Typing tool
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Typing tool
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Complete norovirus genomes
| MW284781 | GII.4 Sydney | |
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| GII.P4 New Orleans |
ORF1: 1..5090
ORF2: 5071..6693
ORF3: 6693..7494
LOCUS MW284781 7494 bp RNA linear VRL 28-NOV-2020
DEFINITION Norovirus GII isolate P1D6 nonstructural polyprotein (ORF1) gene,
partial cds; VP1 (ORF2) gene, complete cds; and VP2 (ORF3) gene,
partial cds.
ACCESSION MW284781
VERSION MW284781.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7494)
AUTHORS Kelly,D., Jere,K.C., Darby,A.C., Allen,D.J. and Iturriza-Gomara,M.
TITLE Magnetic bead enrichment and complete genome characterisation of
human norovirus populations: A longitudinal comparison of acute and
chronic infection
JOURNAL Unpublished
REFERENCE 2 (bases 1 to 7494)
AUTHORS Kelly,D., Jere,K.C., Darby,A.C., Allen,D.J. and Iturriza-Gomara,M.
TITLE Direct Submission
JOURNAL Submitted (21-NOV-2020) Institute of Infection, Veterinary and
Ecological Sciences., University of Liverpool, 8 West Derby Street,
Liverpool, Merseyside L69 7BE, United Kingdom
COMMENT ##Assembly-Data-START##
Assembly Method :: SPAdes v. 3.5.0
Sequencing Technology :: Illumina
##Assembly-Data-END##
FEATURES Location/Qualifiers
source 1..7494
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="P1D6"
/isolation_source="stool sample"
/host="Homo sapiens"
/db_xref="taxon:122929"
/country="United Kingdom: Liverpool"
/collection_date="Dec-2013"
/note="genotype: GII.P4/GII.4"
gene <1..5090
/gene="ORF1"
CDS <1..5090
/gene="ORF1"
/codon_start=3
/product="nonstructural polyprotein"
/protein_id="QPG52053.1"
/translation="PNDASAAAVANSNNDTAKSSSDGVLSSMAVTFKRALGARPKQPP
PREKPQRPPRPPTPELVKNIPPPPPNGEDEIVVSYSVKDGVSGLPDLSTVRQPEESNT
AFSVPPLNQRENRDAKEPLTGTILEMWDGEIYHYGLYVERGLVLGVHKPPAAISLAKV
ELAPLSLYWRPVYTPQYLISPDTLKKLSGETFPYTAFDNNCYAFCCWVLDLNDSWLSR
RMIQRTTGFFRPYQDWNRKPLPTMDDSKIKKVANIFLCALSSLFTRPIKDIIGKIRPL
NILNILASCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPEDLAVE
LVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFPKKEE
ANELAIVRSIEDAVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARKLSTKSAS
PDIVGTINALLARIAAARSLVHRAKEELSSRPRPVVLMISGRPGIGKTHLAREVAKRI
AASLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTCPLTL
NCDRIENKGKVFDSDVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPDVEKAKRD
FPGQPDMWKNAFSSDFSHIKLALAPQGGFDKNGNTPHGKGVMKTLTTGSLIARASGLL
HERLDEFELQGPALTTFNFDRNKVLAFRQLAAENKYGLMDTMRVGKQLKDVKTMPELK
QALKNVSIKKCQIVYSGCTYMLESDGKGNVKVDRIQSAAVQTNNELAGALHHLRCARI
RYYVKCVQEALYSIIQIAGAAFVTTRIAKRMNIQDLWSKPQVENTEETTSKDGCPKPK
DDEEFVISSDDIKTEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKYSI
EEYLQDRDKYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERVSLGLVTGSE
IRKRNPDDFKPKGKLWADDDRSVDYNEKLSFEAPPSIWSRIVNFGSGWGFWVSPSLFI
TSTHVIPQGAKEFFGVPIKQIQVHKSGEFCRLRFPKPIRTDVTGMILEEGAPEGTVVT
LLIKRSTGELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGDCGCP
YIYKRGNDYVVIGVHTAAARGGNTVICATQGSEGEATLEGGDNKGTYCGAPILGPGSA
PTLSTKTKFWRSSTASLPPGTYEPAYLGGKDPRVKGGPSLQQVMREQLKPFTEPRGKP
PKPSVLEAAKKTIINVLEQTIDPPEKWSFAQACASLDKTTSSGHPHHMRKNDCWNGES
FTGKLADQASKANLMFEEGKNMTPVYTAALKDELVKTDKIYGKIKKRLLWGSDLATMI
RCARAFGGLMDELKAHCVTLPIRVGMNMNEDGPIIFERHSRYTYHYDADYSRWDSTQQ
RAVLAAALEIMVKFSPEPHLAQVVAEDLLSPSVVDVGDFTISINEGLPSGVPCTSQWN
SIAHWLLTLCALSEVTNLSPDTIQANSLFSFYGDDEIVSTDIKLDPEKLTAKLREYGL
RPTRPDKTEGPLVISEDLNGLTFLRRTVTRDPAGWFGKLEQSSILRQMYWTRGPNHGD
PSETMIPHSQRPIQLMSLLGEAALHGPAFYSKISKLVIAELKEGGMDFYVPRQEPMFR
WMRFSDLSTWEGDRNLAPSFVNEDGVE"
mat_peptide <1..980
/gene="ORF1"
/product="p48"
mat_peptide 981..2078
/gene="ORF1"
/product="NTPase"
mat_peptide 2079..2615
/gene="ORF1"
/product="p22"
mat_peptide 2616..3014
/gene="ORF1"
/product="VPg"
mat_peptide 3015..3557
/gene="ORF1"
/product="Pro"
mat_peptide 3558..5087
/gene="ORF1"
/product="RdRp"
gene 5071..6693
/gene="ORF2"
CDS 5071..6693
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="QPG52054.1"
/translation="MKMASSDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ
QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
FEVQVILAGNAFTAGKVIFAAVPPNFPTEGLSPSQVTMFPHIVVDVRQLEPVLIPLPD
VRNNFYHYNQSNDPTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT
QLSPVNICTFRGDVTHITGSRNYTMNLASQNWNNYDPTEEIPAPLGAPDFVGKIQGML
TQTTRADGSTRGHKATVYTGSADFAPKLGRVQFETDTDHDFEANQNTKFTPVGVIQDG
STTHRNEPQQWVLPSYSGRNTHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD
CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV
IPPNGYFRFDSWVNQFYTLAPMGNGAGRRRVV"
gene 6693..>7494
/gene="ORF3"
CDS 6693..>7494
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="QPG52055.1"
/translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA
SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQEMMKVKQAMLLEGGFSETDAARGAIN
APMTKALDWSGTRYWAPDARTTTHNAGRFSTPQPSGALPGRANLRDAVPARGSSSKSS
NSSIVTSVYSNQTTSTRLGSTAGSGTSVSSLPSTARTRSWVEDQSRNLSPFMRGAHNI
SFVTPPSSRSSSQGTVSTVPKEVLDSWTGAFNTRRQPLFAYIRNRGESR"
ORIGIN
1 tacctaacga cgcttccgct gccgctgttg ctaacagcaa caacgacacc gcaaaatctt
61 caagtgacgg agtgctttct agcatggctg tcacttttaa acgagccctc ggggcgcggc
121 ctaaacagcc tcccccgagg gaaaaaccac aaagaccccc acgaccacct actccagaac
181 tggttaaaaa tattccccct cccccaccca acggagagga tgaaatagtg gtttcttata
241 gtgtcaaaga tggtgtttcc ggcttgcctg acctttccac cgtcaggcaa ccggaagaat
301 ccaacacggc cttcagtgtc cctccactca atcagaggga gaatagagat gctaaggaac
361 cactcactgg aacaattctg gaaatgtggg acggggaaat ctaccattat ggcctgtatg
421 tggagcgagg tcttgtacta ggcgtgcaca aaccgccagc tgccatcagc ctcgctaagg
