Typing tool
|
|
|
|
|
|
Typing tool
|
Complete norovirus genomes
| MG002634 | GII.4 Sydney | |
|
|---|---|---|---|
| GII.P4 New Orleans |
ORF1: 6..5099
ORF2: 5080..6702
ORF3: 6702..7508
LOCUS MG002634 7555 bp RNA linear VRL 03-NOV-2017
DEFINITION Norovirus GII strain
Hu/GII.P4_New_Orleans2009_GII.4_Sydney2012/BNE5/2017/AU
polyprotein, major capsid protein, and minor structural protein
genes, complete cds.
ACCESSION MG002634
VERSION MG002634.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norovirus norwalkense.
REFERENCE 1 (bases 1 to 7555)
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JOURNAL Unpublished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 7555)
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..7555
/organism="Norovirus GII"
/mol_type="genomic RNA"
/strain="Hu/GII.P4_New_Orleans2009_GII.4_Sydney2012/BNE5/2
017/AU"
/isolation_source="feces"
/host="Homo sapiens"
/db_xref="taxon:122929"
/geo_loc_name="Australia"
/collection_date="08-Aug-2017"
/note="genotype: GII.P16_GII.4"
CDS 6..5099
/codon_start=1
/product="polyprotein"
/protein_id="ATL14565.1"
/translation="MASNDASAAAVANSNNDTAKSSSDGVLSSMAVTFKRALGARPKQ
PPPREKPQRPPRPPTPELVKDIPPPPPNGEDEIVVSYSVKNGVSGLPDLSTVRQPEES
NTAFSVPPLNQRENRDAKEPLTGTILEMWDGEIYHYGLYVERGLVLGVHKPPAAISLA
KVELAPLSLYWRPVYTPQYLISPDTLKKLSGETFPYTAFDNNCYAFCCWVLDLNDSWL
SRRMIQRTTGFFRPYQDWNRKPLPTMDDSKIKKVANIFLCALSSLFTRPIKDIIGKIR
PLNILNILASCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPEDLA
VELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFPKK
EEANELAIVRSIEDAVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARKLSTKS
ASPDIVGTINALLARIAAARSLVHRAKEELSSRPRPVVLMISGRPGIGKTHLAREVAK
RIAASLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTCPL
TLNCDRIENKGKVFDSDVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEKAK
RDFPGQPDMWKNAFSSDFSHIKLALAPQGGFDKNGNTPHGKGVMKTLTTGSLIARASG
LLHERLDEFELQGPALTTFNFDRNKVLAFRQLAAENKYGLMDTMRVGKQLKDVRTMPE
LKQALKNVSIKKCQIVYSGCTYMLESDGKGNVKVDRIQSAAVQTNNELAGALHHLRCA
RIRYYVKCVQEALYSIIQIAGAAFVTTRIAKRMNIQDLWSKPQVENTEETTSKDGCPK
PKDDEEFVISSDDIKTEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKY
SIEEYLQDRDKYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERVSLGLVTG
SEIRKRNPDDFKPKGKLWADDDRSVDYNEKLSFEAPPSIWSRIVNFGSGWGFWVSPSL
FITSTHVIPQGAKEFFGVPIKQIQVHKSGEFCRLRFPKPIRTDVTGMVLEEGAPEGTV
VTLLIKRPTGELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGDCG
CPYIYKRGNDYVVIGVHTAAARGGNTVICATQGSEGEATLEGGDNKGTYCGAPILGPG
SAPTLSTKTKFWRSSTAPLPPGTYEPAYLGGKDPRVKGGPSLQQVMREQLKPFTEPRG
KPPKPSVLEAAKKTIINVLEQTIDPPEKWSFAQACASLDKTTSSGHPHHMRKNDCWNG
ESFTGKLADQASKANLMFEEGKNMTPVYTAALKDELVKTDKIYGKIKKRLLWGSDLAT
