Typing tool
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Typing tool
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Complete norovirus genomes
| MG002633 | GII.4 Sydney | |
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| GII.P16 |
ORF1: 1..5082
ORF2: 5063..6685
ORF3: 6685..7491
LOCUS MG002633 7538 bp RNA linear VRL 03-NOV-2017
DEFINITION Norovirus GII strain Hu/GII.P16_GII.4_Sydney2012/BNE4/2017/AU
polyprotein gene, partial cds; and major capsid protein and minor
structural protein genes, complete cds.
ACCESSION MG002633
VERSION MG002633.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norovirus norwalkense.
REFERENCE 1 (bases 1 to 7538)
AUTHORS Huang,B., McMahon,J., Hewitson,G. and Warrilow,D.
TITLE Characterization of norovirus strains from cases in Brisbane,
Queensland, Australia
JOURNAL Unpublished
REFERENCE 2 (bases 1 to 7538)
AUTHORS Huang,B., McMahon,J., Hewitson,G. and Warrilow,D.
TITLE Direct Submission
JOURNAL Submitted (26-SEP-2017) Public Health Virology, Forensic and
Scientific Services, 39 Kessels Road, Coopers Plains, Queensland
4108, Australia
COMMENT ##Assembly-Data-START##
Assembly Method :: Geneious v. 8.1
Sequencing Technology :: Illumina
##Assembly-Data-END##
FEATURES Location/Qualifiers
source 1..7538
/organism="Norovirus GII"
/mol_type="genomic RNA"
/strain="Hu/GII.P16_GII.4_Sydney2012/BNE4/2017/AU"
/isolation_source="feces"
/host="Homo sapiens"
/db_xref="taxon:122929"
/geo_loc_name="Australia"
/collection_date="02-Aug-2017"
/note="genotype: GII.P16_GII.4"
CDS <1..5082
/codon_start=1
/product="polyprotein"
/protein_id="ATL14562.1"
/translation="DATVAVACNNNNDKEKSSGEGLFTNMSSTLKKALGARPKQPAPR
DKSQKPPRPPTPELVKRIPPPPPNGEEEEEPIIRYEVKSGISGLPELTTVPQPDVVNT
AFSVPPLSLRENREAKEPLTGAILEMWDGEIYHYGLYVEKGLVLGVHKPPAAISMARV
ELTPLSLYWRVVYTPQYLISPETLRRLNGEAFPYTAFDNNCYAFCCWVLDLNDSWLSR
RMVQRTTGFFRPYQEWNRKPLPTMDDSKIKKVANIFLCSLSTLFTRPIKDLIGKIKPL
NVLNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPEDLAVE
LVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFPKKEE
ANELAMVRAIEDAVLDLEAIENNHMTTLLKDKDSLATYMKTLDMEEEKARRLSTKSAS
PDIVGTINALLARIAAARSLVHRAKEELSSRMRPVVVMISGKPGIGKTHLAREVARKV
ASTLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRIQELADTCPLTL
NCDRIENKGKVFDSEVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEKAKRD
FPGQPDMWKDAFKSDFSHIKLQLAPQGGFDKNGNTPHGKGVMKTLTTGSLIARASGLL
HERMDEFELQGPTITTFNFDRNRITAFRQLAAENKYGLVDTMKVGNQLKGVKTMEELK
QAIRNVTIKRCRIIYGGSTYDLESDGKGKVLVEKVKNTSVQTNNELAGALHHLKHARI
RYYVKCVQEAVYSIIQIAGAAFVTTRIARRMNIQELWSKPQLDQNESETKEEAPKSED
DEFIISSKDIREEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKYSIEE
YLQDRDRYYEELAIAKATEEDFCEEEEIKIRQRIFRPTRKQRKEERTTLGLVTGSEIR
