Typing tool
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Typing tool
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Complete norovirus genomes
| OP649638 | GI.9 | |
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| GI.P9 |
ORF1: 5..5398
ORF2: 5382..7034
ORF3: 7034..7681
LOCUS OP649638 7753 bp RNA linear VRL 22-OCT-2022
DEFINITION Norovirus GI isolate Hu/US/2021/GI.9[P9]/CA-RGDS-1150, complete
genome.
ACCESSION OP649638
VERSION OP649638.1
KEYWORDS .
SOURCE Norovirus GI
ORGANISM Norovirus GI
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7753)
AUTHORS Pan,C.-Y., Hatada,A., Morales,C., Montmayeur,A.M., Chhabra,P. and
Vinje,J.
TITLE 2021 Sporadic GI.9
JOURNAL Unpublished
REFERENCE 2 (bases 1 to 7753)
AUTHORS Pan,C.-Y., Hatada,A., Morales,C., Montmayeur,A.M., Chhabra,P. and
Vinje,J.
TITLE Direct Submission
JOURNAL Submitted (13-OCT-2022) 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..7753
/organism="Norovirus GI"
/mol_type="genomic RNA"
/strain="CA-RGDS-1150"
/isolate="Hu/US/2021/GI.9[P9]/CA-RGDS-1150"
/isolation_source="stool"
/host="Homo sapiens"
/db_xref="taxon:122928"
/geo_loc_name="USA: CA"
/collection_date="Feb-2021"
/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="UYG09760.1"
/translation="MMMASNDAITVADVSKNNANTNNENIGSRLMAKLKERISSQRGE
NTTKIKSTEMALELIRRSQTPSPTRPELPPKGQRDRPPRTVSEVKRTLGWGAPAHKDY
GARPWCELTAEEKKEILDNNERLFDAGGVTPSDVPSTFERSETTECLDDSHAVRWSET
AGVDLGVDSLTTVTGPVWNMCPLPPIESRNNGPAAEPHIGDMIEFYEGHIFHYAIYFG
QGKTIGVHSPQAAFSIARITIHPMAAWWRICYVPTERQRLSYDQLKELENEPWPYASI
TNNCYEFCCRVMSLDDTWLQRKLVTSGKFNHPTQEWSKDTPDFHQDSKLEMVRDAILS
AINGLVSQPFKNILAKIKPLNLMSLLSNCDWTFMGVVEMVVLMAELFDIFWTPPDISN
FIASLLPDFHLQGPEDLARDLVPLILGGIGLAIGFTRDKVTKVMKSAVDGLRSATQLG
QYGLEIFSIIKKYFFGGDQTEKTLKGIENAVIDMEVLSSTNVTQLVRDKKLAKTYMNI
LDNEEEKARKLSVRSADPHVVTTVNNLISRISMARSALAKAQAEMTSRARPVVIMMCG
PPGIGKTKAAEHLANRLAGEIRPGGKVGLVPRESIDHWDGYHGEEVLLWDDYGMSKIT
EDCNKLQAIADTAPFTLNCDRIENKGMQFVSDAIIITTNAPGPAPVDFVNLGPVCRRV
DFLVYCTAPEIEQTRRTHPGDTNAIKDLFKKDFSHLKMEIAPQGGFDNQGNTPFGKGA
MKPTTLNRLLIQATALTMERQDEFQMQGAVYNFDEDRIAAFTNLARANGLGLLSMAAL
GKKLRSVNSMEGLRNALKGYKISECDIIWNNRTYTIKGDGSSVSISEKQVTTTLQQQA
ISSVTLALTRLRAARALAYASCFQSAVVTILQMAGSAVVISRAVKRMFGTHTNQPTLE
GKPKEHNCRVHRAEREGHGPIGHDGVIERYGLCESDQDEEKGLVELPTASQEGKNKGK
NKKGRGRKNNYNAFSRRGLSDEEYEEYKKVREEKGGNYSIQEYLEDRQRYEEELAEVQ
AGGDGGMGETEAEIRYRVFYKSKSGMRKQRQEERRQLGLVSGTEIRKRKPIDWTPPKN
DWSEDTREVNYDEHISFEAPPSIWSRVVKFGSGWGFWVSPTVFITTTHVIPPEVKEIF