MIRCARAFGGLMDELKAHCVTLPIRVGMNMNEDGPIIFERHSRYTYHYDADYSRWDST
QQRAVLAAALEIMVKFSPEPHLAQVVAEDLLSPSVVDVGDFTISINEGLPSGVPCTSQ
WNSIAHWLLTLCALSEVTNLSPDTIQANSLFSFYGDDEIVSTDIKLDPEKLTAKLREY
GLKPTRPDKTEGPLAISEDLNGLTFLRRTVTRDPAGWFGKLEQSSILRQMYWTRGPNH
GDPSETMIPHSQRPIQLMSLLGEAALHGPAFYSKISKLVIAELKEGGMDFYVPRQEPM
FRWMRFSDLSTWEGDRNLAPSFVNEDGVE"
CDS 5080..6702
/codon_start=1
/product="major capsid protein"
/protein_id="ATL14566.1"
/translation="MKMASSDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ
QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
FEVQVILAGNAFTAGKVIFAAVPPNFPTEGLSPSQVTMFPHIVVDVRQLEPVLIPLPD
VRNNFYHYNQSNDPTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFSIPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT
QLSPVNICTFRGDVTHITGSHNYTMNLASQNWNNYDPTEEIPAPLGTPDFVGKIQGML
TQTTRADGSTRGHKATVYTGSADFAPKLGRVQFETDTSNDFEASQNTKFTPVGVIQDG
STTHRNEPQQWVLPSYSGRNTHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD
CLLPQEWVQHFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKAGYVTVAHTGQHDLV
IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRVV"
CDS 6702..7508
/codon_start=1
/product="minor structural protein"
/protein_id="ATL14567.1"
/translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA
SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQEMMKVKQAMLLEGGFSETDAARGAIN
APMTKVLDWSGTRYWAPDARITTYNAGRFSTPQSPGALPGRANLRDAVPARGSSSKSS
NSSTATSVYSNQTTSTRLGSTAGSGTSVSSLPSTARTRSWVEDQSRNLSPFMRGAHNI
SFVTPPPSRSSSQGTVSTVPKEILDSWTGAFNTRRQPLFAHIRKRGESRV"
ORIGIN
1 tgaagatggc gtctaacgac gcttccgctg ccgctgttgc caacagcaac aacgacaccg
61 caaaatcttc aagtgacgga gtgctttcta gcatggctgt cacttttaaa cgagccctcg
121 gggcgcggcc caaacagcct cccccgaggg aaaaaccaca aagaccccca cgaccaccca
181 ctccagaact ggttaaggat atcccccctc ccccacccaa cggggaggat gaaatagtgg
241 tctcttatag tgtcaaaaat ggtgtttccg gcttgcctga cctttctacc gtcaggcaac
301 cggaagaatc caacacggct ttcagtgtcc ctccactcaa tcagagggag aatagagatg
361 ctaaggagcc actcactgga acaattttgg aaatgtggga cggggaaatc taccattatg
421 gcctgtatgt ggaacgaggt cttgtgctag gtgtgcacaa accgccagct gccatcagcc
481 ttgctaaggt tgagctggca ccactctcct tgtactggag acctgtgtac actcctcagt
541 acctcatctc tccagacact ctcaagaaat tgtccggaga gacgttcccc tacacagcct
601 ttgataataa ctgctatgcc ttttgttgct gggttctgga cctaaatgac tcgtggctga
661 gtagaagaat gatccagaga acaactggtt tctttaggcc ctatcaggac tggaatagga
721 aaccccttcc tactatggat gactccaaaa taaagaaggt agctaacata tttctgtgtg
781 ccctgtcctc gctattcacc agacccataa aagatataat agggaagata aggcctctta
841 acatcctcaa catcttggcc tcatgtgact ggacctttgc gggtatagtg gagtccctga
901 tactcttggc agaactcttt ggagttttct ggacaccccc agatgtgtct gcgatgattg
