Typing tool
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Typing tool
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Complete norovirus genomes
| KY905335 | GII.4 Sydney | |
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| GII.P16 |
ORF1: 1..5076
ORF2: 5057..6679
ORF3: 6679..7485
LOCUS KY905335 7529 bp RNA linear VRL 15-AUG-2017
DEFINITION Norovirus GII strain Hu/GII.P16_GII.4 Sydney 2012/QLDB309/2016/AU,
partial genome.
ACCESSION KY905335
VERSION KY905335.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7529)
AUTHORS Lun,J.H. and White,P.A.
TITLE Emerging Recombinant Noroviruses in the Oceania Region, Identified
by Both Clinical and Wastewater Screening
JOURNAL Unpublished
REFERENCE 2 (bases 1 to 7529)
AUTHORS Warrilow,D., Huang,B., Lun,J.H. and White,P.A.
TITLE Direct Submission
JOURNAL Submitted (02-APR-2017) Forensic and Scientific Services, 39
Kessels Rd, Coopers Plains, Queensland 4108, Australia
COMMENT ##Assembly-Data-START##
Assembly Method :: Geneious v. R8
Sequencing Technology :: Illumina; NextSeq
##Assembly-Data-END##
FEATURES Location/Qualifiers
source 1..7529
/organism="Norovirus GII"
/mol_type="genomic RNA"
/strain="Hu/GII.P16_GII.4 Sydney 2012/QLDB309/2016/AU"
/host="Homo sapiens"
/db_xref="taxon:122929"
/country="Australia"
/collection_date="Sep-2016"
/note="genotype: GII.P16/GII.4 Sydney 2012"
CDS <1..5076
/note="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="ARO77089.1"
/translation="TVAVACNNNNDKEKSSGEGLFTNMSSTLKKALGARPKQPAPRDG
PQKPPRPPTPELVKRIPPPPPNGEGEEEPVIRYEIKSGISGLPELTTVPQPDVANTAF
SVPPLSLRENREAKEPLTGAILEMWDGEIYHYGLYVEKGLVLGVHKPPAAISMARVEL
TPLSLYWRVVYTPQYLISPETLRRLNGEAFPYTAFDNNCYAFCCWVLDLNDSWLSRRM
VQRTTGFFRPYQEWNRKPLPTMDDPKIKKVANIFLCSLSTLFTRPIKDLIGKIKPLNI
LNILATCDWTFAGIVESLILLAELFGIFWTPPDVSAMIAPLLGDYELQGPEDLAVELV
PVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFPKKEEAN
ELAMVRAIEDAVLDLEAIENNHMTTLLKDKDSLATYMKTLDMEEEKARRLSTKSASPD
IVGTINALLARIAAARSLVHRAKEELSSRIRPVVVMISGKPGIGKTHLAREVARKVAS
TLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRIQELADTCPLTLNC
DRIENKGKVFDSEVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEKAKRDFP
GQPDMWKDAFKPDFSHIKLQLAPQGGFDKNGNTPHGKGVMKTLTTGSLIARASGLLHE
RMDEFELQGPTITTFNFDRNRIMAFRQLAAENKYGLVDTMKVGNQLKGVKTMEELKQA
IRNVTIKRCRIIYGGSTYDLESDGKGKVLVEKVKSTSVQTNNELAGALHHLKHARIRY
YVKCVQEAVYSIIQIAGAAFVTTRIARRMNIQELWSKPQLDQSESETKEEAPKSEDDE
FIISSKDIKEEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKYSIEEYL
QDRDRYYEELAIAKATEEDFCEEEEIKIRQRIFRPTRKQRKEERATLGLVTGSEIRKR
NPDDFKPKGKLWADDNRSVDYNEKLDFEAPPSIWSRIVSFGSGWGFWVSPSLFITSTH
VIPTGITEAFGVPIKQIQIHKSGEFCRFRFPKPIRPDVTGMILEEGAPEGTVATVLIK
RPTGELMPLAARMGTHATMKIQGRMVGGQMGMLLTGSNAKGMDLGTTPGDCGCPYIYK
