaca aaatctgcat cccctgacat agttgggaca
1381 atcaacgccc tgctggctcg aatagcagca gccaggtcat tagtccacag ggccaaggaa
1441 gagctatcta gcaggataag accagtagtt gttatgatat ctggcaaacc aggaataggc
1501 aaaactcatc tggccaggga ggtggcaaga aaggtggcat ccactctcac aggggatcaa
1561 agagtcggac tcataccaag aaacggtgtg gaccattggg atgcatacaa aggtgagaga
1621 gtcgtgctgt gggacgacta tggcatgagt aaccccattc atgatgctct tcgcatacaa
1681 gaattggctg atacgtgtcc ccttacctta aattgtgaca gaattgaaaa taagggaaaa
1741 gtttttgaca gtgaagtcat aataattaca acaaaccttg ctaacccagc cccacttgat
1801 tatgtcaact ttgaggcctg ttccaggaga attgatttcc tggtgtacgc tgaggcacca
1861 gaagtagaaa aggcaaaacg ggattttcct ggtcagccag atatgtggaa ggatgccttc
1921 aagccggact tttcacacat caagctacag cttgcacctc agggcggctt tgataagaat
1981 ggcaacaccc cacatgggaa aggggtgatg aagaccctca ctaccggttc tctgattgcc
2041 cgtgcatcag gcctactgca tgagaggatg gatgaatttg aactccaagg tcccacaatc
2101 accaccttta atttcgaccg gaacagaatc acagcattca gacaattggc tgcagaaaac
2161 aagtatggat tggtggatac catgaaagtt ggcaatcaac taaaaggagt gaaaaccatg
2221 gaagaactca aacaagcaat caggaatgtg accatcaaga ggtgccggat catctacggt
2281 ggctccacgt atgaccttga atctgatggc aagggcaaag ttttggtgga aaaggtcaag
2341 aacacctctg tacagaccaa caacgagttg gccggggccc tgcaccatct caaacacgcc
2401 cgaatcaggt actatgtcaa atgtgtgcaa gaagcagtct attccatcat acaaattgcc
2461 ggcgctgcgt ttgtcaccac gcgcattgca cgccgcatga acatacaaga actctggtcg
2521 aagccacaat tagatcaaaa tgaatcagag gctaaggaag aggcccccaa gtcagaagat
2581 gacgagttca tcatatcttc taaggacatc aaggaggaag gaaagaaggg caagaacaaa
2641 actggccgtg gcaagaaaca cactgcattc tccagcaagg gcttgagcga tgaggagtat
2701 gacgagtaca agaggataag agaagagaga aatgggaagt actctataga ggagtatctt
2761 caagacagag acaggtacta tgaggagctc gccattgcca aggccacgga agaagacttc
2821 tgtgaagagg aggagatcaa aatccgtcag agaattttcc gtcccaccag aaaacaaaga
2881 aaggaagaaa gggccacatt agggctggtg acaggttcag aaatcagaaa aagaaaccct
2941 gatgacttca aacccaaagg gaagctgtgg gccgatgaca acagaagtgt tgactacaat
3001 gagaaactgg actttgaggc ccccccaagc atatggtcta ggattgtgag ctttggctct
3061 ggctggggct tctgggtatc accaagccta ttcataacat caactcatgt aatccccgca
3121 ggcataacag aagcatttgg agtctccatc aaacaaattc agatccacaa atcaggtgaa
3181 ttttgccgat tcagattccc aaaaccaatt agaccagatg tgacaggaat gatcttggaa
3241 gaaggtgcgc ctgaaggcac cgtggcaact gtgctcatca aacgccccac cggagagctc
3301 atgcctcttg cagccagaat gggaacacac gcaaccatga aaattcaagg ccgcatggtt
3361 ggcggacaga tgggtatgtt gctcactgga tcaaatgcta aaggaatgga tttgggaaca
3421 actcctggtg actgtggttg tccttacatc tacaaaaggg gcaatgacta tatagtcatt
3481 ggggtgcaca ctgcagcagc ccgtggtgga aacaccgtca tctgtgctac acagggaagt
3541 gagggtgagg caactcttga gggtggagat gacaaaggaa catactgtgg ggcacccatt
3601 ttaggccctg ggggtgcacc aaaattgagc accaaaacca aattttggag gtcatcgaac
3661 acgccccttc caccagggac atatgagcct gcctacctcg gtggccgtga tccgcgtgtt
3721 aagggtgggc cctccttgca gcaggtaatg agagaccagt tgaagccatt cactgaaccc
3781 aggggcaaac ctccaagacc aagtgtattg gaagcagcca aacaaaccat tatcaatgtt
3841 ctcgaacaaa ccctggaccc tccacaaaaa tggacatacg cacaggcgtg tgcctcactt
3901 gacaaaacca cctccagcgg gcatccccac cacgtccgaa agaatgaatt ctggaatggt
3961 gagaccttca ctggtaaatt ggcagaccaa gcatcaaaag caaacctaat gtttgaggaa
4021 gggaaacaca tgacaccagt gtatacagca gcactcaagg acgagctagt caagactgag
4081 aaaatctatg gaaagatcaa gaagagactg ctctggggct ctgacttgtc caccatgatc
4141 cggtgcgcta ggtcatttgg tgggctcatg gacgagatga aggcacactg catatcactc
4201 ccagtacgag ttggcatgaa tatgaatgaa gatggcccaa taatatttga gaaacattcc
4261 agatacaaat atcactatga tgcagactac tctcgttggg attcaacaca acagagggca
4321 gtactagcag cagccttgga aatcatggtc agattctctg cagaaccaca attggcacaa
4381 atagtcgctg aggatctact ggcccctagt gtagtagatg taggagactt taaaatcaca