961 cccccttact tggtgactat gagctacaag gacctgagga ccttgcagta gagctcgtcc
1021 ccgtggtgat ggggggaatt ggtttggtgc taggattcac caaagagaaa attggaaaaa
1081 tgttgtcatc tgctgcgtcc actttgagag cttgcaaaga ccttggtgca tatgggctag
1141 agatcctaaa gttagtcatg aagtggttct tcccaaagaa ggaggaggca aatgaactgg
1201 ctatagtgag gtccatcgag gacgcagtcc tggatctcga ggcaattgaa aacaatcata
1261 tgaccacctt gcttaaagat aaagacagtc tggcaaccta catgagaaca cttgaccttg
1321 aagaggagaa agccagaaaa ctctcaacca agtctgcctc acccgacatc gtgggtacaa
1381 tcaacgccct cctggcgaga atcgctgccg cacgctctct ggtgcatcga gcgaaagagg
1441 agctttccag cagaccaaga cctgtggtgt tgatgatatc tggcaggcca ggaataggga
1501 agacccacct tgctagggaa gtggctaaga gaatcgcagc ctcccttaca ggagatcagc
1561 gtgtgggcct catcccacgc aatggtgtcg accattggga tgcgtacaag ggggagaggg
1621 tcgtcctgtg ggacgattat ggaatgagca accctattca cgatgccctc aggctgcaag
1681 aactcgctga cacttgtccc ctcactctga actgtgacag gattgaaaat aaaggaaagg
1741 tctttgacag cgatgtcatc atcatcacca ctaatctggc caacccagca ccactggact
1801 atgtcaactt tgaagcatgc tcgaggcgca ttgacttcct cgtgtatgca gaagcccctg
1861 aagttgaaaa ggcgaagcgt gacttcccag gccagcctga catgtggaag aacgctttca
1921 gttctgattt ctcacacata aaactagcac tggccccaca gggtggtttc gataagaacg
1981 ggaacacccc acacggaaag ggcgtcatga agaccctcac cactggctcc cttattgccc
2041 gagcatcagg gctgctccat gagaggctgg atgaatttga gctgcagggc ccagctctca
2101 ccaccttcaa cttcgatcgc aataaagtgc ttgcctttag acagcttgct gctgaaaaca
2161 aatatggatt gatggacaca atgagggttg ggaaacagct caaggatgtc agaaccatgc
2221 cagaactcaa acaggcactc aaaaatgtct caatcaagaa gtgccaaata gtgtatagtg
2281 gttgcactta catgcttgag tctgatggca agggcaatgt gaaggttgac agaatccaaa
2341 gcgccgccgt gcagaccaac aatgagctgg ctggtgccct gcaccacttg aggtgcgcca
2401 gaatcagata ctatgtcaag tgtgtccagg aagccctgta ttccatcatc caaatcgctg
2461 gggctgcatt tgtcaccacg cgcattgcca agcgcatgaa tatacaagac ctatggtcca
2521 agccacaagt ggaaaacaca gaggagacta ccagcaagga cgggtgccca aagcctaagg
2581 atgatgagga gttcgtcatt tcatccgacg acatcaaaac tgagggcaag aaagggaaga
2641 acaagactgg ccgtggcaag aagcacacag cattttcaag caaaggcctc agtgatgaag
2701 agtatgatga atacaagagg attagagaag agaggaatgg caagtactct atagaagagt
2761 accttcagga cagggacaaa tactatgagg aggtggctat tgccagggcg actgaggaag
2821 acttctgtga agaggaggag gccaagatcc ggcaaaggat ctttaggcca acaaggaaac
2881 aacgcaagga ggaaagagtc tctcttggtc tggtcacagg ctctgaaatt aggaaaagaa
2941 acccagatga cttcaaaccc aaggggaaat tgtgggctga cgatgacagg agtgtggact
3001 acaatgagaa actcagcttt gaggccccac caagcatttg gtcgagaata gtcaactttg
3061 gttcaggctg gggattctgg gtctctccca gtttgttcat aacatcaacc catgtcatac
3121 cccagggcgc aaaggagttc tttggagtcc ccatcaaaca aatacaggta cacaagtcag