RGNDYIVIGVHTAAARGGNTVICATQGSEGEATLEGGDDKGTYCGAPILGPGGAPKLS
TKTRFWRSSNTPLPPGTYEPAYLGGRDPRVKGGPSLQQVMRDQLKPFTEPRGKPPRPS
VLEAAKQTIINVLEQTLDPPQKWTYAQACASLDKTTSSGHPHHVRKNEFWNGETFTGK
LADQASKANLMFEEGKHMTPVYTAALKDELVKTEKIYRKIKKRLLWGSDLSTMIRCAR
SFGGLMDEMKAHCISLPVRVGMNMNEDGPIIFEKHSRYKYHYDADYSRWDSTQQRAVL
AAALEIMVRFSAEPQLAQIVAEDLLAPSAVDVGDFKITINEGLPSGVPCTSQWNSIAH
WLLTLCALSEVTKLSPDIIQANSMFSFYGDDEIVSTDIKLDPEQLTAKLKEYGLKPTR
PDKTEGPLIISEDLNGLTFLRRTVTRDPAGWFGKLDQSSILRQMYWTRGPNHEDPNET
MIPHSQRPIQLMALLGEASLHGPSFYSKISKLVITELKEGGMDFYVPRQEPMFRWMRF
SDLSTWEGDRNLAPNFVNEDGVE"
CDS 5057..6679
/note="ORF2"
/codon_start=1
/product="VP1"
/protein_id="ARO77090.1"
/translation="MKMASSDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ
QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
FEVQVVLAGNAFTAGKIIFAAVPPNFPTEGLSPSQVTMFPHIIVDVRQLEPVLIPLPD
VRNNFYHYNQSNDSTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSSDFDFIFLVPP
TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT
QLSPVNICTFRGDVTHITGSRNYTMNLASQNWNNYDPTEEIPAPLGTPDFVGKIQGML
TQTTRTDGSTRGHKATVYTGSADFAPKLGRVQYETDTDHDFEANQNTKFTPVGVIQDG
STTHRNEPQQWVLPSYSGRNTHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD
CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV
IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRVV"
CDS 6679..7485
/note="ORF3"
/codon_start=1
/product="VP2"
/protein_id="ARO77091.1"
/translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA
SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQEMMRVKQAMLLEGGFSETDAARGAIN
APMTKALDWSGTRYWAPDARTTTYNAGRFSTPQPSGALPGRANLRDAVPARGPSNKSS
NSSAATSVYSNQTISTRLGSTAGSGTSVSSLPSTARTRSWVEDQSRNLSPFMRGAHNI
SFVTPPSSRSSSQGTVSTVPKGILDSWTGAFNTRRQPLFAHIRKRGESRV"
3'UTR 7486..7529
ORIGIN
1 accgttgccg ttgcttgcaa caacaacaac gacaaggaaa aatcttcagg tgaaggctta
61 ttcacaaata tgtcttccac cttaaagaaa gccctcgggg ctaggcccaa acagcctgcc
121 ccgagagacg gaccacaaaa gcccccaaga ccaccaactc ccgagttggt caagaggata
181 ccccctcctc cacctaatgg cgaaggagaa gaagaaccag tcattaggta tgagattaag
241 agtgggatct ctggcctgcc cgagctcaca acagtccccc aaccggacgt ggccaacaca
301 gcattcagtg ttccaccact gagcttgaga gaaaacaggg aggccaagga accgctaaca
361 ggggcaatat tagagatgtg ggatggagag atataccact atggcctgta cgtggagaaa
421 ggtttagtgc tgggtgtgca caaaccacct gcagccataa gcatggcaag agtggagttg
481 acgccgctgt cattgtactg gcgtgtggtg tacactcccc aatacctcat ctcccctgaa
541 actctcagga ggctcaacgg agaggcgttc ccttacaccg cctttgacaa caactgctat
601 gccttttgct gctgggtgtt agacctcaat gactcatggc ttagcaggag gatggtgcaa
661 agaacaacgg gcttcttcag accttaccaa gagtggaaca gaaaacccct gcctaccatg
721 gatgacccca aaattaagaa ggtagcaaat atattcctat gttcattgtc cacactattc