4441 ataaatgaag ggctcccatc tggtgtgcca tgcacttctc aatggaactc catcgcacac
4501 tggctgctaa ctctctgtgc cttgtctgaa gtcaccaaac tgtcccctga cattatacaa
4561 gcaaattcca tgttctcatt ttacggtgat gacgagattg tcagcaccga cataaaattg
4621 gaccctgaac agttaaccgc caagttgaag gagtacggcc tgaaaccaac ccgcccagac
4681 aagaccgagg gacccctgat catcagtgaa gatttgaacg gactcacttt cctccgaagg
4741 acggtgactc gtgacccagc tggctggttt ggaaaactgg accaaagttc aattttgagg
4801 cagatgtact ggactagagg accaaatcat gaagacccca atgagacagt gataccccat
4861 tctcaaagac ccatacagct catggcactg cttggtgaag cctctcttca cggaccctct
4921 ttctacagta gaatcagtaa attggtcata actgaactca aagaaggtgg gatggacttt
4981 tacgtgccaa ggcaggaacc catgttcagg tggatgaggt tttctgactt gagcacgtgg
5041 gagggcgatc gcaatctggc tcccaatttt gtgaatgaag atggcgtcga gtgacgccaa
5101 cccatctgat gggtccgcag ccaacctcgt accagaggtc aacaatgagg ttatggcttt
5161 ggagcccgtt gttggtgccg ctattgcggc acctgtagcg ggccaacaaa atgtaattga
5221 cccctggatt agaaataatt ttgtacaagc ccctggtggg gagtttacag tgtcccctag
5281 aaacgctcca ggtgaaatac tatggagcgc gcccctaggc cctgacctaa atccctacct
5341 atcccatttg gccagaatgt acaatggtta tgcaggtggt tttgaagtgc aggtaattct
5401 cgcggggaac gcgttcaccg ccgggaagat tatatttgca gcagtcccac caaattttcc
5461 aactgaaggc ttaagtccta gccaggtcac tatgttcccc catataatag tagatgttag
5521 acaattagaa cctgtgctga ttcctttacc cgatgttagg aataatttct atcattataa
5581 tcagtcaaat gactccacta ttaagttgat agcaatgttg tatacaccac ttagggctaa
5641 taatgctgga gatgatgttt tcacagtttc gtgccgagtt ctcacgagac catcccccga
5701 ttttgatttc atatttttag tgccacccac agttgagtca agaactaaac cattctctgt
5761 cccagtttta actgttgagg agatgaccaa ttcaagattc cccatccctt tggaaaagtt
5821 gtttacaggc cccagcagtg cctttgttgt tcaaccacaa aacggtaggt gcacaactga
5881 tggcgtgctc ctaggcacca cccaactttc tcccgtcaac atctgcacct tcagagggga
5941 tgtcacccac ataacaggta gtcgcaacta cacaatgaac ttggcttctc aaaattggaa
6001 caactatgac ccaacagaag aaatcccagc ccctctagga actccagatt ttgtggggaa
6061 gattcaaggc atgctcaccc aaaccacaag gacagatggt tcaacacgcg gccacaaagc
6121 tacagtgtac actgggagcg ccgactttgc tccaaaactg ggtagagttc aatttgaaac
6181 tgatacagac catgattttg aagctaatca aaacacaaag ttcaccccag tcggtgtcat
6241 ccaagatggt agcaccaccc accgaaatga accccaacag tgggtgctcc caagttactc
6301 aggcagaaac actcacaatg tacatttggc ccccgctgta gcccccacct ttccgggtga
6361 gcaacttctc ttcttcagat ccaccatgcc cggatgcagc gggtacccca acatggattt
6421 ggactgtctg ctcccccaag aatgggtgca gtacttctac caagaggcag ccccagcaca
6481 atctgatgtg gctctgctaa gatttgtgaa tccagacaca ggtagggttt tgtttgagtg
6541 caagcttcac aaatcaggct atgttacagt ggctcacact ggccaacatg atttggttat
6601 cccccccaat ggttacttta ggtttgattc ctgggtcaac cagttctaca cgcttgcccc
6661 catgggaaat ggaacggggc gtagacgtgt agtataatgg ctggagcttt ctttgctgga
6721 ttggcatctg atgtccttgg ctctggactt ggttccctta tcaatgctgg ggctggggcc
6781 atcaaccaaa aagttgaatt tgaaaataac agaaaattgc aacaagcatc cttccaattt
6841 agcagcaatc tgcaacaggc ttcctttcaa catgataaag agatgctcca agcacaaatt
6901 gaggccacca aaaagctaca acaggaaatg atgaaagtta agcaggcaat gctcctagag
6961 ggtgggttct ctgagacaga tgcagcccgt ggggcaatta acgcccccat gacaaaagct
7021 ttggactgga acggaacaag gtactgggct ccagatgcta ggattacaac atacaatgca
7081 ggccactttt ccacccctca accatcgagg gcactgccag gaagagctaa tcttagggat
7141 gctgtccttg ctcggggacc ctccaacaaa tcttctaact cttctactgc cacctctgtg
7201 tactcaaatc aaactatttc aacgagactt ggttctacag ctggttctgg aactagtgtc
7261 tcgagcctcc cgtcaactgc aaggactagg agctgggttg aggatcaaaa taggaatttg
7321 tcacctttca tgaggggggc ccacaacata tcatttgtca ccccaccatc tagcagatcc
7381 tctagtcaag gcacagtctc aaccgtgcct aaagagattt tggactcctg gactggcgct
7441 ttcaacacgc gcaggcagcc tctcttcgct cacattcgta agcgagggga gtcacgggtg
7501 taatgtgaaa agacaaaact gattattttt ctttttcttt tctttagtgt ct
//