Typing tool
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Typing tool
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Complete norovirus genomes
| MW284782 | GII.4 Sydney | |
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| GII.P4 New Orleans |
ORF1: 1..5097
ORF2: 5078..6700
ORF3: 6700..7503
LOCUS MW284782 7503 bp RNA linear VRL 28-NOV-2020
DEFINITION Norovirus GII isolate P1D5 nonstructural polyprotein (ORF1) gene,
partial cds; VP1 (ORF2) gene, complete cds; and VP2 (ORF3) gene,
partial cds.
ACCESSION MW284782
VERSION MW284782.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7503)
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JOURNAL Unpublished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 7503)
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..7503
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="P1D5"
/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..5097
/gene="ORF1"
CDS <1..5097
/gene="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="QPG52056.1"
/translation="KMASNDASAAAVANSNNDTAKSSSDGVLSSMAVTFKRALGARPK
QPPPREKPQRPPRPPTPELVKNIPPPPPNGEDEIVVSYSVKDGVSGLPDLSTVRQPEE
SNTAFSVPPLNQRENRDAKEPLTGTILEMWDGEIYHYGLYVERGLVLGVHKPPAAISL
AKVELAPLSLYWRPVYTPQYLISPDTLKKLSGETFPYTAFDNNCYAFCCWVLDLNDSW
LSRRMIQRTTGFFRPYQDWNRKPLPTMDDSKIKKVANIFLCALSSLFTRPIKDIIGKI
RPLNILNILASCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPEDL
AVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFPK
KEEANELAIVRSIEDAVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARKLSTK
SASPDIVGTINALLARIAAARSLVHRAKEELSSRPRPVVLMISGRPGIGKTHLAREVA
KRIAASLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTCP
LTLNCDRIENKGKVFDSDVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPDVEKA
KRDFPGQPDMWKNAFSSDFSHIKLALAPQGGFDKNGNTPHGKGVMKTLTTGSLIARAS
GLLHERLDEFELQGPALTTFNFDRNKVLAFRQLAAENKYGLMDTMRVGKQLKDVKTMP
ELKQALKNVSIKKCQIVYSGCTYMLESDGKGNVKVDRIQSAAVQTNNELAGALHHLRC
ARIRYYVKCVQEALYSIIQIAGAAFVTTRIAKRMNIQDLWSKPQVENTEETTSKDGCP
KPKDDEEFVISSDDIKTEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNGK
YSIEEYLQDRDKYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERVSLGLVT
GSEIRKRNPDDFKPKGKLWADDDRSVDYNEKLSFEAPPSIWSRIVNFGSGWGFWVSPS
LFITSTHVIPQGAKEFFGVPIKQIQVHKSGEFCRLRFPKPIRTDVTGMILEEGAPEGT
VVTLLIKRSTGELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGDC
GCPYIYKRGNDYVVIGVHTAAARGGNTVICATQGSEGEATLEGGDNKGTYCGAPILGP
GSAPTLSTKTKFWRSSTASLPPGTYEPAYLGGKDPRVKGGPSLQQVMREQLKPFTEPR
GKPPKPSVLEAAKKTIINVLEQTIDPPEKWSFAQACASLDKTTSSGHPHHMRKNDCWN
GESFTGKLADQASKANLMFEEGKNMTPVYTAALKDELVKTDKIYGKIKKRLLWGSDLA
TMIRCARAFGGLMDELKAHCVTLPIRVGMNMNEDGPIIFERHSRYTYHYDADYSRWDS
