Typing tool
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Typing tool
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Complete norovirus genomes
| MZ215728 | GI.9 | |
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| GI.P9 |
ORF1: 5..5398
ORF2: 5382..7034
ORF3: 7034..7681
LOCUS MZ215728 7681 bp RNA linear VRL 28-MAY-2021
DEFINITION Norovirus GI isolate Hu/US/2013/GI.9[P9]/CA-RGDS-1102 nonstructural
polyprotein (ORF1), VP1 (ORF2), and VP2 (ORF3) genes, complete cds.
ACCESSION MZ215728
VERSION MZ215728.1
KEYWORDS .
SOURCE Norovirus GI
ORGANISM Norovirus GI
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norovirus norwalkense.
REFERENCE 1 (bases 1 to 7681)
AUTHORS Pan,C.-Y., Huynh,T., Padilla,T., Montmayeur,A.M., Chhabra,P.,
Barclay,L., Vinje,J., Wadford,D.A. and Morales,C.
TITLE Direct Submission
JOURNAL Submitted (14-MAY-2021) Viral and Rickettsial Disease Laboratory,
California Department of Public Health, 850 Marina Bay Parkway,
Richmond, CA 94804, USA
COMMENT ##Assembly-Data-START##
Assembly Method :: Geneious v. R10; SPades v. 3.6
Sequencing Technology :: Illumina
##Assembly-Data-END##
FEATURES Location/Qualifiers
source 1..7681
/organism="Norovirus GI"
/mol_type="genomic RNA"
/strain="CA-RGDS-1102"
/isolate="Hu/US/2013/GI.9[P9]/CA-RGDS-1102"
/isolation_source="stool"
/host="Homo sapiens"
/db_xref="taxon:122928"
/geo_loc_name="USA"
/collection_date="17-Jun-2013"
/note="Amplicon sequencing: first 35 nt does represent
primer sequence;
genotype: GI.9[P9]"
gene 5..5398
/gene="ORF1"
CDS 5..5398
/gene="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="QVJ79529.1"
/translation="MMMASNDAIAVADVSKNNANTNNENIGSRLMAKLKERISSQRGE
NTTKIKSTEMALELIRRSQTPSPTRPELPPKGQRDRPPRTVSEVKRTLGWDAPAHKDY
GARPWCELTAEEKKEILDNNERLFDAGGVTPSDVPSTFERSETTECLDDSHAVRWSET
AGVDLGVDSLTTVTGPVWNMCPLPPIESRNNGPAAEPHIGDMIEFYEGHIFHYAIYLG
QGKTIGVHSPQAAFSIARITIHPMAAWWRVCYVPTERQRLSYDQLKELENEPWPYASI
TNNCYEFCCRVMSLDDTWLQRKLVTSGKFNHPTQEWSKDTPDFHQDSKLEMVRDAILS
AINGLVSQPFKNILAKIKPLNLMSLLSNCDWTFMGVVEMVVLMAELFDIFWTPPDISN
FIASLLPDFHLQGPEDLARDLVPLILGGIGLAIGFTRDKVTKVMKSAVDGLRSATQLG
QYGLEVFSIIKKYFFGGDQTEKTLKGIENAVIDMEVLSSTNVTQLVRDKKLAKTYMNI
LDNEEEKARKLSVRSADPHVVTTVNNLISRISMARSALAKAQAEMTSRARPVVIMMCG
PPGIGKTKAAEHLANRLAGEIRPGGKVGLVPRESIDHWDGYHGEEVLLWDDYGMSKIT
EDCNKLQAIADTAPFTLNCDRIENKGMQFVSDAIIITTNAPGPAPVDFVNLGPVCRRV
