Typing tool
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Typing tool
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Complete norovirus genomes
| OP669384 | GI.5 | |
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| GI.P4 |
ORF1: 5..5362
ORF2: 5346..6977
ORF3: 6977..7609
LOCUS OP669384 7708 bp RNA linear VRL 23-OCT-2022
DEFINITION Norovirus GI isolate Hu/US/2021/GI.5[P4]/CA-RGDS-1151 nonstructural
polyprotein (ORF1), VP1 (ORF2), and VP2 (ORF3) genes, complete cds.
ACCESSION OP669384
VERSION OP669384.1
KEYWORDS .
SOURCE Norovirus GI
ORGANISM Norovirus GI
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7708)
AUTHORS Pan,C.-Y., Hatada,A., Morales,C., Montmayeur,A.M., Chhabra,P. and
Vinje,J.
TITLE Direct Submission
JOURNAL Submitted (17-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..7708
/organism="Norovirus GI"
/mol_type="genomic RNA"
/strain="CA-RGDS-1151"
/isolate="Hu/US/2021/GI.5[P4]/CA-RGDS-1151"
/isolation_source="stool"
/host="Homo sapiens"
/db_xref="taxon:122928"
/country="USA: CA"
/collection_date="Oct-2021"
/note="Amplicon sequencing:first 35 nt does represent
primer sequence;
genotype: GI.5[P4]"
gene 5..5362
/gene="ORF1"
CDS 5..5362
/gene="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="UYH70563.1"
/translation="MMMASNDAIAATAASVENTSDNSDSIKNRFFTRLKNLGSNNKPI
KIENTHMALNLISRGPSPIPQDKPPKDQRDKPPRNVAETQQAMGWVDPPMDQNLPTWE
ELSQTEKQEILKNNSNWFDAGGLAPASIPTGYVKNTEQQPPDHQVKWSASNGVDLGVG
KLTTVPGPAWNLCPMPPIDQRNNGPAKEPLIGDMIEFYEGHIYHYAIYIGQGKTVGVH
SPQAAFSIARITIHPIAAWWRVCYVPTPDQRLNYDQLKELENEPWPYAAVTNNCYEFC
CRILNLQDSWLERRLVTSGRFNHPAQDWSRDTPDFQQDSKLEIVRDAVLAAINGLVSK
PFKDLLNKLKPLNVLNLLSNCDWTFMGVVETIILLMELFGIFWNPPDVSSFIASLLPD
MHLQGPEDLAKDLIPLVLGGVGLAIGFTKDKVTKVMKSAVEGLRAATQLGQYGLEIFA
VLKKYFFGGDQTEKTLKDIETAVIDMEVISTTAVTQLVRDKQAARTYMNILDAEEEKA
RKLSVRHADPHVVSTTNALISRISLARSALAKAQAEMTNRVKPVVIMMCGPPGIGKTK
AAEYLAKRLANEIRPGGKVGLVPREAVDHWDGYHGEEVMLWDDYGMSKIADDCNKLQA
IADTAPLTLNCDRIEKKGLQFVSDAIVITTNAPGPAPVDFVNLGPVCRRVDFLVYCTA
PDVEQTRRTNPGDTGALKDCFKSDFSHLRMELAPQGGFDNQGNTPFGKGTMRPTTLNR
LLIQAVALTMERQDEFQMQGQVYDFDADRISAFTSLARANGLGLISMASLGKKLRGVD
SVHGLKNALSGYTITPCSIKWQARVYDIESDGSNVRIKENTSAQTQRQQSIDTAALAL
TRLKAARAAAYAACIQSAITTVLQMAGSAIVINRAVKRMFGAHSSTIALEGPPREHRC
RAHLAKAAGGGPIGHDDVIDKYGLCETEEEGTNEEINVELPTATSEGKNKGKTKKGRG
RRANYNAFSRRGLSDEEYEEYKKIREEKNGNYSIQEYLEDRQRYEEELAEVQAGGDGG
IGETEMEIRHKIFYKSKKGRQNERRQLGLVTGSDIRKRKPIDWTPPKNDWADDNREVD
YNEKLSFEAPPTLWSRVVRFGSGWGFWVSPTVFITTTHVIPSGAREFFGEPIESIAIH
RAGEFTQFRFSHKVRPDLTGMVLEEGCPEGVVCSILIKRDSGELLPLAVRMGAIASMK
IQGRLVHGQSGMLLTGANAKGMDLGTLPGDCGAPYVYKRNNDWVVCGVHAAATKSGNT
VVCAVQAGEGETTLEGGDKGHYAGHEIIKHSKGPALSTKTKFWRSTPEPLPPGVYEPA