TQQRAVLAAALEIMVKFSPEPHLAQVVAEDLLSPSVVDVGDFTISINEGLPSGVPCTS
QWNSIAHWLLTLCALSEVTNLSPDTIQANSLFSFYGDDEIVSTDIKLDPEKLTAKLRE
YGLRPTRPDKTEGPLVISEDLNGLTFLRRTVTRDPAGWFGKLEQSSILRQMYWTRGPN
HGDPSETMIPHSQRPIQLMSLLGEAALHGPAFYSKISKLVIAELKEGGMDFYVPRQEP
MFRWMRFSDLSTWEGDRNLAPSFVNEDGVE"
mat_peptide <1..987
/gene="ORF1"
/product="p48"
mat_peptide 988..2085
/gene="ORF1"
/product="NTPase"
mat_peptide 2086..2622
/gene="ORF1"
/product="p22"
mat_peptide 2623..3021
/gene="ORF1"
/product="VPg"
mat_peptide 3022..3564
/gene="ORF1"
/product="Pro"
mat_peptide 3565..5094
/gene="ORF1"
/product="RdRp"
gene 5078..6700
/gene="ORF2"
CDS 5078..6700
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="QPG52057.1"
/translation="MKMASSDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ
QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
FEVQVILAGNAFTAGKVIFAAVPPNFPTEGLSPSQVTMFPHIVVDVRQLEPVLIPLPD
VRNNFYHYNQSNDPTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT
QLSPVNICTFRGDVTHITGSRNYTMNLASQNWNNYDPTEEIPAPLGAPDFVGKIQGML
TQTTRADGSTRGHKATVYTGSADFAPKLGRVQFETDTDHDFEANQNTKFTPVGVIQDG
STTHRNEPQQWVLPSYSGRNTHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD
CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV
IPPNGYFRFDSWVNQFYTLAPMGNGAGRRRVV"
gene 6700..>7503
/gene="ORF3"
CDS 6700..>7503
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="QPG52058.1"
/translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA
SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQEMMKVKQAMLLEGGFSETDAARGAIN
APMTKALDWSGTRYWAPDARTTTHNAGRFSTPQPSGALPGRANLRDAVPARGSSSKSS
NSSIVTSVYSNQTTSTRLGSTAGSGTSVSSLPSTARTRSWVEDQSRNLSPFMRGAHNI
SFVTPPSSRSSSQGTVSTVPKEVLDSWTGAFNTRRQPLFAYIRNRGESRV"
ORIGIN
1 aagatggcgt ctaacgacgc ttccgctgcc gctgttgcta acagcaacaa cgacaccgca
61 aaatcttcaa gtgacggagt gctttctagc atggctgtca cttttaaacg agccctcggg
121 gcgcggccta aacagcctcc cccgagggaa aaaccacaaa gacccccacg accacctact
181 ccagaactgg ttaaaaatat tccccctccc ccacccaacg gagaggatga aatagtggtt
241 tcttatagtg tcaaagatgg tgtttccggc ttgcctgacc tttccaccgt caggcaaccg
301 gaagaatcca acacggcctt cagtgtccct ccactcaatc agagggagaa tagagatgct
361 aaggaaccac tcactggaac aattctggaa atgtgggacg gggaaatcta ccattatggc
421 ctgtatgtgg agcgaggtct tgtactaggc gtgcacaaac cgccagctgc catcagcctc
481 gctaaggttg agctagcacc actctccttg tactggagac ctgtgtacac tcctcagtac
541 ctcatctctc cagacactct caagaaattg tccggagaaa cgttccccta cacagccttt
601 gacaacaact gctatgcctt ttgttgctgg gtcctggacc taaatgactc gtggctgagc
661 aggagaatga tccagagaac aactggtttc ttcaggccct accaagactg gaataggaaa
721 ccccttccca ccatggatga ctccaaaata aagaaggtag ctaacatatt cctgtgtgct
781 ctgtcctcgc tattcaccag acccataaaa gatataatag ggaagataag gccccttaac