DFLVYCTAPEIEQTRRTHPGDTNAIKDLFKKDFSHLKMEIAPQGGFDNQGNTPFGKGA
MKPTTLNRLLIQATALTMERQDEFQMQGAVYNFDEDRIAAFTNLARANGLGLLSMAAL
GKKLRSVNSMEGLRNALKGYKISECDIIWNNRTYTIKGDGSSVSISEKQVTTTLQQQA
ISSVTLALTRLRAARALAYASCFQSAVVTILQMAGSAVVISRAVKRMFGTHTNQPTLE
GKPKEHNCRVHRAEREGHGPIGHDGVIERYGLCESDQDEEKDLVELPTASQEGKNKGK
NKKGRGRKNNYNAFSRRGLSDEEYEEYKKVREEKGGNYSIQEYLEDRQRYEEELAEVQ
AGGDGGMGETEAEIRYRVFYKSKSGMRKQRQEERRQLGLVSGTEIRKRKPIDWTPPKN
DWSEDTREVNYDEHISFEAPPSIWSRVVKFGSGWGFWVSPTVFITTTHVIPPEAKEIF
GEKISDIAIHRVGEFTQFRFSKKMRPDLSGMVLEEGCPEGTVCTIMIKRDSGELLPLA
VRMGAVASMKIQGKLMHGQSGMLLTGANAKGMDLGTIPGDCGAPYVHKRGNDWVVCGV
HAAATKSGNTVVCAIQSGEGEATLEGGGQNKGHYAGHPILRYGNGPSLSTKTKFWKST
PQPLPPGTYEPAYLGGRDPRVEGGPSLQQVLRDQLKPFAEPRGRLPEPSLLEAAVETV
TNVLEQTMDTPIPWSYSDACMSLDKTTSSGFPHHKKKNDDWNGSTFVRELGDQAAHAN
NMYEMGKPMKPVYTAALKDELVKPEKVYTKVKKRLLWGADLGTVIRAARAFGPFCEAI
KPHVIKLPIKVGMNAIEDGPMIYAEHAKYKYHFDADYTAWDSTQNREIMLESFNIMCK
LTANPSLAAVVAQDLLSPSEMDVGDYVISVKDGLPSGFPCTSQVNSINHWIYTLCALS
EVTGLAPDVLQSQSYFSFYGDDEIVSTDVEFDPVKLTQVLKEYGLKPTRPDKSEGPII
VKQCVDGLVFLRRTISRDAAGYQGRLDRNSIERQLWWTRGPNHDDPFETLVPHQQRKI
QLISLLGEAALHGEKFYRKIANRVIQEVKEGGLELYVPGWQPMFRWMRFHDLSLWAGD
RNLLPDYVNDDGV"
mat_peptide 5..1216
/gene="ORF1"
/product="p48"
mat_peptide 1217..2305
/gene="ORF1"
/product="NTPase"
mat_peptide 2306..2902
/gene="ORF1"
/product="p22"
mat_peptide 2903..3322
/gene="ORF1"
/product="VPg"
mat_peptide 3323..3865
/gene="ORF1"
/product="Pro"
mat_peptide 3866..5395
/gene="ORF1"
/product="RdRp"
gene 5382..7034
/gene="ORF2"
CDS 5382..7034
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="QVJ79530.1"
/translation="MMMASKDATSNMDGTSGAGQLVPENNNTSEPINMEPVAGAVTAA
ATAGQVNMIDPWIMNNYVQAPQGEFTISPNNTPGDILFDLQLGPHLNPFLAHLSQMYN
GWVGNMKVRVVLAGNAFSAGKIIVCCIPPGFSAPNISIAQATMFPHVIADVRVLEPID
IPLDDVRNVLFHNNDNGNQTMRLLCMLYTPLRSGGTSSGTDPFVIAGRVLTCPTPDFN
FLFLVPPTVEQKTKQFSVPNLPLNVMSNSRVPSLLNAMVVSPDQAQVVQFQNGRCTLD
GQMLGTTTVSASCVARFRGKTFQAPDNRLGINLAEISGEPYHAFESPAPLGFPDFGDG
DWHVTATKVTPSQLEANDPVVMGNVQSYNPQFAPHLGTLVVENPTPGNVTTGTDLLFN
ITWLSNRANNRFNPWVIPNYGSTLTEAAQLAPSIFPPGFGETIVYFNSTFPAVGATTH
AAIPCLLPQEFVAHFVNEQAPIRGEAALLHYIDPDTHRNLGEFKIYPEGFVTCVPNVG
GTGPQSLPTNGIFVFVSWVSRYYQLKPVGTAGQARRLGFRRV"
gene 7034..7681
/gene="ORF3"
CDS 7034..7681
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="QVJ79531.1"
/translation="MAQAIFGAIAATAAGSAVSASIDAGTQAALQYQRYQQDLDLQSK