781 accagaccca taaaagacct cataggaaaa attaaaccat taaacatatt gaacatcctg
841 gcaacgtgtg actggacgtt tgccggaata gtggagtctc tgatattact tgctgaactc
901 ttcggaattt tctggacacc cccagatgtg tctgctatga tcgctccctt actcggggac
961 tacgagttgc aggggccaga agacctcgcc gttgaactcg tacctgtggt aatgggaggg
1021 attggtttgg tgttgggatt caccaaagag aaaattggca aaatgttgtc ctcagcagca
1081 tcaacactca gggcttgcaa agatcttggt gcctatggct tagagatact caaattggtc
1141 atgaagtggt tcttcccaaa gaaagaggag gccaatgagc tagccatggt gagggccata
1201 gaggatgccg tactagatct tgaggcaata gaaaacaacc acatgacaac cctgttgaaa
1261 gacaaagaca gcttagcaac atacatgaaa acactggaca tggaggagga gaaggccaga
1321 aggttgtcca caaaatctgc atctcctgac atagttggga caatcaacgc cctgctggct
1381 cgaatagcag cggccaggtc attagtccac agggccaagg aagagctgtc tagcaggata
1441 agaccagtag ttgttatgat atctggcaaa ccaggaatag gcaaaactca tctggccagg
1501 gaggtagcaa gaaaggtggc atccactctc acaggggatc aaagagtcgg actcatacca
1561 agaaacggtg tggaccattg ggatgcatac aaaggtgaga gagtcgtgct gtgggacgac
1621 tatggcatga gtaaccccat tcatgatgct cttcgcatac aagaattggc tgatacgtgt
1681 ccccttacct taaattgtga cagaattgaa aataagggaa aagtttttga cagtgaagtc
1741 ataataatta caacaaacct tgccaatcca gccccacttg attatgtcaa ctttgaggct
1801 tgttccagga gaattgattt cctggtgtat gctgaggcac cagaagtaga aaaggcaaaa
1861 cgggactttc ctggtcagcc agatatgtgg aaggacgcct tcaagccgga cttctcacac
1921 atcaagctac agcttgcacc tcagggcggc tttgacaaga atggcaacac cccacatggg
1981 aaaggagtga tgaagaccct cactaccggt tctctgattg cccgtgcgtc aggcctactg
2041 catgagagga tggatgaatt tgaactccaa ggtcccacaa tcaccacctt caatttcgac
2101 cggaacagaa tcatggcatt cagacaattg gctgcagaaa acaagtatgg attggtggat
2161 accatgaaag ttggcaatca actaaaagga gtgaaaacca tggaagaact caaacaagca
2221 atcaggaatg tgaccatcaa gaggtgccgg atcatctatg gcggctccac gtatgacctt
2281 gaatctgatg gcaagggcaa agttttggtg gaaaaggtca agagcacctc tgtacagacc
2341 aacaacgagt tggccggggc cctgcaccat ctcaaacacg cccgaatcag gtactatgtt
2401 aaatgtgtgc aagaagcagt ctattccatc atacaaattg ccggcgctgc gtttgtcacc
2461 acgcgcattg cacgccgcat gaacatacaa gaactctggt cgaagccaca attagatcaa
2521 agcgaatcag agactaagga agaggccccc aagtcagaag atgacgagtt catcatatct
2581 tctaaggaca tcaaggagga aggaaagaag ggcaaaaaca aaactggccg tggcaagaaa
2641 cacactgcat tctccagcaa gggcttgagc gatgaggagt atgacgagta caagaggata
2701 agagaagaga gaaatgggaa gtactctata gaggagtatc ttcaagacag agacaggtac
2761 tatgaggagc tcgccattgc caaggccacg gaagaagact tctgtgaaga ggaggagatc
2821 aaaatccgtc agagaatttt ccgtcccacc aggaaacaaa gaaaggaaga gagggccaca
2881 ttagggctag taacaggttc agaaatcaga aaaagaaacc ctgatgattt caaacccaaa
2941 gggaagctgt gggccgatga caacagaagt gttgactaca atgagaagct ggactttgag
3001 gcccccccaa gcatatggtc taggattgtg agctttggtt ctggctgggg tttctgggta