GEKVSDIAIHRVGEFTQFRFSKKMRPDLSGMVLEEGCPEGTVCTIMIKRDSGELLPLA
VRMGAVASMKIQGKLMHGQSGMLLTGANAKGMDLGTIPGDCGAPYVHKRGNDWVVCGV
HAAATKSGNTVVCAIQSGEGEATLEGGGQNKGHYAGHPILRYGNGPSLSTKTKFWKST
PQPLPPGTYEPAYLGGRDPRVEGGPSLQQVLRDQLKPFAEPRGRLPEPSLLEAAVETV
TNVLEQTMDTPIPWSYSDACMSLDKTTSSGFPHHKKKNDDWNGSTFVRELGDQAAHAN
NMYEMGKSMKPVYTAALKDELVKPEKVYTKVKKRLLWGADLGTVIRAARAFGPFCEAI
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="UYG09761.1"
/translation="MMMASKDAISNMDGTSGAGQLVPENNNTSEPINMEPVAGAVTAA
ATAGQVNMIDPWIMNNYVQAPQGEFTISPNNTPGDILFDLQLGPHLNPFLAHLSQMYN
GWVGNMKVRVVLAGNAFSAGKIIVCCIPPGFSAPNISIAQATMFPHVIADVRVLEPID
IPLDDVRNVLFHNNDNGNQTMRLLCMLYTPLRSGGTSSGTDPFVIAGRVLTCPTPDFN
FLFLVPPTVEQKTKQFSVPNLPLDVMSNSRVPSLLNAMVVSPDQAQVVQFQNGRCTLD
GQMLGTTTVSASCVARFRGKTFQAPDNRLGINLAEISGEPYHAFESPAPLGFPDFGDG
DWHVTATKVTPSQLEANDPVVMGNVQPYNPQFAPHLGTLVIENPTPDNVTTGTDLLFN
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="UYG09762.1"
/translation="MAQAIFGAIAATAAGSAVSASIDAGTQAALQYQRYQQDLDLQSK
SFLHDERMLGLQVDASNALLQKNLSTRYNLLLSSGMSSSDAARMIAGAPPTKIVDWNG
VRVAAPRSSATTLRSGGFMPVASLSTTPKMKNDGAGIVNPNYAPSHSSMVSRTTQWVE
SQNSLRSLEPFHHGALQTAWVTPPGSSSTSTVSSVSTAPRYFNTERLPLFANLRK"
ORIGIN
1 gtgaatgatg atggcgtcta acgacgctat taccgttgct gatgtcagca aaaacaatgc
61 taacaccaac aatgaaaata tcggctctcg ccttatggcg aagctgaagg agcgaataag
121 ctcccaacgt ggtgagaaca ccacaaaaat caagagcaca gaaatggcgc tcgaactaat
181 acgtaggtct caaacaccat cacctacacg cccagaactg ccaccaaaag ggcaacgtga
241 ccgccctcca aggacagtgt ccgaagtcaa acggacgtta ggttggggtg cccccgccca
301 taaagattat ggagctcgcc catggtgtga actaacagca gaagagaaga aagagatcct
361 ggacaacaac gagcgtttat ttgatgctgg tggggttaca ccctccgatg tgcctagcac
421 tttcgagagg agtgagacaa ctgagtgttt ggatgacagc catgcagtta gatggagtga
481 aactgcaggg gtggaccttg gcgtggattc cttaactacg gtcactggcc cagtttggaa
541 catgtgccct cttcccccga ttgagtcgcg caataatgga cctgcagctg aaccacacat
601 aggggacatg attgagttct atgagggaca catttttcat tatgccatct attttggtca
661 aggaaaaacc ataggagtgc actctcctca agcagccttt tcaatagcac gcattaccat
721 acaccccatg gcagcatggt ggcggatctg ctatgtgccc acagaacgtc agcgtctcag
781 ctatgaccaa ctaaaagagc ttgagaatga accatggccc tacgcctcca taaccaataa
841 ctgctatgag ttttgctgcc gcgtgatgtc actcgatgac acatggttgc agcggaaact
901 ggtaacatca ggcaagttta atcaccctac ccaggagtgg tccaaggaca caccagactt
961 ccatcaagat tcaaaattgg aaatggtcag ggatgccatc ctatcggcaa taaatgggct
1021 ggtctcccag cccttcaaaa acatcctagc aaaaattaaa ccactgaatc tgatgtctct