KRNPDDFKPKGRLWADDNRSVDYNEKLDFEAPPSIWSRIVSFGSGWGFWVSPSLFITS
THVIPAGITEAFGVSIKQIQIHKSGEFCRFRFPKPIRPDVTGMILEEGAPEGTVATVL
IKRPTGELMPLAARMGTHATMKIQGRMVGGQMGMLLTGSNAKGMDLGTTPGDCGCPYI
YKRGNDYIVIGVHTAAARGGNTVICATQGSEGEATLEGGDDKGTYCGAPILGPGGAPK
LSTKTKFWRSSNTPLPPGTYEPAYLGGRDPRVKGGPSLQQVMRDQLKPFTEPRGKPPR
PSVLEAAKQTIINVLEQTLDPPQKWTYAQACASLDKTTSSGHPHHVRKNEFWNGETFT
SKLADQASKANLMFEEGKHMTPVYTAALKDELVKTEKIYGKIKKRLLWGSDLSTMIRC
ARSFGGLMDEMKAHCISLPVRVGMNMNEDGPIIFEKHSRYKYHYDADYSRWDSTQQRA
VLAAALEIMVRFSAEPQLAQIVAEDLLAPSVVDVGDFKITINEGLPSGVPCTSQWNSI
AHWLLTLCALSEVTKLSPDIIQANSMFSFYGDDEIVSTDIKLDPEQLTAKLKEYGLKP
TRPDKTEGPLIISEDLNGLTFLRRTVTRDPAGWFGKLDQSSILRQMYWTRGPNHEDPN
ETMIPHSQRPIQLMALLGEASLHGPSFYSKISKLVITELKEGGMDFYVPRQEPMFRWM
RFSDLSTWEGDRNLAPNFVNEDGVE"
CDS 5063..6685
/codon_start=1
/product="major capsid protein"
/protein_id="ATL14563.1"
/translation="MKMASSDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ
QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
FEVQVILAGNAFTAGKIIFAAVPPNFPTEGLSPSQVTMFPHIIVDVRQLEPVLIPLPD
VRNNFYHYNQSNDSTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT
QLSPVNICTFRGDVTHITGSHNYTMNLASQNWNNYDPTEEIPAPLGTPDFVGKIQGML
TQTTRTDGSTRGHKATVYTGSADFAPKLGRVQFETDTNHDFEANQNTKFTPVGVIQDG
STTHRNEPQQWVLPSYSGRNTHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD
CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV
IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRVV"
CDS 6685..7491
/codon_start=1
/product="minor structural protein"
/protein_id="ATL14564.1"
/translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA
SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQEMMRVKQAMLLEGGFSETDAARGAIN
APMTKALDWSGTRYWAPDARTTTYNAGRFSTPQSSGALPGRTNLRDVVPARGPPSKSS
NSSTATSVHSNQTASTRLGSTAGSGTSVSSLPSTARTRSWVEDQSRNLSPFMRGAHNI
SFVTPPSSRSSSQGTVSTVPKEILDSWTGAFNTRRQPLFAHIRRRGESRV"
ORIGIN
1 gacgctaccg ttgccgttgc ttgcaacaac aacaacgaca aggaaaaatc ttcaggtgaa
61 ggcttattca caaatatgtc ttccacctta aagaaagccc tcggggctag gcccaaacag
121 cctgccccga gagacaaatc acaaaagccc ccaagaccac caactcccga gttggtcaag
181 aggatacccc ctcctccacc taatggcgaa gaagaagaag aaccaatcat taggtatgag
241 gttaagagtg ggatctctgg cctgcccgag ctcacaacag tcccccaacc ggacgtggtt
301 aacacagcat tcagcgttcc accactgagc ttgagagaaa acagggaggc caaggaaccg
361 ctaacagggg caatattaga gatgtgggat ggagagatat accactacgg cctgtacgtg
421 gagaaaggct tagtgttggg tgtgcacaaa ccacctgcag ccataagcat ggcaagagta
481 gagctgacgc cgctgtcatt gtactggcgt gtagtgtaca ctccacaata cctcatctcc
541 cctgaaactc tcaggaggct caacggagag gcattccctt acaccgcctt tgacaacaac
601 tgctatgcct tttgctgctg ggtgttagac ctcaatgact catggcttag caggaggatg
661 gtgcaaagaa caacgggctt cttcagacct taccaagagt ggaacagaaa acccctgcct
721 accatggatg actccaaaat caagaaggta gcaaatatat tcctatgttc attgtccaca