841 atcctcaaca tcttagcctc atgtgattgg acctttgcgg gcatagtgga gtccctgata
901 ctcttggcag aactctttgg agttttctgg acacccccag atgtgtctgc gatgattgcc
961 cccttacttg gtgactacga gctacaagga cctgaggacc ttgcagtgga actcgtcccc
1021 gtggtgatgg ggggaattgg tttggtgcta ggattcacca aagagaagat tgggaaaatg
1081 ttgtcatctg ctgcgtccac cttgagagct tgcaaagacc ttggtgcata tgggctagag
1141 atcctaaagt tagtcatgaa gtggttcttc ccgaagaagg aggaggcaaa tgagctggct
1201 atagtgaggt ccatcgagga tgcagtcctg gatctcgagg caattgaaaa caatcatatg
1261 accaccttgc ttaaagataa agacagtctg gcaacctaca tgagaacact tgaccttgaa
1321 gaggagaaag ccaggaaact ctcaaccaag tctgcctcac ccgacatcgt gggcacaatc
1381 aacgccctcc tggcgagaat cgctgccgca cgttctctgg tgcatcgagc gaaggaggag
1441 ctttccagca gaccaagacc tgtggtgttg atgatatcag gcaggccagg aatagggaag
1501 acccacctcg ctagggaagt ggctaagaga atcgcagcct ccctcacagg agaccaacgt
1561 gttggcctca tcccacgcaa tggcgtcgat cattgggatg cgtacaaggg ggagagggtc
1621 gtcctatggg acgattatgg aatgagcaac cctattcacg atgccctcag gctgcaagaa
1681 ctcgctgaca cttgccccct cactctgaac tgtgacagga ttgaaaataa aggaaaggtc
1741 tttgacagcg atgtcatcat tatcaccact aatctggcca atccagcacc actggactat
1801 gtcaactttg aagcatgctc gagacgcatt gacttcctcg tgtatgcaga agcccctgat
1861 gtcgaaaagg cgaagcgtga cttcccaggc cagcctgaca tgtggaagaa cgctttcagt
1921 tctgatttct cacacataaa actagcactg gccccacagg gtggtttcga caagaacggg
1981 aacaccccac acggaaaggg cgtcatgaag actctcacca ctggctccct tattgcccgg
2041 gcatcagggc tactccatga gaggttagat gaatttgaac tgcagggccc agctctcacc
2101 accttcaatt tcgatcgcaa caaagtgctt gcctttagac agcttgctgc tgaaaataaa
2161 tatggattga tggacacaat gagggttggg aaacagctca aggatgtcaa aaccatgcca
2221 gaactcaaac aagcgctcaa gaatgtctca atcaagaagt gtcaaatagt gtatagtggt
2281 tgcacctaca tgcttgagtc tgatggcaag ggcaatgtga aagttgacag gatccaaagc
2341 gccgccgtgc agaccaacaa tgagctggct ggtgccctgc accacttgag gtgcgccaga
2401 atcagatact atgtcaagtg tgtccaggaa gccctgtatt ccatcatcca gattgctggg
2461 gctgcatttg tcaccacgcg cattgccaag cgcatgaaca tacaagacct atggtccaag
2521 ccacaagtgg aaaacacaga ggagactacc agcaaggacg ggtgcccaaa acctaaggat
2581 gatgaggagt ttgtcatttc atccgacgac atcaaaactg agggcaagaa agggaagaac
2641 aagactggcc gtggcaagaa gcacacagca ttttcaagca aaggcctcag tgatgaagag
2701 tacgatgaat acaagaggat tagagaagaa aggaatggca agtactctat agaagagtac
2761 cttcaggaca gggacaaata ctatgaggag gtggccattg ccagagcgac tgaggaagac
2821 ttctgtgaag aggaggaagc caagatccgg caaaggatct ttaggccaac aaggaaacaa
2881 cgcaaggagg aaagagtctc tctcggtttg gtcacaggct ctgaaattag gaaaagaaac
2941 ccagatgact tcaaacccaa ggggaaattg tgggctgacg atgacaggag tgtggactac
3001 aatgagaaac tcagttttga ggccccacca agtatttggt cgagaatagt caactttggt