3061 tcaccaagcc tgttcataac atcaactcat gtaatcccca caggcataac agaagcattt
3121 ggagtcccca tcaaacaaat tcagatccac aaatcaggtg aattctgccg attcagattc
3181 ccaaaaccaa ttagaccaga tgtgacagga atgatcttgg aagaaggtgc gcctgaaggc
3241 accgtggcaa ctgtgctcat caaacgcccc accggagagc tcatgcctct tgcagccaga
3301 atgggaacac acgcaaccat gaaaattcaa ggccgcatgg ttggcggaca gatgggtatg
3361 ttgctcactg gatcaaatgc taaaggaatg gatttgggaa caactcctgg tgactgtggc
3421 tgtccttaca tctataaaag gggcaatgac tatatagtca ttggggtgca cactgcagca
3481 gcccgtggtg gaaacaccgt catctgtgcc acacagggaa gtgagggtga ggcaactctt
3541 gagggtggag acgacaaagg aacatactgt ggggcaccca ttctaggccc tgggggtgca
3601 ccaaaattga gcaccaaaac cagattttgg aggtcatcga acacgcccct tccaccaggg
3661 acatatgagc ctgcctacct cggtggccgt gatccgcgtg ttaagggtgg gccctccttg
3721 cagcaggtaa tgagagacca gttgaaacca ttcactgaac ccaggggcaa acctccaaga
3781 ccaagtgtat tggaagcagc taaacaaacc attatcaacg tcctcgaaca aaccctggat
3841 cctccacaaa aatggacgta cgcacaggcg tgtgcctcac ttgacaaaac cacctccagc
3901 gggcatcctc atcacgtccg aaagaatgaa ttctggaatg gtgagacctt cactggtaaa
3961 ttggcagacc aagcatcaaa agcaaaccta atgtttgagg aagggaaaca catgacacca
4021 gtgtacacag cagcactcaa ggacgagcta gtcaagactg agaaaatcta tagaaagatt
4081 aagaagagac tgctctgggg ctctgacttg tccaccatga tccggtgcgc taggtcattt
4141 ggtgggctca tggacgagat gaaggcacac tgcatatcac tcccagtacg agttggcatg
4201 aatatgaatg aagatggccc aataatattt gagaaacatt ccagatacaa ataccactat
4261 gatgcagact actctcgttg ggattcaaca caacagaggg cagtgctagc agcagccttg
4321 gaaatcatgg tcagattctc tgcagaacca caattggcac aaatagtcgc tgaggatcta
4381 ctggccccta gtgcagtaga tgtaggagac tttaaaatca caataaatga agggctccca
4441 tctggtgtgc catgcacttc tcaatggaac tccatcgcac actggctgct aactctctgt
4501 gccttgtctg aagtcaccaa actgtcccct gacattatac aagcaaattc catgttctca
4561 ttttacggtg atgacgagat tgtcagcacc gacataaaat tggaccctga acagttaacc
4621 gccaaattga aggagtacgg cctgaagcca acccgtccag acaagaccga gggacccctg
4681 atcatcagtg aagatttgaa cggactcact ttcctccgaa ggacggtgac tcgtgaccca
4741 gctggctggt ttggaaaact ggaccaaagc tcaattttga ggcagatgta ctggactaga
4801 ggaccaaatc atgaagaccc caatgagaca atgatacccc attctcaaag acccatacag
4861 ctcatggcac tgcttggtga ggcctctctt cacggaccct ctttctacag taaaatcagt
4921 aaattggtca taactgaact caaagaaggt gggatggact tttacgtgcc aagacaggaa
4981 cccatgttca ggtggatgag gttttctgac ttgagcacgt gggagggcga tcgcaatctg
5041 gctcccaatt ttgtgaatga agatggcgtc gagtgacgcc aacccatctg atgggtccgc
5101 agccaacctc gtaccagagg tcaacaatga ggttatggct ttggagcccg ttgttggtgc
5161 cgctattgcg gcacctgtag cgggccaaca aaatgtaatt gacccctgga ttagaaataa
5221 ttttgtacaa gcccctggtg gggagtttac agtatcccct agaaacgctc caggtgaaat