SFLHDERMLGLQVDASNALLQKNLSTRYNLLLSSGMSSSDAARMIAGAPPTKIVDWNG
VRVAAPRSSATTLRSGGFMPVASLSTTPKMKNDGAGIVNPNYAPSHSSMVSRTTQWVE
SQNSLRSLEPFHHGALQTAWVTPPGSSSTSTVSSVSTAPRYFNTERLPLFANLRK"
ORIGIN
1 gtgaatgatg atggcgtcta acgacgctat tgccgttgct gatgtcagca aaaacaatgc
61 taacaccaac aatgaaaata tcggctctcg ccttatggcg aaactgaagg agcgaataag
121 ctcccaacgt ggtgagaaca ccacaaaaat caagagcaca gaaatggcgc tcgaactaat
181 acgtaggtct caaacaccat cacctacacg cccagaactg ccaccaaaag ggcaacgtga
241 ccgccctcca aggacagtgt ccgaagtcaa acggacgtta ggttgggatg cccccgccca
301 taaagattat ggagctcgtc catggtgtga actaacagca gaagagaaga aagagatcct
361 ggacaacaac gagcgtttat ttgatgctgg tggggtcaca ccttccgatg tgcctagcac
421 tttcgagagg agtgagacaa ctgagtgttt ggatgacagc catgcagtta gatggagtga
481 aactgcaggg gtggaccttg gcgtggattc cttgactacg gtcactggtc cagtttggaa
541 catgtgccct cttcccccga ttgagtcgcg caataatgga cctgcagccg aaccacacat
601 aggggacatg attgagttct atgagggaca catttttcat tatgccatct atcttggtca
661 aggaaaaacc ataggagtgc actcccctca agcagccttt tcaatagcac gcattaccat
721 acaccccatg gcagcatggt ggcgggtctg ctatgtgccc acagaacgtc agcgtctcag
781 ctatgaccaa ctaaaagagc ttgagaatga accatggcct tacgcctcca taaccaacaa
841 ctgctatgag ttttgttgcc gcgtgatgtc actcgatgac acatggttgc agcggaaact
901 ggtaacatca ggcaagttca atcaccctac ccaggagtgg tccaaggaca caccagattt
961 ccatcaagat tcaaaactgg aaatggtcag ggatgctatc ctatctgcaa taaatgggct
1021 ggtctcccag cccttcaaaa acatcctagc aaaaattaaa ccactgaatc tgatgtctct
1081 tttatcaaat tgtgactgga cttttatggg ggttgtggag atggtagtat tgatggctga
1141 attgtttgac atcttctgga ccccacctga catttccaac tttatagctt ctcttttgcc
1201 agatttccac ctacaagggc cagaggatct ggcaagggac ttggtcccgt tgatacttgg
1261 gggtattggc ctggccattg gtttcaccag ggataaagtc acaaaggtaa tgaagagtgc
1321 tgttgatggt ttgcggtctg ctacacaact gggacagtat ggccttgagg tattttcaat
1381 tatcaagaag tatttctttg gaggagatca gactgagaag accctcaagg gcatagaaaa
1441 cgctgtgata gacatggaag tcctgtcaag caccaatgtg actcaactgg tgcgtgacaa
1501 gaaactggct aagacatata tgaatatatt agacaatgag gaagaaaaag cacgaaaact
1561 ttcagtgcgc agtgctgacc cacatgtagt aacaacagtt aacaacctca tatcacgtat
1621 atccatggca agatctgctc ttgctaaggc ccaggcagaa atgaccagcc gtgctcgccc
1681 agtagttatc atgatgtgtg gaccaccagg cataggaaaa accaaggcag ccgagcacct
1741 tgcaaaccgg ctagccggtg aaataaggcc aggaggtaaa gtcggattgg tgcccaggga