481 ttgagctagc accactctcc ttgtactgga gacctgtgta cactcctcag tacctcatct
541 ctccagacac tctcaagaaa ttgtccggag aaacgttccc ctacacagcc tttgacaaca
601 actgctatgc cttttgttgc tgggtcctgg acctaaatga ctcgtggctg agcaggagaa
661 tgatccagag aacaactggt ttcttcaggc cctaccaaga ctggaatagg aaaccccttc
721 ccaccatgga tgactccaaa ataaagaagg tagctaacat attcctgtgt gctctgtcct
781 cgctattcac cagacccata aaagatataa tagggaagat aaggcccctt aacatcctca
841 acatcttagc ctcatgtgat tggacctttg cgggcatagt ggagtccctg atactcttgg
901 cagaactctt tggagttttc tggacacccc cagatgtgtc tgcgatgatt gcccccttac
961 ttggtgacta cgagctacaa ggacctgagg accttgcagt ggaactcgtc cccgtggtga
1021 tggggggaat tggtttggtg ctaggattca ccaaagagaa gattgggaaa atgttgtcat
1081 ctgctgcgtc caccttgaga gcttgcaaag accttggtgc atatgggcta gagatcctaa
1141 agttagtcat gaagtggttc ttcccgaaga aggaggaggc aaatgagctg gctatagtga
1201 ggtccatcga ggatgcagtc ctggatctcg aggcaattga aaacaatcat atgaccacct
1261 tgcttaaaga taaagacagt ctggcaacct acatgagaac acttgacctt gaagaggaga
1321 aagccaggaa actctcaacc aagtctgcct cacccgacat cgtgggcaca atcaacgccc
1381 tcctggcgag aatcgctgcc gcacgttctc tggtgcatcg agcgaaggag gagctttcca
1441 gcagaccaag acctgtggtg ttgatgatat caggcaggcc aggaataggg aagacccacc
1501 tcgctaggga agtggctaag agaatcgcag cctccctcac aggagaccaa cgtgttggcc
1561 tcatcccacg caatggcgtc gatcattggg atgcgtacaa gggggagagg gtcgtcctat
1621 gggacgatta tggaatgagc aaccctattc acgatgccct caggctgcaa gaactcgctg
1681 acacttgccc cctcactctg aactgtgaca ggattgaaaa taaaggaaag gtctttgaca
1741 gcgatgtcat cattatcacc actaatctgg ccaatccagc accactggac tatgtcaact
1801 ttgaagcatg ctcgagacgc attgacttcc tcgtgtatgc agaagcccct gatgtcgaaa
1861 aggcgaagcg tgacttccca ggccagcctg acatgtggaa gaacgctttc agttctgatt
1921 tctcacacat aaaactagca ctggccccac agggtggttt cgacaagaac gggaacaccc
1981 cacacggaaa gggcgtcatg aagactctca ccactggctc ccttattgcc cgggcatcag
2041 ggctactcca tgagaggtta gatgaatttg aactgcaggg cccagctctc accaccttca
2101 atttcgatcg caacaaagtg cttgccttta gacagcttgc tgctgaaaat aaatatggat
2161 tgatggacac aatgagggtt gggaaacagc tcaaggatgt caaaaccatg ccagaactca
2221 aacaagcgct caagaatgtc tcaatcaaga agtgtcaaat agtgtatagt ggttgcacct
2281 acatgcttga gtctgatggc aagggcaatg tgaaagttga caggatccaa agcgccgccg
2341 tgcagaccaa caatgagctg gctggtgccc tgcaccactt gaggtgcgcc agaatcagat
2401 actatgtcaa gtgtgtccag gaagccctgt attccatcat ccagattgct ggggctgcat
2461 ttgtcaccac gcgcattgcc aagcgcatga acatacaaga cctatggtcc aagccacaag
2521 tggaaaacac agaggagact accagcaagg acgggtgccc aaaacctaag gatgatgagg
2581 agtttgtcat ttcatccgac gacatcaaaa ctgagggcaa gaaagggaag aacaagactg
2641 gccgtggcaa gaagcacaca gcattttcaa gcaaaggcct cagtgatgaa gagtacgatg
2701 aatacaagag gattagagaa gaaaggaatg gcaagtactc tatagaagag taccttcagg
2761 acagggacaa atactatgag gaggtggcca ttgccagagc gactgaggaa gacttctgtg