3181 gcgagttctg tcgcttgaga tttcctaaac caatcaggac tgatgtaacg ggcatggtct
3241 tggaagaagg cgcacctgag ggcaccgtgg tcacactact catcaaaagg cccactgggg
3301 aactcatgcc cctagcagct aggatgggga cccatgcgac catgaagatc caagggcgca
3361 ctgttggagg ccagatgggc atgcttctga caggatccaa cgccaagagc atggacctgg
3421 gtactacacc aggtgattgt ggctgcccct acatctacaa gagaggcaat gactatgtgg
3481 tcattggagt ccacacggct gccgcacgtg ggggaaacac tgtcatatgt gccacccaag
3541 ggagtgaagg ggaggctaca cttgagggtg gtgacaacaa ggggacatac tgtggtgcac
3601 caatcctggg tccagggagc gccccaacac ttagcaccaa gaccaaattc tggagatcgt
3661 ccacagcacc acttccacct ggcacctatg aaccagccta tcttggtggc aaggacccta
3721 gagtcaaggg tggcccttca ctgcagcaag tcatgaggga acagttgaag ccattcacag
3781 agcccagggg caagccacca aaaccaagtg tgttagaagc tgccaagaag accatcatta
3841 atgtccttga acaaacaatt gacccacctg agaaatggtc gttcgcacaa gcttgcgcgt
3901 cccttgacaa gaccacttcc agtggccatc cgcaccatat gcggaaaaac gactgctgga
3961 acggggaatc ctttacgggc aagctggcag accaagcttc caaggccaac ctgatgtttg
4021 aagaagggaa gaacatgacc ccagtctaca cagctgcgct caaggatgag ttagttaaaa
4081 ctgacaaaat ttatggtaag atcaagaaga ggcttctctg gggctcggat ttggcaacca
4141 tgattcggtg tgctcgagca ttcggaggcc taatggatga actcaaagcg cactgtgtca
4201 cactccccat tagagttggc atgaatatga atgaggatgg ccccatcatc ttcgagaggc
4261 attccaggta cacgtaccac tatgatgctg actactctcg gtgggattca acacaacaga
4321 gagccgtgtt ggcagcagct ctagaaatca tggttaaatt ctccccagaa ccacatttgg
4381 ctcaggtggt cgcggaagac cttctttccc ccagcgtggt ggacgtgggc gatttcacaa
4441 tatcaatcaa tgagggtctt ccctctgggg tgccctgcac ctcccaatgg aactccattg
4501 cccactggct cctcaccctc tgtgcgctct ctgaagtcac aaacctgtcc cctgatacca
4561 tacaggctaa ttccctcttc tctttttatg gtgatgatga aattgttagc acagacataa
4621 aattggaccc agagaaattg acagcaaaac tcagagagta tgggttaaaa ccaacccgcc
4681 ctgacaaaac tgaaggaccc cttgccatct ccgaagacct gaatggtctg actttcctgc
4741 ggagaactgt aacccgcgac ccagctggtt ggtttggaaa actggagcag agttcaatac
4801 tcaggcaaat gtactggact aggggtccca accatggaga cccatctgaa acaatgattc
4861 cacactccca aagacccata cagttgatgt ccctactggg ggaggccgct ctccacggcc
4921 cagcatttta cagcaaaatt agcaaattgg tcattgcaga gctaaaagaa ggtggcatgg
4981 atttttacgt gcccagacaa gagccaatgt tcagatggat gagattctca gatctgagca
5041 cgtgggaggg cgatcgcaat ctggctccca gttttgtgaa tgaagatggc gtcgagtgac
5101 gccaacccat ctgatgggtc cgcagccaac ctcgtcccag aggtcaacaa tgaggttatg
5161 gctctggagc ccgttgttgg tgccgctatt gcggcacctg tagcgggcca acaaaatgta
5221 attgacccct ggattaggaa taattttgta caagcccctg gtggagagtt tacagtatcc
5281 cctagaaacg ctccaggtga aatactatgg agtgcaccct taggccctga tctaaatccc
