Typing tool
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Typing tool
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Complete norovirus genomes
| KY486271 | GII.4 Sydney | |
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| GII.P31 |
ORF1: 1..5094
ORF2: 5075..6697
ORF3: 6697..7503
LOCUS KY486271 7551 bp RNA linear VRL 19-SEP-2018
DEFINITION Norovirus GII strain Hu/GII.Pe-GII.4-Sydney/2013/USA, complete
genome.
ACCESSION KY486271
VERSION KY486271.1
DBLINK BioProject: PRJNA490509
BioSample: SAMN10060453
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7551)
AUTHORS Yang,Z., Vinje,J. and Kulka,M.
TITLE Complete Genome Sequence of Human Norovirus GII.Pe-GII.4 Sydney
from the United States
JOURNAL Genome Announc 5 (15), e00159-17 (2017)
PUBMED 28408676
REMARK Publication Status: Online-Only
REFERENCE 2 (bases 1 to 7551)
AUTHORS Yang,Z. and Kulka,M.
TITLE Direct Submission
JOURNAL Submitted (18-JAN-2017) Molecular Virology Team/Division of
Molecular Biology, OARSA/CFSAN/Food and Drug Administration, 8301
Muirkirk Road, Laurel, MD 20708, USA
COMMENT ##Assembly-Data-START##
Assembly Method :: CLC Genomics Workbench v. 8.0.1
Coverage :: 66,490 X
Sequencing Technology :: Illumina
##Assembly-Data-END##
FEATURES Location/Qualifiers
source 1..7551
/organism="Norovirus GII"
/mol_type="genomic RNA"
/strain="Hu/GII.Pe-GII.4-Sydney/2013/USA"
/isolation_source="stool"
/host="Homo sapiens"
/db_xref="taxon:122929"
/country="USA"
/collection_date="06-Jan-2013"
/note="genotype: GII.Pe-GII.4-Sydney"
CDS 1..5094
/note="ORF1"
/codon_start=1
/product="non-structrual polyprotein"
/protein_id="AQN80591.1"
/translation="MASNDASVAAVANSNNDIAKSSSDGVFSNMAVTFKRALGARPKQ
PPPKEIPPRPPRPPTPELVKKIPPPPPNGEDELVVSYSAKDGVSGLPELTTVRQPEET
NTAFSVPPLNQRESRDAKEPLTGTIIEMWDGEIYHYGLYVERGLILGVHKPPAAISLA
KVELTPLSLFWRPVYTPQYLISPDTLRRLHGESFPYTAFDNNCYAFCCWVLDLNDSWL
SRRMIQRTTGFFRPYQDWNRKPLPTMDDSKLKKVANIFLCTLSSLFTRPIKDVIGKLK
PLNILNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPEDLA
VELVPIVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFPKK
EEVNELAMVRSIEDAVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARKLSTKS
ASPDIVGTINSLLARIAAARSLVHRAKEELSSRPRPVVVMISGRPGIGKTHLARELAK
KIAASLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTCPL
TLNCDRIENKGKVFDSDAIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEKAK
RDFPGQPDMWKNAFSPDFSHIKLSLAPQGGFDKNGNTPHGKGVMKTLTTGSLIARASG
LLHERLDEYELQGPALTTFNFDRNKILAFRQLAAENKYGLMDTMRVGKQLKDVKTMSD
LKQALKNIAIKKCQIVYNGSTYTLEADGKGSVKVDKVQSVTVQTNNELAGALHHLRCA
RIRYYVKCVQEALYSIIQIAGAAFVTTRIAKRMNIQNLWSKPQVEDTEEMTNKDGCLK
PKDDEEFVVSSDDIKTEGKKGKNKSGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKY
SIEEYLQDRDRYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGLVTG
SEIRKRNPEDFKPKGKLWADDDRSVDYNEKLNFEAPPSIWSRIVNFGSGWGFWVSPSL
FITSTHVIPQGAKEFFGVPIKQIQIHKSGEFCRLRFPKPIRTDVTGMILEEGAPEGTV
ATLLIKRPTGELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGDCG
CPYIYKRGNDYVVIGVHTAAARGGNTVICATQGSEGEATLEGGDSKGTYCGAPILGPG
SAPKLSTKTKFWRSSTTPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKPFTEPRG
KPPRPNVLEAAKKTIINVLEQTIDPPQKWSFAQACASLDKTTSSGHPHHMRKNDCWNG
ESFTGKLADQASKANLMFEEGKNMTPVYTGALKDELVKTDKVYGKIKKRLLWGSDLAT
MIRCARAFGGLMDELKAHCVTLPVRVGMNMNEDGPIIFEKHSRYRYHYDADYSRWDST
QQRDVLAAALEIMVKFSPEPHLAQVVAEDLLSPSVMDVGDFQISISEGLPSGVPCTSQ
WNSIAHWLLTLCALSEVTDLSPDIIQANSLFSFYGDDEIVSTDIKLDPEKLTAKLKEY
GLKPTRPDKTEGPLVISEDLDGLTFLRRTVTRDPAGWFGKLEQSSILRQMYWTRGPNH
EDPFETMIPHSQRPIQLMSLLGEAALHGPAFYSKISKLVIAELKEGGMDFYVPRQEPM
FRWMRFSDLSTWEGDRNLAPSFVNEDGVE"
CDS 5075..6697
/note="ORF2"
/codon_start=1
/product="major capsid protein"
/protein_id="AQN80592.1"
/translation="MKMASSDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ
QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
FEVQVILAGNAFTAGKVIFAAVPPNFPTEGLSPSQVTMFPHIVVDVRQLEPVLIPLPD
VRNNFYHYNQSNDPTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT
QLSPVNICTFRGDVTHITGSRNYTMNLASQNWNNYDPTEEIPAPLGTPDFVGKIQGML
TQTTRADGSTRGHKATVYTGSADFAPKLGRVQFETDTDHDFEANQNTKFTPVGVIQDG
STTHRNEPQQWVLPSYSGRNTHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD
CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV
IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRAV"
CDS 6697..7503
/note="ORF3"
/codon_start=1
/product="minor capsid protein"
/protein_id="AQN80593.1"
/translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA
SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQEMMKVKQAMLLEGGFSETDAARGAIN
APMTKALDWSGTRYWAPDARTTTYNAGRFSTPQPSGALPGRANLRDAVPARGSSSKSS
NSSTATSVYSNQTTSTRLGSTAGSGTSVSSLPSTARTRSWVEDQSGNLSPFMRGAHNI
SFVTPPSSRSSSQGTVSTVPKEVLDSWTGAFNTRRQPLFAHIRKRGESRV"
3'UTR 7504..7551
ORIGIN
1 atggcgtcta acgacgcttc cgttgccgct gttgccaaca gcaacaacga catcgcaaaa
61 tcttcaagtg acggtgtgtt ttctaacatg gctgtcactt ttaagcgggc cctcggggcg
121 cggcctaaac agccgccccc gaaggagata ccacccagac ccccgcgacc acccacacca
181 gaattggtca aaaagatccc tcctccccca cccaacgggg aggatgaact agtggtctct
241 tacagcgcca aagatggcgt ttccggactg cctgagctca ccactgtcag acaaccggaa
301 gaaaccaaca cggcgttcag tgtcccccca ctcaaccaaa gggagagcag ggacgccaag
361 gagccactaa ctggaacaat tattgaaatg tgggatggag aaatctacca ttacggcctg
421 tacgtggaac gaggtcttat acttggtgtg cacaagccac cggcagccat cagccttgcc
481 aaggtcgagc taacaccgct ctctttgttc tggagacctg tatacacccc ccagtatctc
541 atctctccag acactcttag gagattacat ggggagtcat tcccctacac tgcatttgac
601 aacaattgct acgccttttg ttgttgggta ttagacctaa acgactcatg gttaagcagg
661 agaatgattc agagaacaac aggtttcttc aggccgtacc aggattggaa caggaagccc