2821 aagaggagga agccaagatc cggcaaagga tctttaggcc aacaaggaaa caacgcaagg
2881 aggaaagagt ctctctcggt ttggtcacag gctctgaaat taggaaaaga aacccagatg
2941 acttcaaacc caaggggaaa ttgtgggctg acgatgacag gagtgtggac tacaatgaga
3001 aactcagttt tgaggcccca ccaagtattt ggtcgagaat agtcaacttt ggttcaggct
3061 ggggattctg ggtctccccc agcttgttca taacatcaac ccatgttata ccccagggcg
3121 caaaggagtt ctttggagtc cccatcaaac aaatacaggt acacaagtca ggcgagttct
3181 gtcgcttgag attccctaaa ccaatcagga ctgatgtgac gggcatgatc ttagaagaag
3241 gcgcacctga gggcaccgtg gtcacactac tcatcaaaag gtccactggg gaacttatgc
3301 ccctagcagc taggatgggg acccatgcga ccatgaagat ccaagggcgc actgttgggg
3361 gccagatggg catgcttctg acaggatcca acgccaagag tatggacctg ggtactacac
3421 caggtgattg tggctgcccc tatatctaca agagaggtaa tgactatgtg gtcattggag
3481 tccacacggc tgccgcacgt ggggggaaca ctgtcatatg tgccacccag gggagtgaag
3541 gagaggctac acttgagggt ggtgacaaca aggggacata ctgtggtgca ccaatcctag
3601 gcccagggag tgccccaaca cttagcacca agaccaaatt ctggagatcg tccacagcat
3661 cactcccacc tggcacctat gaaccagcct atcttggtgg caaggaccct agagtcaagg
3721 gtggcccttc actgcagcaa gtcatgaggg aacagttgaa gccattcaca gagcccaggg
3781 gcaagccacc aaaaccaagt gtgttagaag ctgccaagaa gaccatcatt aatgtccttg
3841 agcaaacaat tgatccacct gagaagtggt cgttcgcaca agcttgcgcg tcccttgaca
3901 agaccacttc cagtggtcat ccgcaccaca tgcggaaaaa cgactgctgg aacggggagt
3961 ccttcacagg caagctggca gaccaggctt ccaaggccaa cctgatgttt gaagaaggga
4021 agaacatgac cccagtctac acagctgcgc tcaaggatga gttagttaaa actgacaaaa
4081 tttatggtaa gatcaagaag aggcttcttt ggggctcgga cttggcgacc atgatccggt
4141 gtgctcgagc attcggaggc ctaatggatg aactcaaagc gcactgtgtc acgcttccca
4201 ttagagttgg catgaatatg aatgaggatg gccccatcat cttcgagagg cattccaggt
4261 acacgtacca ctatgatgct gattactctc gatgggattc aacacaacag agagccgtgt
4321 tggcagcagc tttagaaatc atggttaaat tctccccaga accacatttg gctcaggtag
4381 tcgcggaaga ccttctttct cctagcgtgg tggacgtggg cgacttcaca atatcaatca
4441 acgagggtct tccctctggg gtgccctgca cctcccaatg gaactccatc gcccactggc
4501 ttctcactct ctgtgcgctc tccgaagtca caaacctgtc tcctgatacc atacaggcta
4561 attctctctt ctctttttat ggtgatgatg aaattgttag cacagacata aaattggacc
4621 cagagaaatt gacagcaaag ctcagagaat atgggttaag accaacccgc cctgacaaaa
4681 ctgaaggacc ccttgtcatc tctgaagacc tgaatggcct aactttcctg cggagaactg
4741 tgacccgcga cccagctggt tggtttggaa aactggagca gagttcaata ctcaggcaaa
4801 tgtactggac taggggtccc aaccatggag acccatctga aacaatgatt ccacactccc
4861 aaaggcccat acaattgatg tccctactgg gggaggccgc tctccacggc ccagcatttt
4921 acagtaaaat cagcaaattg gtcattgcag agctaaaaga aggtggtatg gatttttacg
4981 tgcccagaca agagccaatg ttcagatgga tgagattctc agatctgagc acgtgggagg
5041 gcgatcgcaa tctggctccc agttttgtga atgaagatgg cgtcgagtga cgccaaccca
5101 tctgatgggt ccgcagccaa cctcgtccca gaggtcaaca atgaggttat ggctctggag