YLGGRDPRVKSGPSLQQVLRDQLKPFAEPRGRMPEPGLLEAAVETVTSMLEQTMDTPT
PWSFSDACQSLDKTTSSGHPYHKRKNDDWNGTSFVGELGEQAAHANNMYELGKSMKPL
YTAALKDELVKPEKIYQKIKKRLLWGADLSTVIRAARAFGPFCDAIKSHVIKLPIKVG
MNSIEDGPMIYAEHAKYKNHFDADYSAWDSTQNRQIMTESFAIMCRLTASPELASVVA
KDLLAPSEMDVGDYIIRVKEGLPSGFPCTSQVNSINHWLITLCAMSEVTGLSPDVIQS
QSYFSFYGDDEIVSTDIDFDPARLTQVLKEYGLRPTRPDKSEGPIILRRQVDGLVFLR
RTISKDAAGFQGRLDRGSIERQLWWTRGPNHDDPSETLIPHPQRKVQLISLLGEASLH
GEKFYRKISSKVIQEIKTGGLEMYVPGWQAMFRWMRFHDLGLWTGDRNLLPEFVNDDG
V"
gene 5346..6977
/gene="ORF2"
CDS 5346..6977
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="UYH70564.1"
/translation="MMMASKDAPPSADGANGAGQLVPEVNNAEPLPLDPVAGASTALA
TAGQVNMIDPWIFNNFVQAPQGEFTISPNNTPGDILFDLQLGPHLNPFLAHLAQMYNG
WVGNMRVRLILAGNAFTAGKVIICCVPPGFQSRTLSIAQATLFPHVIADVRILEPIEI
PLEDVRNTLYHNNDNQPTMRLLCMLYTPLRTGGGSGGTDAFVVAGRVLTCPSPDFNFL
FLVPPTVEQKTRPFSLPNIPLHLQSNSRVPNPIQSMVISPDQAQNTQFQNGRCTTDGQ
LLGTTPVSVSQILKFRGKVSPGSKVINLTELDGSPFLAFEAPAPTGFPDLGTCDWHVE
LSLNSNSQSSGNPIVLRDIQPNSSDFVPHLGSVAVTVAIETAGDYTGTIQWISQPSNV
SPVPNVNLWTIPNYGSSLAEASQLAPVVYPPGFGEAVVYFMSHIPGPNTEHKPNLVPC
LLPQEFITHFVSEQAPPMGEAALIHYVDPDTNRNLGEFKLYPEGVITCVPNGTGPQQL
PLNGVFVFASWVSRFYQLKPVGTASLARGRLGVRR"
gene 6977..7609
/gene="ORF3"
CDS 6977..7609
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="UYH70565.1"
/translation="MAQAIIGAIAASAAGSALGAGIQAGAEAALQSQRFQQDLTLQQN
SFKHDKEMMSYQVEMSNALLAKNLNTRYALLQSGGLSSADAARAVAGAPVTRIVDWNG
TRVAAPNSSATTLRSGGFMSVPIPVQPKQKPSTISGFNNPAYGETMSRVSSWVQSQNS
SVRSMPPFHSSALRTVWVTPPGSTSTSSSVSSVPMGVFNTDRLPLFANRR"
ORIGIN
1 gtgaatgatg atggcgtcta acgacgctat tgcagctact gctgctagtg ttgaaaacac
61 tagtgacaat agtgattcta taaagaaccg tttcttcaca aggttgaaga atttaggttc
121 taacaacaag cccataaaaa ttgagaacac ccacatggcc cttaacttga ttagtagggg
181 cccatctcca attccacaag acaagccccc aaaagaccag agggataaac ccccaaggaa
241 tgtggctgag acccagcagg caatgggctg ggtcgacccc cccatggacc agaatctacc
301 aacctgggag gagttgagcc aaacagaaaa acaagagata ctcaaaaaca attcaaattg
361 gtttgatgct ggtggtttgg caccagctag catcccaact ggttatgtaa agaacacaga
421 acaacaaccc cctgatcacc aagtcaaatg gagtgccagt aatggggttg atcttggggt
481 aggcaaattg acaactgtgc caggtccagc atggaatctg tgccccatgc caccaattga
541 tcaacgcaac aatggcccag caaaggaacc acttattggt gacatgatag aattctatga
601 ggggcacatt taccattatg caatatacat tggacaagga aaaactgttg gggttcactc
661 accccaagcg gccttttcaa tagccaggat aactatacac cccatcgccg cttggtggag
721 ggtttgttat gtgccaacac ctgatcagag gctgaattat gaccaactca aagaacttga
781 gaatgagcca tggccatatg ctgcagttac taataattgt tatgagttct gctgcaggat
841 tctcaatctt caggactctt ggttggaacg tcgcttggtc acatctggcc gtttcaacca
901 cccagcacaa gactggtcca gggacacgcc tgacttccaa caagatagca agttagaaat
961 agtcagggat gccgtgctcg ctgctatcaa tggcttggta tcaaaacctt ttaaggacct