1801 atccattgat cactgggatg ggtaccatgg ggaagaagtc ctattgtggg atgactatgg
1861 catgtccaag ataacagaag actgtaataa gctacaggcc atagctgaca cagccccttt
1921 cacactcaac tgtgacagaa tagaaaacaa gggtatgcaa tttgtatcag atgcaatcat
1981 aataactaca aatgcccctg gaccagcccc agttgacttc gtcaatcttg gaccggtgtg
2041 ccggcgtgtg gactttctgg tgtattgcac tgcccctgaa atagagcaaa caagaaggac
2101 ccaccccggg gacacaaatg ctattaagga tctattcaag aaagacttct cacacctaaa
2161 aatggaaata gccccccaag ggggttttga taaccaaggc aacacacctt ttggaaaggg
2221 tgcaatgaag ccaaccacac tcaacaggct gcttatccag gccaccgcgt tgaccatgga
2281 gaggcaagat gagttccaga tgcagggggc tgtctacaac tttgatgagg accggatagc
2341 agctttcacc aatctagctc gtgccaatgg actgggcctc ttgagtatgg cagccctcgg
2401 gaagaaactg cggagtgtca acagcatgga gggacttcgt aatgccctta aagggtacaa
2461 aatttctgaa tgtgacatta tatggaacaa caggacctat accatcaaag gtgatgggtc
2521 aagtgtgagt atatcagaaa aacaagtgac caccacccta caacaacaag ccattagttc
2581 ggtaaccctg gcacttacca gattgcgcgc tgcccgtgca ttagcatatg catcctgctt
2641 ccagagtgcg gtggtcacca tcttgcagat ggcaggttct gcagtggtca ttagcagggc
2701 agttaaacgc atgtttggga cccacaccaa ccaaccaaca ctagagggaa aacccaaaga
2761 gcacaattgc agagtccacc gagctgaaag agaaggtcat ggccccatag gtcacgatgg
2821 tgttattgaa cgctacggcc tgtgtgaaag tgaccaggat gaagaaaagg atttagtaga
2881 actgccaacg gccagccaag agggcaagaa caaaggaaag aacaagaaag ggcgcggtcg
2941 caaaaataat tacaacgcct tctcgagacg tggcttaagt gatgaggagt atgaggagta
3001 taagaaagtt agagaggaga agggtggtaa ttacagtatc caggagtacc tagaagaccg
3061 gcagcgctat gaagaggagt tggcagaggt gcaggccggt ggtgatggcg ggatgggtga
3121 aacagaagct gagatccgct accgggtatt ctacaagtcc aaaagtggga tgcgaaagca
3181 acgccaggag gagcgccgac aacttgggct ggtttcaggc actgaaatca gaaaacgcaa
3241 acccatagat tggacccccc ctaagaatga ttggtcagaa gacaccagag aagtcaatta
3301 tgatgaacac ataagctttg aagccccgcc ctctatatgg agcagggtag taaaatttgg
3361 tagtggatgg ggcttctggg ttagcccaac tgtgttcatc acaaccacac atgttatacc
3421 accagaagca aaggaaatat ttggagagaa aatctctgac atagcaatac atagggtcgg
3481 agagttcacc cagtttaggt tctcaaagaa aatgaggcca gatctcagtg gcatggtatt
3541 ggaagagggg tgtcctgagg gcacggtttg caccatcatg ataaaaaggg actcaggtga
3601 gctgttgccc ttggcagttc gcatgggtgc tgtggcatcc atgaaaatac agggtaagct
3661 catgcatggt cagtctggta tgttgctgac aggggcaaat gcaaaaggaa tggatctagg
3721 taccatccct ggtgattgtg gggctccgta cgtgcacaag agggggaatg actgggttgt