5161 cccgttgttg gtgccgccat tgcggcacct gtagcgggcc aacaaaatgt aattgacccc
5221 tggattagaa acaattttgt acaagcccct ggtggagagt ttacagtgtc ccctagaaac
5281 gctccaggtg aaatactatg gagcgcgccc ttaggtcctg atctaaatcc ctacctatcc
5341 catttggcca gaatgtataa tggttatgca ggtggttttg aagtgcaggt aattctcgcg
5401 gggaacgcgt tcaccgccgg gaaggtcata tttgcagcag tcccaccaaa ttttccaact
5461 gaaggcttga gccccagcca ggtcactatg ttcccccata tagtagtaga tgttaggcaa
5521 ctagaacctg tgttgattcc cttacccgat gttaggaata atttctatca ttacaatcaa
5581 tcaaatgacc ccaccattaa gttgatagca atgttgtata caccacttag ggctaataat
5641 gctggggacg atgtcttcac agtctcttgc cgagttctca cgagaccatc ccccgatttt
5701 gatttcatat ttctagtgcc acccacagtt gagtctagaa ctaaaccatt ctctgtccca
5761 gttttaactg ttgaggagat gaccaattca agattcccca ttccattgga aaagttgttc
5821 acgggtccca gcagtgcctt tgttgttcaa ccacaaaacg gtaggtgcac gactgatggc
5881 gtgctcctag gcaccaccca attgtctcct gtcaacatct gcaccttcag aggggatgtc
5941 acccacatca caggtagtcg taactacaca atgaatttgg cttctcaaaa ttggaacaat
6001 tatgacccaa cagaagaaat cccagcccct ctaggagctc cagattttgt ggggaagatt
6061 caaggcatgc tcacccaaac cacaagggca gatggctcaa cacgcggcca caaagctaca
6121 gtgtacactg ggagcgccga ctttgctcca aaactgggca gagttcaatt tgaaactgac
6181 acagaccatg attttgaagc taaccaaaac acaaagttca ccccagtcgg tgtcatccaa
6241 gatggtagca ccacccaccg aaatgaaccc caacagtggg tgctcccaag ttactcaggc
6301 agaaatactc ataatgttca tctggccccc gctgtagccc ccacttttcc gggtgagcaa
6361 cttctcttct tcagatccac catgcccgga tgtagcgggt accccaacat ggatttggac
6421 tgtctgctcc cccaggaatg ggtgcagtac ttctaccaag aggcagcccc agcacaatct
6481 gatgtggctc tgctaagatt tgtgaatcca gacacaggca gggttttgtt tgagtgtaag
6541 cttcataaat caggctatgt tacagtggct cacactggcc aacatgattt ggttatcccc
6601 cccaatggtt attttaggtt tgattcctgg gtcaaccagt tctacacgct tgcccccatg
6661 ggaaatggag cggggcgtag acgtgtagta taatggctgg agctttcttt gctggattag
6721 catctgatgt ccttggctct ggacttggtt cccttatcaa tgctggggct ggggccatca
6781 accaaaaagt tgagtttgaa aataacagaa aattgcaaca agcatccttc caatttagca
6841 gcaatctaca acaggcttcc tttcaacatg acaaagaaat gctccaagca caaattgagg
6901 ccaccaaaaa gctacaacag gaaatgatga aagttaagca ggcaatgctc ctagagggtg
6961 ggttctctga gacagatgca gcccgcgggg caatcaacgc ccccatgaca aaagctttgg
7021 actggagcgg gacaaggtat tgggctcccg atgctaggac tacaacacac aatgcaggcc
7081 gcttttccac ccctcaacca tcgggggcac tgccaggaag agctaatctt agggatgctg
7141 tccctgctcg gggctcctcc agtaaatctt ctaactcttc tattgttact tctgtgtatt
7201 caaatcaaac cacttcaacg agacttggtt ctacagctgg ttctggtacc agtgtctcga
7261 gcctcccgtc aactgcaagg actaggagct gggttgagga tcaaagtagg aatttgtctc
7321 ctttcatgag gggggcccac aacatatcgt ttgtcacccc accatctagc agatcctcta
7381 gccaaggcac agtctcaacc gtgcctaaag aagttttgga ctcctggact ggcgctttca
7441 acacgcgcag gcagcctctc ttcgcttaca ttcgtaatcg aggggagtca cggg
//