1021 cctaaataaa cttaagccac tcaacgtgct caacttactc tctaactgtg attggacatt
1081 catgggggtg gttgagacga taatattact tatggagttg tttgggatct tctggaatcc
1141 ccctgatgtg tccagtttca tagcctcact actacctgat atgcacttgc agggaccaga
1201 agatctggct aaagacttga taccgttggt attggggggt gtggggcttg caattgggtt
1261 cactaaggac aaagttacaa aagttatgaa gagtgctgtt gaaggactca gggcagccac
1321 acaattaggc cagtatggcc tagagatatt tgcagtttta aagaaatatt tctttggtgg
1381 ggatcaaaca gagaagacct taaaggacat tgagacagcc gtgattgata tggaggtcat
1441 ctcaacaact gctgtaactc aactagtcag ggacaaacag gctgcccgaa cctacatgaa
1501 catcttagat gctgaagaag agaaggcaag aaagctttca gttagacatg cagaccccca
1561 tgttgtatcc acaaccaatg ccctgatctc acgtatttca ttggctcgtt ccgcacttgc
1621 taaggcacaa gctgagatga ctaatagggt taaaccagta gtgataatga tgtgtggccc
1681 cccaggtata ggcaaaacaa aggcagccga gtaccttgct aagaggctgg ctaatgagat
1741 acggcctgga ggaaaagtgg gccttgtgcc aagggaggct gtggaccact gggatggata
1801 tcatggtgaa gaggttatgc tatgggatga ctatggtatg tcaaaaatag ctgatgactg
1861 caataaatta caggctatag ccgacacagc tccactcact ctgaactgtg accggattga
1921 gaagaaaggg ttacaatttg tctctgatgc catagtgata acaacaaatg ccccaggacc
1981 agccccagtt gactttgtca atcttggccc agtgtgtcgg cgggtagatt tcctggttta
2041 ttgcactgcg cccgatgttg aacagacacg tcgtactaac cctggcgaca ccggagccct
2101 caaggattgt tttaaaagtg atttctctca tttaagaatg gagttggctc cacagggagg
2161 gttcgacaac caaggaaaca ctccatttgg caaagggacc atgcggccta ccacattaaa
2221 ccgcctcctt atacaggccg tggcactaac tatggagcgt caggatgagt tccagatgca
2281 aggtcaggtg tacgactttg atgctgacag gatctctgcc ttcaccagtt tagcaagagc
2341 caatggtttg ggtctcatta gtatggcctc cctaggaaag aaattgaggg gtgtggactc
2401 ggttcatggc ctcaagaatg cactatcagg ctataccata accccctgta gcataaagtg
2461 gcaagctaga gtgtatgaca ttgaatcaga tggctccaat gtgcgcataa aggaaaacac
2521 ctcagcccag acacaacgcc agcaatcaat tgatacagca gccctggcac ttaccagact
2581 taaagcagca cgggcagcag catatgcagc ttgcatacaa agcgcaataa caactgtcct
2641 gcagatggct gggtcagcca tcgttataaa tcgtgctgtt aagaggatgt tcggtgcaca
2701 ttcgagcact atagcccttg aaggacctcc aagagaacat cgatgtaggg ctcatttagc
2761 caaggctgca ggtggtgggc caataggcca tgacgatgtc attgataaat atggcctatg
2821 tgagactgaa gaagagggta ccaatgagga aataaatgtg gagctaccca ccgccacttc
2881 cgaaggtaag aacaaaggaa agaccaagaa aggaagaggc agaagggcca actacaatgc
2941 tttttcacgg cgcggcctga gtgatgagga gtatgaggaa tataagaaga tcagggaaga
3001 aaagaatggc aactacagca ttcaggagta ccttgaagac aggcaacgct atgaagaaga
3061 gctcgcagaa gtgcaagctg gtggtgatgg aggcattggt gagacagaaa tggagatccg
3121 acataaaatc ttttacaagt ctaaaaaggg ccgccagaat gaacgtcgcc aactagggct
3181 agtcactggt agtgatatta gaaagagaaa gccaattgat tggacccccc ccaaaaatga