1081 tttatcaaat tgtgactgga cctttatggg ggttgtggag atggtagtat tgatggctga
1141 actgtttgac atcttctgga ccccacctga catttccaac tttatagctt ctcttttgcc
1201 agatttccac ctacaagggc cagaggatct ggcaagggac ttggtcccgt tgatacttgg
1261 gggtattggc ctggccattg gttttaccag agataaagtc acaaaggtaa tgaagagtgc
1321 tgttgatggt ttacggtctg ctacacagct gggacagtat ggccttgaga tattttcaat
1381 tatcaagaag tatttctttg gaggagatca aactgagaag actctcaagg gcatagaaaa
1441 tgctgtgata gacatggaag ttctgtcaag caccaatgtg actcaactgg tgcgtgacaa
1501 gaagctggct aaaacatata tgaatatatt agacaatgag gaagaaaaag cacgaaaact
1561 ttcagtgcgc agtgctgacc cacatgtagt aacaacagtt aacaatctca tatcacgtat
1621 atccatggca agatctgctc ttgctaaggc ccaggcagaa atgaccagcc gtgctcgccc
1681 agtagtcatc atgatgtgtg gaccaccagg cataggaaaa actaaggcag ccgagcacct
1741 tgcaaaccgg ctagccggtg aaataaggcc aggaggtaaa gtcggattgg tgcccaggga
1801 atccattgat cactgggatg ggtaccatgg agaagaagtc ctattgtggg atgattatgg
1861 catgtccaag ataacagaag actgcaataa gctacaggcc atagctgaca cagccccttt
1921 cacactcaat tgtgacagaa tagagaacaa aggtatgcaa tttgtatcag atgcaatcat
1981 aataactaca aatgcccccg gaccagcccc agtcgacttt gtcaatcttg gaccggtgtg
2041 ccggcgtgtg gactttctgg tttattgcac tgcccctgaa atagagcaaa caagaaggac
2101 ccaccccggg gacacaaatg ctattaaaga 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 tctgggcctc ttgagtatgg cagccctcgg
2401 gaagaaactg cggagtgtca acagcatgga gggacttcgt aatgccctta aagggtacaa
2461 aatttctgaa tgtgacatta tatggaacaa taggacctat accatcaaag gtgatgggtc
2521 aagtgtgagt atatcagaaa aacaagtgac caccacccta caacaacaag ccattagttc
2581 agtgaccctg gcactcacca gattgcgcgc tgctcgtgca ttagcatatg catcctgctt
2641 ccagagtgct gtggtcacta tcttgcagat ggcaggttct gcagtggtca ttagcagggc
2701 agttaaacgc atgtttggga cccacaccaa ccaaccaaca ctagagggaa aacccaaaga
2761 gcacaattgc agagtccacc gagctgaaag agaaggtcat ggccccatag gtcacgatgg
2821 tgttattgaa cgctacggcc tgtgtgaaag tgaccaggat gaagaaaagg gtttagtgga
2881 actaccaacg gccagccaag agggcaagaa caaaggaaag aacaagaagg ggcgcggtcg
2941 caaaaataat tacaacgcct tctcgagacg tggcttgagt 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 ctaaaaatga ttggtcagaa gacaccagag aagtcaatta
3301 tgatgaacac ataagctttg aagccccgcc ctctatatgg agcagggtag taaaatttgg
3361 tagtggatgg ggcttttggg ttagcccaac tgtgttcatc acaaccacac atgttatacc
3421 accagaagta aaggaaatat ttggagagaa agtctctgac atagcaatac atagggtcgg
3481 agagttcacc cagtttaggt tctcaaagaa aatgaggcca gatctcagtg gcatggtact