781 ttattcacca gacccataaa agacctcata ggaaaaatca aaccattaaa cgtattaaat
841 atcctggcaa cgtgtgactg gacgtttgcc ggaatagtgg agtctctgat attacttgct
901 gaactcttcg gagttttctg gacaccccca gatgtgtctg ctatgatcgc tcccttactc
961 ggggactacg agttgcaagg gccagaagac ctcgccgttg aactcgtgcc tgtggtaatg
1021 ggagggattg gtttggtgtt gggattcacc aaagagaaaa ttggcaaaat gttgtcctca
1081 gcagcatcaa cactcagggc ttgcaaagat cttggtgcct atggcttaga gatactcaaa
1141 ttggtcatga agtggttctt cccgaagaaa gaggaggcca atgagctagc catggtgaga
1201 gccatagagg atgctgtact agatcttgag gcaatagaaa ataaccacat gacaaccctg
1261 ttgaaagaca aagacagctt agcaacatac atgaaaacac tggacatgga ggaggagaaa
1321 gccagaaggt tgtccacaaa atctgcatct cctgacatag ttgggacaat caacgccctg
1381 ctggctcgaa tagcagcggc cagatcatta gtccacaggg ccaaggaaga gctatctagc
1441 aggatgagac cagtagttgt tatgatatct ggcaaaccag gaataggaaa aactcatctg
1501 gccagggagg tggcaagaaa ggtggcatcc actctcacag gggaccaaag agtcggactc
1561 ataccaagaa acggtgtcga ccattgggat gcatacaaag gtgagagagt cgtgctgtgg
1621 gacgactatg gcatgagtaa ccccattcat gatgctcttc gcatacaaga gttggctgat
1681 acgtgtcccc ttaccttaaa ttgtgacaga attgaaaata agggaaaagt ttttgacagt
1741 gaagtcataa taattacaac aaaccttgcc aatccagccc cacttgatta tgtcaacttt
1801 gaggcctgtt ccaggaggat tgatttcctg gtgtacgctg aggcaccaga agtagaaaag
1861 gcaaaacggg actttcctgg tcagccagat atgtggaagg acgccttcaa gtcggacttt
1921 tcacacatca agctacagct tgcaccacag ggcggctttg acaagaatgg caacacccca
1981 catgggaaag gagtgatgaa gaccctcacc accggttctc tgattgcccg tgcatcaggc
2041 ctactgcacg agaggatgga tgaatttgaa ctccaaggtc ccacaatcac caccttcaac
2101 ttcgaccgga atagaatcac agcatttaga caattggctg cagaaaacaa gtatggattg
2161 gtggatacca tgaaagttgg caatcaacta aaaggagtga aaaccatgga agaactcaaa
2221 caagcaatca ggaatgtgac cattaagagg tgccggatca tctacggtgg ttccacgtat
2281 gaccttgaat ctgatggcaa gggcaaagtt ctggtggaaa aggtcaagaa cacctctgta
2341 cagaccaaca acgaattggc cggggccctg caccatctca aacacgcccg aatcaggtac
2401 tatgtcaaat gtgtgcaaga agcagtctat tccatcatac aaattgccgg cgctgcgttt
2461 gtcaccacgc gcattgcacg ccgcatgaac atacaagaac tctggtcgaa gccacaatta
2521 gatcaaaatg aatcagagac taaggaagag gcccccaagt cagaagatga cgagttcatc
2581 atatcttcta aggacatcag ggaagaagga aagaagggca aaaacaaaac tggccgtggc
2641 aagaaacaca ctgcattctc cagcaagggc ttgagcgatg aggagtatga cgagtacaag
2701 agaataagag aagagagaaa tgggaagtac tctatagagg agtatcttca agacagagac
2761 aggtactatg aggagctcgc cattgccaaa gccacggaag aagacttctg tgaagaggag
2821 gagatcaaga tccgtcagag aattttccgt cccaccagga aacaacgaaa ggaagagagg
2881 accacattag ggctagtaac gggttcagaa atcagaaaaa gaaaccctga tgacttcaaa
2941 cccaaaggga ggctgtgggc cgatgacaac agaagtgttg actacaatga gaaactggac