3241 ttgggcagat gataataggg aagtggacta caatgaaaaa ctcagttttg aagccccacc
3301 aaccctttgg agccgtgttg tgagatttgg ctctgggtgg ggcttttggg tgagcccgac
3361 tgtttttatc accaccactc atgtcatacc atctggggcg cgtgaattct ttggagaacc
3421 cattgagtcc attgcaatcc atcgtgctgg tgaattcaca caattcagat tttcacacaa
3481 ggtccgcccg gatttgactg gaatggtgct ggaggaaggt tgtcctgagg gtgttgtgtg
3541 ttctattctc ataaagcgtg actctggtga gttgctgccc cttgctgtcc gaatgggcgc
3601 tatagcgtcc atgaagattc agggaaggct agtgcatggc cagtctggga tgctgctcac
3661 tggagctaac gctaagggga tggatttagg caccctacca ggtgattgtg gtgcccctta
3721 tgtgtacaaa aggaataacg actgggtggt ctgtggtgta catgcagccg ctacaaagtc
3781 aggcaacact gtggtgtgtg ctgtccaggc tggagagggt gagaccaccc tagagggtgg
3841 tgacaaaggc cattatgcag gccatgaaat aatcaagcat agtaagggcc cagctctatc
3901 tactaagacc aagttttgga ggtcaacccc tgaaccatta ccaccaggtg tttatgaacc
3961 agcgtatctt gggggtcgag atcccagggt aaaaagtggg ccctctctac agcaagtctt
4021 gcgtgatcag ttgaaaccat ttgctgagcc gcgaggtcga atgccagagc ctggtctact
4081 tgaggcagct gttgagactg tcacatccat gcttgagcaa acaatggata caccaacccc
4141 ctggtctttc tctgatgcat gtcaatcact tgacaagacc acaagttcag gacacccgta
4201 tcacaaaaga aagaatgatg attggaatgg aacttcattt gttggagagc ttggagaaca
4261 ggcagcacat gccaacaaca tgtatgaatt aggcaaatct atgaaaccac tatacactgc
4321 agcccttaaa gacgagttgg tcaagcccga gaaaatttat caaaagatca agaagaggct
4381 tctctggggt gctgatctct caacagtcat aagggctgcc agggcctttg gacctttttg
4441 tgatgctata aagtctcatg tcattaaact ccccatcaaa gttggtatga actccataga
4501 agatggccca atgatttacg cagagcatgc aaaatacaag aaccattttg atgcagatta
4561 ttcggcctgg gattccacgc aaaatagaca gatcatgact gaatcctttg caatcatgtg
4621 ccgtctcaca gcatcaccgg aattggcttc tgttgtagct aaagatttac tagccccttc
4681 agaaatggat gttggtgatt acatcatccg tgtaaaagag ggcttgccat caggattccc
4741 ttgcacatca caggtgaaca gcataaacca ctggctgatc acactgtgtg ccatgtctga
4801 agtcacgggt ttgtcacctg atgtcataca atcccagtct tacttttctt tctatggtga
4861 tgatgagata gtctccacag acattgattt tgaccccgct cgcctcactc aagtgctcaa
4921 ggaatatggg ttgagaccca ccagaccaga caagtcagaa gggcctatca tactcagaag
4981 acaggtggat ggtcttgttt tcttgaggag gacaatctcc aaagatgctg cgggcttcca
5041 gggaaggcta gatagaggtt caattgaaag acagctctgg tggactcgag gccctaacca
5101 tgatgacccc agtgagactc taatcccaca cccccagagg aaagttcagc ttatatccct
5161 ccttggtgag gcttccctcc atggtgagaa gttttacagg aagatctcca gtaaagttat
5221 acaggagata aaaactggtg gtttggaaat gtatgtgcca ggctggcagg ccatgttccg
5281 ctggatgcgc ttccatgacc tcggattgtg gacaggagat cgcaatctcc tgcccgaatt
5341 cgtaaatgat gatggcgtct aaggacgccc caccaagcgc agatggcgcg aatggcgccg
5401 gtcagcttgt gccggaggtt aataatgctg aaccactgcc acttgatcca gtggcggggg