3541 ggaagagggg tgtcctgagg gcacggtttg cactatcatg ataaaaaggg actcaggtga
3601 gctgttgccc ttggcagttc gcatgggtgc tgtggcatcc atgaaaatac agggtaagct
3661 catgcatggt caatctggta tgctgctgac aggggcaaat gcgaaaggaa tggatttagg
3721 taccatccct ggtgattgtg gggccccgta cgtgcacaag agggggaatg actgggttgt
3781 gtgtggtgtg catgcagccg caactaaatc aggaaataca gttgtctgtg ccatacagtc
3841 aggtgagggg gaagccaccc tcgaaggagg tggacagaat aaagggcact atgcaggcca
3901 tccaattctc aggtatggta atggcccttc cctctccacc aagacaaagt tctggaagtc
3961 aaccccacaa cccctcccgc ctgggaccta tgagccagct tatctcgggg gacgtgatcc
4021 cagagtcgaa ggtgggccat cacttcaaca ggtcttacga gatcagctta agcccttcgc
4081 tgaacctcgc ggtagattac cagaaccaag cctacttgaa gcggctgtgg aaacagtcac
4141 gaatgtgcta gagcagacta tggatactcc aataccgtgg agctacagtg atgcatgcat
4201 gtcccttgat aagaccacca gttctgggtt cccacaccac aaaaagaaaa atgatgactg
4261 gaatggcagc acatttgtgc gggagcttgg tgatcaggca gcacacgcca ataacatgta
4321 tgaaatgggg aagtccatga agccagtgta tactgctgca ctgaaggatg agctagtgaa
4381 gcctgagaaa gtgtatacaa aggtcaaaaa gaggctactt tggggtgcag atctcggcac
4441 ggtcattcgc gcagctcgag cgtttggccc tttttgtgag gccataaaac cacatgttat
4501 aaaattaccc attaaggttg gcatgaatgc aattgaagat ggccccatga tatatgctga
4561 gcatgccaag tacaagtacc attttgatgc tgactacaca gcatgggact ccacccagaa
4621 tagagaaatc atgttggaat ccttcaacat catgtgcaaa ttaacagcta acccatcact
4681 tgctgctgtt gtggcccagg atctattgtc cccatcagaa atggacgttg gagactatgt
4741 gattagtgtc aaggatggtt taccttcagg gttcccgtgc acctcgcaag tgaacagcat
4801 aaatcactgg atctacaccc tatgtgccct ttcagaggta acaggtctgg ctcctgatgt
4861 tctgcagtct caatcatatt tctcttttta tggagatgat gaaattgtgt caactgatgt
4921 ggaatttgac cctgtgaaac tcacccaggt acttaaagag tatggtttaa aacccacccg
4981 ccctgacaaa tcagaaggac ccatcatagt gaagcaatgt gtggatggtc tagttttcct
5041 aaggcgcacc atatcgaggg atgctgcagg gtaccaaggg cgactggatc gcaactccat
5101 agaaaggcaa ctttggtgga cccgtggccc aaatcatgat gatccatttg aaactttggt
5161 gcctcatcag caaagaaaga tacaactgat ttccttgctt ggggaggctg cacttcacgg
5221 agaaaaattc tacagaaaga ttgccaacag agtgattcag gaagtcaaag aggggggcct
5281 tgagctttat gtgcccggtt ggcagcccat gttccgctgg atgcggttcc atgatctgag
5341 cttgtgggca ggagatcgca atctcctccc cgattatgta aatgatgatg gcgtctaagg
5401 acgctatctc aaacatggat ggcaccagcg gagctggaca actggtgcca gagaataata
5461 acacctcaga accaatcaac atggaaccag tcgcgggcgc ggtcactgcc gcagccacgg
5521 ctggccaggt gaacatgatt gatccttgga taatgaataa ttatgtacaa gccccccagg