721 ctccccacta tggatgattc caaattaaag aaggtagcca acatattctt gtgcactttg
781 tcttcactat tcaccagacc cattaaggac gtaataggga agttgaaacc tcttaacatc
841 cttaacattc tggctacatg tgattggacc ttcgcaggca tagtggaatc tttaatactc
901 ttagcagaac tctttggagt tttctggaca cccccagatg tgtctgcgat gatcgccccc
961 ttgctaggtg attatgaact gcaaggacct gaggaccttg cagtggaact ggtcccaata
1021 gtgatggggg ggataggttt ggtgctagga tttaccaaag agaaaattgg aaagatgcta
1081 tcatccgctg catccacttt aagagcttgt aaagacctcg gtgcatacgg actggaaatc
1141 ttaaaattgg tcatgaagtg gttcttccca aagaaagagg aagtaaatga actggctatg
1201 gtgagatcca tcgaggatgc agtgctagac ctcgaggcaa ttgaaaacaa ccacatgacc
1261 accctactca aagacaaaga cagcttggca acctacatga gaacccttga ccttgaggag
1321 gagaaagcca gaaaactctc aaccaaatct gcttcacccg atattgtggg cacaatcaac
1381 tctcttctgg caagaatcgc tgctgcacgc tccctagtgc atcgggcgaa agaagagctc
1441 tccagcaggc cgagacctgt cgttgtgatg atatcgggaa gaccagggat agggaaaact
1501 caccttgcca gggagctggc caagaagatc gcggcctccc tcacagggga ccagcgtgtg
1561 ggtcttatcc cacgcaatgg tgtcgaccac tgggacgcat acaagggcga aagagttgtc
1621 ctatgggacg actatggaat gagcaacccc atccatgatg ccctcaggtt gcaggagctt
1681 gctgacactt gccccctcac gctaaattgt gacagaattg agaacaaagg gaaagtcttt
1741 gacagtgatg ccataattat caccaccaat ctggccaacc cagcaccact ggactatgtc
1801 aactttgaag cgtgctcgag acgtattgac ttcctcgtgt acgcagaagc ccctgaggtg
1861 gagaaggcaa agcgcgactt cccaggtcaa cctgacatgt ggaagaacgc tttcagtcct
1921 gacttctcac acataaaact gtcattggct ccacagggtg gttttgacaa gaacggcaac
1981 accccgcatg gaaaaggggt catgaagacc ctcaccactg gctccctcat cgcccgagca
2041 tcagggttac tccatgagag gctagatgaa tatgaactgc aaggcccagc cctcaccact
2101 ttcaactttg accgcaacaa gatacttgct tttagacagc ttgctgctga aaacaagtat
2161 gggctgatgg acacaatgag agttggaaaa cagctcaagg atgtcaagac catgtcagac
2221 ctcaaacaag cactcaagaa catcgcgatc aagaagtgcc agatagtgta caatggtagc
2281 acctacacac ttgaggccga tggcaagggt agtgtgaaag ttgacaaagt gcaaagtgtc
2341 actgtgcaga ccaacaatga actagccggt gccctacacc acctaaggtg cgctagaatc
2401 agatactatg ttaagtgcgt ccaggaggca ctgtattcca tcatccaaat cgctggggct
2461 gcattcgtca ccacgcgcat cgctaagcgc atgaatatac agaacctctg gtccaagcca
2521 caggtggaag acacagaaga gatgaccaac aaagatggtt gcctaaaacc caaagatgat
2581 gaagagtttg tcgtctcatc cgacgacatc aaaactgagg gcaagaaagg gaagaacaag
2641 tccggccgtg gcaagaagca cacagccttt tcaagcaaag ggctcagtga tgaggagtac
2701 gatgagtaca agagaatcag agaagaaagg aatggtaagt actccataga agagtacctt
2761 caggacagag acaggtacta cgaggaggtg gccattgcca gggcaaccga agaggacttc
2821 tgtgaagaag aagaggccaa aatccgacag agaattttca gaccaacaag gaaacaacgc
2881 aaagaagaga gggcctctct cggcttggtc acaggctctg aaatcaggaa gagaaaccca
2941 gaagacttca aacccaaggg aaagctgtgg gctgatgatg acagaagtgt tgactacaat