3781 gtgtggtgtg catgcagccg caactaaatc aggaaataca gttgtttgtg ccatacagtc
3841 aggtgagggg gaagccaccc tcgaaggagg tggacagaat aaagggcact acgcaggcca
3901 tccaattctc agatatggta atggcccttc cctctccacc aagacaaagt tctggaagtc
3961 aaccccacaa cccctcccgc ctggaaccta tgagccagct tatctcgggg gacgtgatcc
4021 cagagtcgaa ggtgggccat cacttcaaca ggtcttacga gatcagctta aaccctttgc
4081 tgaacctcga ggtagattac cagaaccaag cctacttgaa gcggctgtgg aaacagtcac
4141 gaatgtgcta gaacagacta tggacactcc aataccgtgg agctacagtg atgcatgcat
4201 gtcccttgat aagaccacca gttctgggtt cccacaccac aaaaagaaaa atgatgattg
4261 gaatggcagc acatttgtgc gggagcttgg tgatcaggca gcacacgcca ataacatgta
4321 tgaaatgggg aagcccatga agccagtgta tactgctgca ctgaaggatg agctagtgaa
4381 gcctgagaaa gtgtatacaa aggtcaaaaa gaggctactt tggggtgcag atctcggcac
4441 ggtcattcgc gccgctcgag cgtttggccc tttttgtgag gccataaaac cacatgttat
4501 aaaattgccc attaaggttg gcatgaatgc aattgaggat ggccccatga tatatgctga
4561 gcatgccaag tacaagtacc attttgatgc tgactataca gcatgggact ccacccagaa
4621 tagagaaatc atgttagaat ccttcaacat catgtgcaaa ttaacagcta acccatcact
4681 tgctgccgtt gtggcacagg atttattgtc cccatcagaa atggacgttg gagactatgt
4741 gattagtgtc aaggatggtc taccttcagg gttcccgtgc acctcgcaag tgaacagcat
4801 aaaccactgg atctacaccc tatgtgccct ttcagaggta acaggtctgg cacctgatgt
4861 tctgcagtct caatcatatt tctcttttta tggagatgat gaaattgtgt caactgatgt
4921 ggaatttgac cctgtgaaac tcacccaggt acttaaagag tatggtttaa aacccacccg
4981 ccctgataaa tcagaaggac ccatcatagt gaagcaatgt gtggatggtc tagttttcct
5041 aaggcgcacc atatcgaggg atgctgcagg gtaccaaggg cgactggatc gcaactccat
5101 agaaagacaa ctttggtgga cccggggccc aaatcatgat gacccatttg aaactttggt
5161 gcctcatcag caaagaaaga tacaactgat ttccttgctt ggggaggctg cacttcacgg
5221 agaaaaattc tacagaaaga ttgccaacag agtgattcag gaagtcaaag aggggggcct
5281 tgagctttat gtgcccggct ggcagcccat gttccgctgg atgcggttcc atgatctgag
5341 tttgtgggca ggagatcgca atctcctccc cgattatgta aatgatgatg gcgtctaagg
5401 acgctacctc aaacatggat ggcaccagcg gagctggaca actggtgcca gagaataata
5461 acacctcaga accaatcaac atggaaccag tcgcgggcgc ggtcactgcc gcagctacgg
5521 ctggccaggt gaatatgatt gatccttgga taatgaataa ttatgtacaa gccccccagg
5581 gcgagttcac aatttcgccc aataatactc ctggtgatat attgtttgat cttcaattag
5641 gtccccatct gaaccccttt cttgctcatt tatcccaaat gtataatgga tgggttggta
5701 acatgaaagt cagggtggtg ttggctggca atgccttttc tgcgggaaag atcatagtgt