3061 tcaggctggg gattctgggt ctcccccagc ttgttcataa catcaaccca tgttataccc
3121 cagggcgcaa aggagttctt tggagtcccc atcaaacaaa tacaggtaca caagtcaggc
3181 gagttctgtc gcttgagatt ccctaaacca atcaggactg atgtgacggg catgatctta
3241 gaagaaggcg cacctgaggg caccgtggtc acactactca tcaaaaggtc cactggggaa
3301 cttatgcccc tagcagctag gatggggacc catgcgacca tgaagatcca agggcgcact
3361 gttgggggcc agatgggcat gcttctgaca ggatccaacg ccaagagtat ggacctgggt
3421 actacaccag gtgattgtgg ctgcccctat atctacaaga gaggtaatga ctatgtggtc
3481 attggagtcc acacggctgc cgcacgtggg gggaacactg tcatatgtgc cacccagggg
3541 agtgaaggag aggctacact tgagggtggt gacaacaagg ggacatactg tggtgcacca
3601 atcctaggcc cagggagtgc cccaacactt agcaccaaga ccaaattctg gagatcgtcc
3661 acagcatcac tcccacctgg cacctatgaa ccagcctatc ttggtggcaa ggaccctaga
3721 gtcaagggtg gcccttcact gcagcaagtc atgagggaac agttgaagcc attcacagag
3781 cccaggggca agccaccaaa accaagtgtg ttagaagctg ccaagaagac catcattaat
3841 gtccttgagc aaacaattga tccacctgag aagtggtcgt tcgcacaagc ttgcgcgtcc
3901 cttgacaaga ccacttccag tggtcatccg caccacatgc ggaaaaacga ctgctggaac
3961 ggggagtcct tcacaggcaa gctggcagac caggcttcca aggccaacct gatgtttgaa
4021 gaagggaaga acatgacccc agtctacaca gctgcgctca aggatgagtt agttaaaact
4081 gacaaaattt atggtaagat caagaagagg cttctttggg gctcggactt ggcgaccatg
4141 atccggtgtg ctcgagcatt cggaggccta atggatgaac tcaaagcgca ctgtgtcacg
4201 cttcccatta gagttggcat gaatatgaat gaggatggcc ccatcatctt cgagaggcat
4261 tccaggtaca cgtaccacta tgatgctgat tactctcgat gggattcaac acaacagaga
4321 gccgtgttgg cagcagcttt agaaatcatg gttaaattct ccccagaacc acatttggct
4381 caggtagtcg cggaagacct tctttctcct agcgtggtgg acgtgggcga cttcacaata
4441 tcaatcaacg agggtcttcc ctctggggtg ccctgcacct cccaatggaa ctccatcgcc
4501 cactggcttc tcactctctg tgcgctctcc gaagtcacaa acctgtctcc tgataccata
4561 caggctaatt ctctcttctc tttttatggt gatgatgaaa ttgttagcac agacataaaa
4621 ttggacccag agaaattgac agcaaagctc agagaatatg ggttaagacc aacccgccct
4681 gacaaaactg aaggacccct tgtcatctct gaagacctga atggcctaac tttcctgcgg
4741 agaactgtga cccgcgaccc agctggttgg tttggaaaac tggagcagag ttcaatactc
4801 aggcaaatgt actggactag gggtcccaac catggagacc catctgaaac aatgattcca
4861 cactcccaaa ggcccataca attgatgtcc ctactggggg aggccgctct ccacggccca
4921 gcattttaca gtaaaatcag caaattggtc attgcagagc taaaagaagg tggtatggat
4981 ttttacgtgc ccagacaaga gccaatgttc agatggatga gattctcaga tctgagcacg
5041 tgggagggcg atcgcaatct ggctcccagt tttgtgaatg aagatggcgt cgagtgacgc
5101 caacccatct gatgggtccg cagccaacct cgtcccagag gtcaacaatg aggttatggc
5161 tctggagccc gttgttggtg ccgccattgc ggcacctgta gcgggccaac aaaatgtaat
5221 tgacccctgg attagaaaca attttgtaca agcccctggt ggagagttta cagtgtcccc