3001 gagaaactca actttgaggc cccaccaagc atctggtcgc ggatagtcaa ctttggttca
3061 ggctggggct tctgggtctc ccccagtctg tttataacat caacccatgt cataccccaa
3121 ggtgcaaaag agttcttcgg agtccctatc aagcaaatcc agatacacaa atcaggtgaa
3181 ttctgccggt tgagattccc aaagccaatc agaactgatg tgacgggcat gattctagaa
3241 gaaggtgcgc ccgaggggac cgtggccaca ctgctcatca agagaccaac aggagagctc
3301 atgcctttgg cagccagaat ggggacccat gcaaccatga aaattcaggg gcgcacagtt
3361 ggagggcaaa tgggtatgct cctgacagga tccaacgcca agagtatgga cctaggcaca
3421 acaccaggcg actgcggttg cccctacatc tacaagaggg ggaatgacta cgtggtcata
3481 ggagtccaca cggccgctgc ccgtggagga aacactgtca tatgtgccac ccaggggagt
3541 gagggagaag ccacacttga aggaggtgac agtaaaggga catactgtgg cgcaccaatc
3601 ttgggcccag ggagcgctcc aaagctcagt accaagacta agttttggag atcatccaca
3661 acaccactcc cacctggcac ctacgaacca gcctacctcg gtggcaaaga ccccagagtc
3721 aaaggtggcc cttcattgca acaagttatg agggaccagc tgaagccatt cacagaaccc
3781 agaggcaaac caccaagacc aaatgtgttg gaagctgcca agaaaaccat catcaatgtc
3841 cttgagcaaa caattgatcc accccaaaaa tggtcatttg cgcaggcttg cgcatctctt
3901 gacaaaacca cctccagcgg ccacccgcac cacatgcgga aaaacgattg ttggaatggg
3961 gagtccttca caggaaaatt ggctgatcaa gcctccaagg ccaacctaat gtttgaagag
4021 ggaaagaaca tgactccagt ctacacaggt gcacttaaag atgagttggt aaagaccgat
4081 aaagtttatg gtaagatcaa gaagaggctt ctgtggggtt cagatctggc gaccatgata
4141 cggtgtgccc gagcttttgg aggccttatg gatgaactca aggcgcactg tgtcacactt
4201 cctgtcagag ttggtatgaa catgaatgag gatggcccca tcatctttga gaagcactcc
4261 aggtatagat atcactatga tgctgattat tcccggtggg actcaacaca acaaagggat
4321 gtgctagcag cagcactaga aatcatggtt aagttctctc cagaaccaca cctggcccag
4381 gtagttgcag aagacctcct ttcccctagc gtgatggatg taggtgactt tcaaatatca
4441 ataagtgagg gtcttccctc tggggtacct tgtacctccc agtggaattc catcgcccac
4501 tggctcctca ctctttgtgc actctctgaa gtcacggacc tgtcccctga catcattcag
4561 gccaactccc ttttctcctt ctatggtgat gatgagattg taagcacaga cataaagttg
4621 gacccagaga agctgacagc aaagctcaag gagtacgggc tgaaaccaac ccgccccgac
4681 aaaactgaag gaccccttgt tatctctgaa gacctggatg gcctgacatt cctccggaga
4741 actgtgaccc gtgatccagc tggctggttt ggaaaattgg aacaaagttc aattctcaga
4801 caaatgtact ggaccagggg tcccaaccat gaagatccat ttgaaacaat gataccacac
4861 tcccaaagac ccatacaatt gatgtccttg ctgggcgagg ctgcactcca cggcccggca
4921 ttttacagca aaattagcaa attagtcatt gcagagctga aggaaggtgg catggatttt
4981 tacgtgccca gacaagagcc aatgttcaga tggatgagat tctcagatct gagcacgtgg
5041 gagggcgatc gcaatctggc tcccagtttt gtgaatgaag atggcgtcga gtgacgccaa
5101 cccatctgat gggtccgcag ccaacctcgt cccagaggtc aacaatgagg ttatggctct
5161 ggagcccgtt gttggtgccg ccattgcggc acctgtagcg ggccaacaaa atgtaattga
5221 cccctggatt agaaacaatt ttgtacaagc ccctggtgga gagtttacag tgtcccctag