5341 tacctatccc atttggccag aatgtacaat ggttatgcag gtggttttga agtgcaggta
5401 attctcgcgg ggaacgcgtt caccgccggg aaggtcatat ttgcagcagt cccaccaaat
5461 ttcccaactg aaggcttaag ccccagccag gtcactatgt tcccccacat agtagtagat
5521 gttaggcaac tagaacctgt gttgattccc ttacccgatg ttaggaacaa tttctaccat
5581 tataaccaat caaatgaccc caccattaag ttgatagcaa tgttgtatac accacttagg
5641 gctaataatg ctggggacga tgtcttcaca gtttcttgcc gagttctcac aagaccatcc
5701 cccgattttg atttcatatt tttagtacca cccacagttg agtcaagaac taaaccattc
5761 tctatcccag ttttaacagt tgaggagatg accaattcaa gattccccat tcctttggaa
5821 aagttgttca cgggtcccag cagcgccttt gttgttcaac cacaaaacgg cagatgcacg
5881 actgatggcg tgctcctagg caccacccaa ctgtctcctg taaacatctg caccttcaga
5941 ggggacgtca cccacatcac aggcagtcac aactacacaa tgaatttggc ttctcaaaat
6001 tggaacaatt acgatccaac agaagaaatc ccagcccctc taggaacccc agactttgtg
6061 gggaagattc aaggtatgct cacccaaacc acaagggcag atggctcaac acgcggccac
6121 aaggctacag tgtacactgg gagcgccgac tttgctccta aactgggtag agttcaattt
6181 gaaactgaca caagcaatga ttttgaagct agccaaaaca caaagttcac cccagtcggt
6241 gtcatccaag acggtagcac cacccaccga aatgaacccc aacagtgggt gctcccaagt
6301 tactcaggca gaaatactca taatgtgcat ctggcccccg ctgtggcccc cactttcccg
6361 ggtgagcaac ttctcttctt cagatccacc atgcccggat gcagcgggta ccctaacatg
6421 gatttggact gtctactccc tcaggaatgg gtgcagcact tctaccaaga ggcagcccca
6481 gcacaatctg atgtggctct gctaagattt gtaaatccag acacaggtag ggttttgttt
6541 gagtgcaagc tccataaagc aggctatgtc acagtggctc acactggcca acacgatttg
6601 gtcatccccc ccaatggtta ttttaggttt gattcttggg tcaaccagtt ctacacgctt
6661 gcccccatgg gaaatggaac ggggcgtaga cgtgtagtat aatggctgga gctttctttg
6721 ctggattggc atctgatgtc cttggctctg gacttggttc ccttatcaat gctggggctg
6781 gggccatcaa ccaaaaagtt gagtttgaaa acaacagaaa attgcaacaa gcatcattcc
6841 aatttagcag caatctgcaa caggcttcct ttcaacatga taaagagatg ctccaagcac
6901 aaattgaggc taccaaaaag ctacaacagg aaatgatgaa agttaagcag gcaatgctcc
6961 tagagggtgg attctctgag acagatgcag cccgcggggc aattaacgcc cccatgacaa
7021 aagttttgga ctggagcggg accaggtact gggctcccga tgctagaatt acaacataca
7081 atgcaggccg cttttccacc cctcaatcac caggggcact gccaggaaga gctaatctta
7141 gggatgctgt ccctgctcgg ggttcctcca gcaaatcatc taactcttct actgctactt
7201 ctgtgtattc aaatcaaact acttcaacga gacttggttc tacagctggt tctggtacca
7261 gtgtctcgag tctcccgtca actgcaagga ctaggagctg ggttgaggat caaagcagga
7321 atttgtcacc tttcatgagg ggggcccaca acatatcgtt tgtcacccca ccacctagca
7381 gatcctctag ccaaggcaca gtctcaaccg tgcctaaaga gattttggac tcctggactg
7441 gcgctttcaa cacgcgcagg cagcctctct tcgctcacat tcgtaaacgg ggggagtcac
7501 gggtgtaatg tgaaaagaca aaattgatta tctttctttt tctttagtgt ctttt
//