5461 cttccaccgc ccttgccact gctggacaag ttaatatgat tgacccatgg atctttaata
5521 attttgtcca ggccccccag ggtgaattta ctatttcccc aaacaatacc cccggcgata
5581 tcctgtttga tttacaatta ggtccacatc taaatccttt tctagcacat ttagctcaga
5641 tgtacaatgg ctgggttggc aacatgcggg tcaggctcat cttggccggt aatgctttca
5701 ctgctggtaa agttataatt tgttgtgttc cccctggttt tcaatctaga accctttcca
5761 tagcccaggc tacactcttt ccccatgtga tcgctgatgt gagaattttg gaaccaattg
5821 agatcccttt agaagatgtt aggaacactc tttatcataa taatgacaat caaccaacaa
5881 tgcgcttact gtgcatgctc tacacgccat tacgcaccgg tggcggttct ggtggtacag
5941 atgcgtttgt tgtagcaggt cgagttctaa cttgccctag ccctgatttc aatttcttgt
6001 tcttggtccc acccactgtg gagcagaaga cacgtccctt tagtctgccc aatataccct
6061 tgcacttgca gtctaactcc cgtgtcccca accccataca gagtatggtc atttcgcctg
6121 atcaggccca gaatacccaa tttcagaatg gccgctgcac cactgatggg cagctcttgg
6181 gtacaacacc tgtctcagtt agtcagatct taaagtttag aggaaaggtg tcacctggtt
6241 ctaaggttat caacctcact gagttagatg gttccccctt tctggctttt gaggcccctg
6301 cgcccacggg ctttcctgac ttgggaactt gtgattggca tgttgaatta agccttaact
6361 caaatagtca aagttctggc aacccaattg tattaaggga catacaacca aattcttcag
6421 attttgtgcc acacttgggc agtgtggctg tcaccgttgc aattgaaaca gctggggatt
6481 atactggtac aatacaatgg atctctcagc catccaatgt ctccccagtt cccaatgtca
6541 acctatggac tatccccaac tatggatcaa gtttggcaga agcctcccaa ctggcccccg
6601 tagtgtaccc cccgggattt ggtgaagctg tagtgtactt tatgtctcac ataccaggcc
6661 caaacactga acacaaaccc aatttggtac cctgcctact tccacaagaa tttataactc
6721 attttgtcag tgaacaagcc ccacccatgg gtgaggcggc tcttatccat tatgtggacc
6781 cagataccaa ccgtaatcta ggtgagttca aactgtatcc tgaaggtgtt atcacctgtg
6841 tgccaaatgg cactggtcca caacaactcc ccctcaatgg ggtcttcgtc tttgcctcct
6901 gggtttctag attttatcaa ttaaagcctg tgggaacggc cagtttggcc agaggtaggc
6961 ttggagtcag aagataatgg ctcaagccat cattggagcc attgctgcat cagcggctgg
7021 aagtgccctt ggagctggta tccaagcagg tgctgaggcc gccctccaga gccaaaggtt
7081 ccagcaggac cttacccttc aacaaaattc ttttaaacat gataaggaga tgatgtcata
7141 tcaagttgaa atgtctaatg ctttgttagc taaaaatctt aatactcgct atgctttgct
7201 ccaatctgga ggtctatcta gtgctgatgc tgctcgtgct gtggcaggtg cgcctgttac
7261 aaggattgtt gattggaatg gcacgagagt ggcagcccca aactcttctg caacaactct
7321 cagatctggt ggatttatgt ctgttcctat acctgttcaa cccaaacaaa agccctctac
7381 catctcaggg tttaataatc cagcatatgg agaaactatg tcaagagttt cctcctgggt
7441 ccaatcccag aattcaagtg ttagaagcat gcctcctttt catagttctg ccctcaggac
7501 tgtttgggtt acaccaccag gttcaacttc tacttcttca tctgtttcat ccgtgcctat
7561 gggcgtgttt aacactgata ggcttcccct attcgcaaac aggagatgat attgttgtaa
7621 taagaataat aatgtgagca tcttattcaa tttggtctaa ttagtttaat aattaggttt
7681 aatttggaca attgatgtta aaaaaaaa
//