5281 aaacgctcca ggtgaaatac tatggagcgc gcccttgggc cctgatctaa atccctacct
5341 atcccatttg gccagaatgt acaatggtta tgcaggtggt tttgaagtgc aggtaattct
5401 cgcggggaac gcgttcaccg ccgggaaggt catatttgca gcagtcccac caaactttcc
5461 aactgaaggc ttgagcccca gccaggtcac tatgttcccc catatagtag tagatgttag
5521 gcaactagaa cctgtgttga ttcccttacc cgatgttagg aataatttct atcattataa
5581 tcaatcaaat gaccccacca ttaagttgat agcaatgttg tacacaccac ttagggctaa
5641 taatgctggg gatgatgtct tcacagtttc ttgccgagtt ctcacgagac catcccccga
5701 ttttgatttc atatttctag tgccacccac agttgagtca agaactaaac cattctctgt
5761 cccagtttta actgttgagg agatgaccaa ttcaagattc cccattcctt tggaaaagtt
5821 gttcacgggt cccagcagtg cctttgttgt ccaaccacaa aacggcaggt gcacgactga
5881 tggcgtgctc ctaggcacaa cccaactgtc tcctgtcaac atctgcacct tcagaggaga
5941 tgtcacccat atcacaggta gtcgtaacta cacaatgaat ttggcttctc aaaattggaa
6001 caattatgac ccaacagaag aaatcccagc ccctctagga actccagact ttgtggggaa
6061 gattcaaggc atgctcaccc aaaccacaag ggcagatggc tcaacacgcg gccacaaagc
6121 cacagtgtac actgggagcg ccgactttgc tccaaaactg ggtagagttc aatttgagac
6181 tgacacagac catgattttg aagctaacca aaacacaaag ttcaccccag tcggtgtcat
6241 ccaagatggt agcaccaccc accgaaatga accccaacag tgggtgctcc caagttactc
6301 aggcagaaat actcataatg tgcatctggc ccccgctgta gcccccactt ttccgggtga
6361 gcaacttctc ttcttcagat ccaccatgcc cggatgcagc gggtacccta acatggattt
6421 ggactgtctg ctcccccagg aatgggtgca gtacttctac caagaggcag cccccgcaca
6481 atctgatgtg gctctgctaa gatttgtgaa tccagacaca ggtagggttt tgtttgagtg
6541 taagcttcat aaatcaggct atgttacagt ggctcacact ggccaacatg atttggttat
6601 tccccccaat ggttatttta gatttgattc ctgggtcaac cagttctaca cgcttgcccc
6661 catgggaaat ggaacggggc gtagacgtgc agtataatgg ctggagcttt ctttgctgga
6721 ttggcatctg atgtccttgg ctctggactt ggttccctta tcaatgctgg ggctggggcc
6781 atcaaccaaa aagttgagtt tgaaaataac agaaaattgc aacaagcatc cttccaattt
6841 agcagcaatc tacaacaggc ttcctttcaa catgacaaag agatgctcca agcacaaatt
6901 gaggccacca aaaagctaca acaggaaatg atgaaagtta agcaggcaat gctcctagag
6961 ggtgggttct ctgagacaga tgcagcccgc ggggcaatca acgcccccat gacaaaagct
7021 ttggactgga gtgggacaag gtactgggct cccgatgcta ggactacaac atacaatgca
7081 ggccgctttt ccacccctca accatcgggg gcactgccag gaagagctaa tcttagggat
7141 gctgtccctg ctcggggttc ctccagtaaa tcttctaatt cttctactgc tacttctgtg
7201 tactcaaatc aaactacttc aacgagactt ggttctacag ctggttctgg taccagtgtc
7261 tcgagcctcc cgtcaactgc aaggactagg agctgggttg aggatcaaag tgggaatttg
7321 tcacctttca tgaggggggc ccacaacata tcttttgtca ccccaccatc tagcagatcc
7381 tctagccaag gcacagtctc aaccgtgcct aaagaggttt tggactcctg gactggcgct
7441 ttcaacacgc gcaggcagcc actcttcgct cacattcgta agcgagggga gtcacgggtg
7501 taatgtgaaa agacaaaatt gattatcttt ctttttcttt agtgtctttt a
//