5761 gctgtatacc acctggattc tctgcaccaa acatatccat agcccaggca actatgttcc
5821 ctcatgttat tgctgatgtt cgggtcttgg agcccattga tattcccctt gatgatgtca
5881 ggaatgtttt gtttcataat aatgataatg gtaatcagac tatgagattg ctgtgcatgt
5941 tgtatacacc actccgtagt ggaggcacat ccagtggaac tgacccgttt gtgattgctg
6001 gtagggttct aacctgccct actccagatt ttaatttctt gttcttggtt cccccaaccg
6061 ttgagcaaaa gaccaaacag tttagtgtgc ctaaccttcc cctcaatgtt atgtctaatt
6121 ctagagttcc atcactccta aatgctatgg tggtgtcacc agatcaggcc caagtggtgc
6181 aatttcaaaa tggcaggtgt acccttgatg ggcaaatgtt gggcaccacc actgtatcag
6241 ctagctgtgt tgcaagattc agagggaaaa cttttcaagc ccctgacaac aggttaggta
6301 tcaatctggc tgaaattagt ggagaaccat accatgcatt tgaaagccct gcccccctag
6361 gtttccctga ctttggggat ggagattggc acgtcactgc aacaaaagta accccctcac
6421 agcttgaagc taatgaccct gtggtcatgg ggaatgtcca atcatataac ccacagtttg
6481 cccctcacct gggcacccta gtcgtagaaa accctacccc aggcaatgtg accaccggga
6541 ctgacttatt gttcaacata acctggcttt ccaatcgtgc caataatcgg tttaaccctt
6601 gggttatccc aaattatggt tcaactctca ctgaggcagc acagctggca ccttcaatat
6661 ttccccctgg ctttggtgaa actatagtgt atttcaattc cactttccca gctgtggggg
6721 ccaccaccca tgcagctata ccctgtctgc ttccacaaga atttgttgct cattttgtta
6781 atgaacaggc ccccatacgt ggagaggctg ctttgctcca ctacattgac cctgatactc
6841 accgtaatct tggtgagttc aaaatttatc cagagggctt tgtaacgtgt gttcctaatg
6901 tgggtggcac gggaccacaa tctctaccta ctaatggcat ctttgtcttt gtctcttggg
6961 tgtcaaggta ctatcaactc aagcctgtgg gaactgctgg tcaagcaagg cggcttggtt
7021 tcaggagagt ataatggctc aagcaatatt cggagccatt gcagctacag ctgcgggtag
7081 tgctgtcagt gctagtattg acgctggcac acaggctgca ctacaatacc agcgttatca
7141 acaggatctt gacctccaat ctaaatcttt cctccatgat gagcgtatgc ttggtttgca
7201 agtagatgct agtaatgctt tgttgcaaaa gaatctatct actaggtata atctattgct
7261 ttcttctggt atgtcttcct ctgatgctgc tcgcatgatt gctggcgcac caccaacaaa
7321 aatagttgat tggaatggag tccgggtggc agccccaagg tcctcagcta caactttacg
7381 ttctgggggc tttatgccgg ttgcttcact gtccacgacc ccaaaaatga agaatgatgg
7441 tgcaggtata gtaaacccca attatgcacc tagccacagt tcaatggtct ctcgaaccac
7501 acaatgggtc gaaagccaga actccctgag aagtctagaa ccattccacc acggagcctt
7561 gcagaccgca tgggtgaccc caccaggttc ttcttccacc tccacagtgt ctagtgtgtc
7621 aactgcacca agatatttta acactgaaag acttcctcta ttcgcaaatt tgaggaaatg
7681 a
//