5281 actatggagc gcgcccctag gccctgacct aaatccctac ctatcccatt tggccagaat
5341 gtacaatggt tatgcaggtg gttttgaagt gcaggtagtt ctcgcgggga acgcgttcac
5401 cgccgggaaa atcatatttg cagcagtccc accaaatttt ccaactgaag gcttaagtcc
5461 tagccaggtc actatgttcc cccatataat agtggatgtt agacaattag aacctgtgct
5521 gattccctta cccgatgtca ggaataattt ctatcattac aatcagtcaa atgattccac
5581 tattaagttg atagcaatgt tgtatacacc acttagggct aataatgctg gggatgatgt
5641 tttcacagtt tcgtgccgag ttctcacaag accatcctcc gattttgatt tcatattttt
5701 agtgccaccc acagttgaat caagaactaa accattctct gtcccagttt taactgttga
5761 ggagatgacc aattcaagat tccccattcc tttggaaaag ttgttcacgg gccccagcag
5821 tgcctttgtt gttcaaccac aaaacggcag gtgcacaact gatggcgtgc ttctaggcac
5881 cacccaactg tctcctgtca acatctgcac cttcagaggg gatgtcaccc acatcacagg
5941 tagtcgcaac tacacaatga atttggcttc tcaaaattgg aacaactatg acccaacaga
6001 agaaatccca gcacctctag gaactccaga ttttgtgggg aagatccaag gcatgctcac
6061 ccaaaccaca aggacagatg gttcaacacg cggccataaa gctacagtgt acactgggag
6121 cgccgacttt gctccaaaac tgggtagagt tcaatatgaa actgacacag accatgattt
6181 tgaagctaat caaaacacaa agttcacccc agtcggtgtc atccaagatg gtagcaccac
6241 ccaccgaaac gaaccccaac agtgggtgct cccaagttac tcaggcagaa atactcacaa
6301 tgtacacctg gcccccgctg tagcccccac ctttccgggt gagcaacttc tcttcttcag
6361 atccaccatg cccggatgca gcgggtaccc caacatggat ttggactgtc tgctccccca
6421 ggaatgggtg cagtacttct accaagaggc agccccagca caatctgatg tggctctgct
6481 aagatttgtg aatccagaca caggtagggt tttgtttgag tgcaagcttc acaaatcagg
6541 ctatgttaca gtggctcaca ctggccaaca tgatttggtt atccccccca atggttactt
6601 taggtttgat tcctgggtca accagttcta cacgcttgcc cccatgggaa atggaacggg
6661 gcgtagacgt gtagtataat ggctggagct ttctttgctg gattggcatc tgatgtcctt
6721 ggctctggac ttggttccct tatcaatgct ggggctgggg ccatcaacca aaaagttgag
6781 tttgaaaata acagaaaatt gcaacaagca tccttccaat ttagcagcaa tctgcaacag
6841 gcttcttttc aacatgataa agagatgctt caagcacaaa ttgaggccac caaaaagcta
6901 caacaggaaa tgatgagagt taagcaggcg atgctcctag agggtgggtt ctctgagaca
6961 gatgcagccc gcggggcaat taacgccccc atgacaaaag ctttggactg gagcgggaca
7021 aggtactggg ctcccgatgc taggactaca acatacaatg caggccgctt ttccacccct
7081 caaccatcgg gggcactgcc aggaagagct aatcttaggg atgctgtccc tgctcgggga
7141 ccctccaaca aatcttctaa ttcttctgct gccacctctg tgtattcaaa tcaaactatc
7201 tcaacgagac ttggttctac agctggttct ggaaccagtg tctcgagcct cccgtcaact
7261 gcaaggacca ggagctgggt tgaggatcaa agtaggaatt tgtcaccttt catgaggggg
7321 gcccacaaca tatcatttgt caccccacca tctagcagat cctctagcca aggcacagtc
7381 tcaaccgtgc ctaaagggat tttggactcc tggactggcg ctttcaacac gcgcaggcag
7441 cctctcttcg ctcacatccg taagcgaggg gagtcacggg tgtaatgtga aaagacaaaa
7501 ctgattatct ttctttcttt ttctttagt
//