3001 tttgaggccc ctccaagcat atggtctagg attgtgagct ttggttctgg ctggggcttc
3061 tgggtatcac caagcctgtt tataacatca actcatgtaa tccccgcagg cataacagaa
3121 gcatttggag tctccatcaa acaaattcag atccacaaat caggtgaatt ttgccgattc
3181 agattcccaa aaccaattag accagatgtg acaggaatga tcttggaaga aggtgcgcct
3241 gagggcaccg tggcaactgt gctcatcaaa cgccccaccg gagagctcat gcctcttgca
3301 gctagaatgg gaactcacgc aaccatgaaa attcaaggcc gcatggttgg cggacagatg
3361 ggtatgttgc tcactggatc aaatgctaaa ggaatggatt taggaacaac tcctggtgac
3421 tgtggctgtc cttacatcta taaaaggggc aatgactaca tagtcattgg ggtgcacact
3481 gcagcagccc gtggtggaaa caccgtcatc tgcgccacac agggaagtga gggtgaggca
3541 actcttgaag gtggagatga caaaggaaca tactgtgggg cacccattct aggccctggg
3601 ggtgcaccaa aattgagcac caaaaccaaa ttttggaggt catcgaacac gccccttcca
3661 ccagggacat atgagcctgc ctacctcggt ggccgtgatc cgcgtgttaa gggtgggccc
3721 tccttgcagc aggtaatgag agatcagtta aagccattca ctgaacccag gggcaaacct
3781 ccaagaccaa gtgtattgga ggcagccaaa caaaccatca tcaatgtcct cgaacaaacc
3841 ctggaccctc cacaaaaatg gacatacgca caggcgtgtg cctcacttga caaaaccact
3901 tccagcgggc atccccatca cgtccgaaag aatgaattct ggaatggtga gacctttact
3961 agtaaattgg cagaccaagc atcaaaagca aacctaatgt ttgaggaagg gaaacacatg
4021 acaccagtgt atacagcagc actcaaggac gagctagtca agactgagaa aatctatgga
4081 aagatcaaga agagactgct ctggggctct gacttgtcca ccatgatccg gtgcgctagg
4141 tcatttggtg ggctcatgga cgagatgaag gcacactgca tatcactccc agtccgagtc
4201 ggcatgaata tgaatgaaga tggcccaata atatttgaga aacattccag atacaaatat
4261 cactatgatg cagactactc tcgttgggat tcaacacaac agagggcagt actagcagca
4321 gccttggaaa tcatggtcag attctctgca gaaccacaat tggcacaaat agtcgctgag
4381 gatctgctag cccccagcgt agtagatgtg ggagacttta aaataacaat aaatgaaggg
4441 ctcccctctg gtgtgccatg tacttctcaa tggaactcca tcgcacattg gctgctaact
4501 ctatgtgcct tgtctgaagt caccaaactg tcccctgaca ttatacaggc aaattccatg
4561 ttctcatttt acggtgatga cgagattgtc agcaccgaca taaaactgga ccctgaacag
4621 ctaactgcta aattgaagga gtacggcctg aaaccaaccc gcccagacaa aaccgaggga
4681 cccctgatca tcagtgaaga tttgaacgga ctcactttcc tccggaggac ggtgactcgt
4741 gacccagctg gctggtttgg aaaactggac caaagctcaa ttttgaggca gatgtactgg
4801 actagaggac caaatcatga agaccccaat gagacgatga taccccattc tcaaagaccc
4861 atacagctca tggcactgct tggtgaagcc tctcttcacg gaccctcttt ttacagtaaa
4921 atcagcaaat tggtcataac tgagctcaaa gaaggtggga tggactttta cgtgccaagg
4981 caggaaccca tgttcaggtg gatgaggttt tctgacttga gcacgtggga gggcgatcgc
5041 aatctggctc ccaattttgt gaatgaagat ggcgtcgagt gacgccaacc catctgatgg
5101 gtccgcagcc aacctcgtac cagaggtcaa caatgaggtt atggctttgg agcccgttgt
5161 tggtgccgct attgcggcac ctgtagcggg ccaacaaaat gtaattgacc cctggattag
5221 aaataatttt gtacaagccc ctggtggaga gtttacagtg tcccctagaa acgctccagg