5281 tagaaacgct ccaggtgaaa tactatggag cgcgccctta ggtcctgatc taaatcccta
5341 cctatcccat ttggccagaa tgtataatgg ttatgcaggt ggttttgaag tgcaggtaat
5401 tctcgcgggg aacgcgttca ccgccgggaa ggtcatattt gcagcagtcc caccaaattt
5461 tccaactgaa ggcttgagcc ccagccaggt cactatgttc ccccatatag tagtagatgt
5521 taggcaacta gaacctgtgt tgattccctt acccgatgtt aggaataatt tctatcatta
5581 caatcaatca aatgacccca ccattaagtt gatagcaatg ttgtatacac cacttagggc
5641 taataatgct ggggacgatg tcttcacagt ctcttgccga gttctcacga gaccatcccc
5701 cgattttgat ttcatatttc tagtgccacc cacagttgag tctagaacta aaccattctc
5761 tgtcccagtt ttaactgttg aggagatgac caattcaaga ttccccattc cattggaaaa
5821 gttgttcacg ggtcccagca gtgcctttgt tgttcaacca caaaacggta ggtgcacgac
5881 tgatggcgtg ctcctaggca ccacccaatt gtctcctgtc aacatctgca ccttcagagg
5941 ggatgtcacc cacatcacag gtagtcgtaa ctacacaatg aatttggctt ctcaaaattg
6001 gaacaattat gacccaacag aagaaatccc agcccctcta ggagctccag attttgtggg
6061 gaagattcaa ggcatgctca cccaaaccac aagggcagat ggctcaacac gcggccacaa
6121 agctacagtg tacactggga gcgccgactt tgctccaaaa ctgggcagag ttcaatttga
6181 aactgacaca gaccatgatt ttgaagctaa ccaaaacaca aagttcaccc cagtcggtgt
6241 catccaagat ggtagcacca cccaccgaaa tgaaccccaa cagtgggtgc tcccaagtta
6301 ctcaggcaga aatactcata atgttcatct ggcccccgct gtagccccca cttttccggg
6361 tgagcaactt ctcttcttca gatccaccat gcccggatgt agcgggtacc ccaacatgga
6421 tttggactgt ctgctccccc aggaatgggt gcagtacttc taccaagagg cagccccagc
6481 acaatctgat gtggctctgc taagatttgt gaatccagac acaggcaggg ttttgtttga
6541 gtgtaagctt cataaatcag gctatgttac agtggctcac actggccaac atgatttggt
6601 tatccccccc aatggttatt ttaggtttga ttcctgggtc aaccagttct acacgcttgc
6661 ccccatggga aatggagcgg ggcgtagacg tgtagtataa tggctggagc tttctttgct
6721 ggattagcat ctgatgtcct tggctctgga cttggttccc ttatcaatgc tggggctggg
6781 gccatcaacc aaaaagttga gtttgaaaat aacagaaaat tgcaacaagc atccttccaa
6841 tttagcagca atctacaaca ggcttccttt caacatgaca aagaaatgct ccaagcacaa
6901 attgaggcca ccaaaaagct acaacaggaa atgatgaaag ttaagcaggc aatgctccta
6961 gagggtgggt tctctgagac agatgcagcc cgcggggcaa tcaacgcccc catgacaaaa
7021 gctttggact ggagcgggac aaggtattgg gctcccgatg ctaggactac aacacacaat
7081 gcaggccgct tttccacccc tcaaccatcg ggggcactgc caggaagagc taatcttagg
7141 gatgctgtcc ctgctcgggg ctcctccagt aaatcttcta actcttctat tgttacttct
7201 gtgtattcaa atcaaaccac ttcaacgaga cttggttcta cagctggttc tggtaccagt
7261 gtctcgagcc tcccgtcaac tgcaaggact aggagctggg ttgaggatca aagtaggaat
7321 ttgtctcctt tcatgagggg ggcccacaac atatcgtttg tcaccccacc atctagcaga
7381 tcctctagcc aaggcacagt ctcaaccgtg cctaaagaag ttttggactc ctggactggc
7441 gctttcaaca cgcgcaggca gcctctcttc gcttacattc gtaatcgagg ggagtcacgg
7501 gtg
//