5581 gcgagttcac aatttcgccc aataatactc ctggtgatat attgtttgat ctccaattag
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 cattcccctt gatgatgtca
5881 ggaatgtcct gtttcataat aatgataatg gtaaccagac tatgagattg ctgtgcatgt
5941 tgtatacacc actccgtagt ggaggcacat ccagtggaac tgacccgttt gtgattgctg
6001 gtagggtttt aacctgccca actccagatt ttaatttctt gttcttggtt cccccaaccg
6061 ttgagcaaaa gaccaaacag tttagtgtgc ctaaccttcc cctcgatgtc atgtctaatt
6121 ctagagttcc atcactccta aatgctatgg tggtgtcacc agatcaagcc caagtggtgc
6181 aatttcaaaa tggcaggtgc acccttgatg ggcaaatgtt gggcactacc actgtatcag
6241 ctagctgtgt tgcaagattc agagggaaaa ctttccaagc ccctgacaac aggttaggta
6301 tcaatctggc tgaaattagt ggagaaccat accatgcatt tgaaagccct gcccccctag
6361 gtttccctga ctttggggat ggagattggc acgtcactgc aacaaaagta accccctcac
6421 agcttgaggc taatgaccct gtggtcatgg ggaatgtcca accatataac ccacagtttg
6481 ccccccacct gggcacccta gtcatagaaa accctactcc agacaatgtg accaccggga
6541 ctgacttgtt gttcaacata acctggcttt ccaatcgtgc caataatcgg tttaaccctt
6601 gggttatccc aaattatggt tcaactctca ctgaggcagc acagctggca ccttcaatat
6661 ttccccctgg ctttggtgaa actatagtgt atttcaattc cacttttcca gctgtggggg
6721 ccaccaccca tgcagctata ccctgtctgc ttccacaaga atttgttgct cattttgtta
6781 atgaacaggc ccccatacgt ggagaggctg ctttgctcca ctacattgac cctgatactc
6841 accgtaatct tggtgagttc aaaatttatc cagagggctt tgtaacgtgt gttcctaatg
6901 tgggaggcac ggggccacaa tctctaccta ctaatggtat ctttgtcttt gtctcttggg
6961 tgtcaaggta ctaccaactc aagcctgtgg gaactgctgg tcaagcaagg cggcttggtt
7021 tcaggagagt ataatggctc aagcaatatt cggagccatt gcagccacag ctgcgggtag
7081 tgctgtcagt gctagcattg acgccggtac acaggctgca ctacaatacc agcgttatca
7141 acaggatctt gatctccaat ctaaatcttt cctccatgat gagcgtatgc ttggtttgca
7201 agtagatgct agtaatgctt tgttgcaaaa gaatctatct actaggtata atctattgct
7261 ttcttctggt atgtcctcct ctgatgctgc tcgcatgatt gctggcgcac caccaacaaa
7321 aatagttgat tggaatggag tccgggtggc agccccaagg tcctcagcta cgactttacg
7381 ttctgggggc tttatgccgg ttgcttcact gtccacgact ccaaaaatga agaatgatgg
7441 tgcaggtata gtaaacccca attatgcacc tagccacagt tcaatggtct ctcgaaccac
7501 acaatgggtc gagagccaga actccctgag aagtttagaa ccattccatc acggagcctt
7561 gcagaccgca tgggtgaccc caccaggttc ttcttctacc tccacagtgt ctagtgtgtc
7621 aactgcacca agatatttta atactgaaag gcttcctcta ttcgcaaatt tgaggaaatg
7681 atttttgtaa tatgaattag tgggcatcat attcaatttg gttcaatttg gattttaatt
7741 ggtttgtgat gtt
//