5281 tgaaatacta tggagcgcgc ccctaggccc tgacctaaat ccctacctat cccatttggc
5341 cagaatgtac aatggttatg caggtggttt tgaagtgcag gtaatcctcg cggggaacgc
5401 gttcaccgcc gggaagatca tatttgcagc agtcccacca aattttccaa ctgaaggctt
5461 aagtcctagc caggtcacta tgttccccca tataatagta gatgttagac aattagaacc
5521 tgtgctgatt cccttacccg atgttaggaa taatttctat cactataatc aatcaaatga
5581 ctccactatt aagttgatag caatgttgta tacaccactt agggctaaca atgctgggga
5641 cgatgtcttc acagtttcgt gccgagttct cacgagacca tcccccgact ttgatttcat
5701 attcttagtg ccacccacag ttgagtcaag aactaaacca ttctctgtcc cagtcttaac
5761 tgttgaggag atgaccaatt caagatttcc cattcctttg gaaaagttgt tcacgggccc
5821 cagcagtgcc tttgttgttc aaccacaaaa cggaaggtgc acaactgatg gcgtgcttct
5881 aggcaccaca caactgtctc ctgtcaacat ctgcaccttc agaggggatg tcactcacat
5941 cacaggtagt cacaactaca cgatgaattt ggcttcccaa aattggaaca attatgaccc
6001 aacagaagaa atcccagccc ctctaggaac tccagatttt gtggggaaga ttcaaggcat
6061 gctcacccaa accacaagga cagatggttc aacgcgcggc cacaaagcta cagtgtacac
6121 tgggagcgcc gactttgctc caaaactggg tagagttcaa tttgaaactg acacaaacca
6181 tgattttgaa gccaaccaaa acacaaagtt caccccagtc ggtgtcatcc aagatggtag
6241 caccacccac cgaaatgaac cccaacagtg ggtgctccca agttactcag gcagaaacac
6301 ccataatgta catctggccc ccgctgtagc tcccactttt ccgggtgaac aacttctctt
6361 ctttagatct accatgcccg gatgcagcgg gtaccccaac atggatttgg actgtctgct
6421 cccccaggaa tgggtgcagt acttctacca agaggcagcc ccagcacaat ctgatgtggc
6481 tctgctaaga tttgtgaatc cagacacagg tagagttttg tttgaatgta agcttcacaa
6541 atcaggctat gttacagtgg ctcacactgg ccaacatgat ttggttatcc cccccaatgg
6601 ttactttaga tttgattcct gggtcaacca gttctacaca cttgccccca tgggaaatgg
6661 aacggggcgt agacgtgtag tataatggct ggagctttct ttgctggatt ggcatctgat
6721 gtcctcggct ctggacttgg ttcccttatc aatgctgggg ctggggctat taatcaaaaa
6781 gttgagtttg aaaacaacag aaaattgcaa caagcatcct ttcaatttag tagcaatctg
6841 caacaggctt cctttcaaca tgacaaagag atgctccaag cacaaattga ggccaccaaa
6901 aagttacaac aggaaatgat gagggttaag caggcaatgc tcctagaggg tgggttctct
6961 gagacagatg cagcccgcgg ggcaattaac gcccccatga caaaagctct agactggagc
7021 gggacaaggt actgggctcc cgatgctagg actacaacat acaatgcagg ccgcttttcc
7081 acccctcaat catcgggggc actgccagga agaactaatc ttagggatgt tgttcccgct
7141 cggggacccc ccagtaaatc ttctaattct tctactgcca cctctgtgca ctcaaatcaa
7201 actgcttcaa cgagacttgg ttctacagct ggttctggaa ccagtgtttc gagcctcccg
7261 tcgactgcaa ggactaggag ctgggttgag gaccaaagta ggaatttgtc acctttcatg
7321 aggggggccc acaacatatc atttgtcacc ccaccatcta gtaggtcctc tagccaaggc
7381 acagtctcaa ccgtgcctaa agagattttg gactcctgga ctggcgcttt caacacgcgc
7441 aggcagcctc tcttcgctca cattcgtagg cgaggggagt cacgggtgta atgtgaaaag
7501 acaaaattga ttatctttct ttttattttt ctttagtg
//