Typing tool
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Typing tool
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Complete norovirus genomes
| MZ229462 | GI.4 | |
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| GI.P4 |
ORF1: 5..5362
ORF2: 5346..6980
ORF3: 6980..7615
LOCUS MZ229462 7652 bp RNA linear VRL 24-MAY-2021
DEFINITION Norovirus GI isolate Hu/US/2012/GI.4[P4]/CA-RGDS-1108 nonstructural
polyprotein (ORF1), VP1 (ORF2), and VP2 (ORF3) genes, complete cds.
ACCESSION MZ229462
VERSION MZ229462.1
KEYWORDS .
SOURCE Norovirus GI
ORGANISM Norovirus GI
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norovirus norwalkense.
REFERENCE 1 (bases 1 to 7652)
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 (18-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..7652
/organism="Norovirus GI"
/mol_type="genomic RNA"
/strain="CA-RGDS-1107"
/isolate="Hu/US/2012/GI.4[P4]/CA-RGDS-1108"
/isolation_source="stool"
/host="Homo sapiens"
/db_xref="taxon:122928"
/geo_loc_name="USA"
/collection_date="04-May-2012"
/note="Amplicon sequencing: first 35 nt does represent
primer sequence;
genotype: GI.4[P4]"
gene 5..5362
/gene="ORF1"
CDS 5..5362
/gene="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="QVL22419.1"
/translation="MMMASNDAIAATAASAENTSDNSDSIKNRFFTKLKNLGSNNKPI
KIENTHMALNLISRGPSPIPQDKPPKDQRDKPPRNVAETQQAMGWIDPPMDQNLPTWE
ELSQTEKQEILKNNSNWFDAGGLAPASIPTGYVKNTEQQPPDHQVKWSASNGVDLGVG
NLTTVPGPAWNLCPMPPIDQRNNGPAKEPLIGDMIEFYEGHIYHYAIYIGQGKTVGVH
SPQAAFSIARITIHPIAAWWRVCYVPTPDQRLNYDQLKELENEPWPYAAVTNNCYEFC
CRILNLQDSWLERRLVTSGRFNHPAQDWSRDTPDFQQDSKLEIVRDAVLAAINGLVSK
PFKDLLNKLKPLNVLNLLSNCDWTFMGVVETIILLMELFGIFWNPPDVSSFIASLLPD
MHLQGPEDLAKDLIPLVLGGVGLAIGFTKDKVTKVMKSAVEGLRAATQLGQYGLEIFA
VLKKYFFGGDQTEKTLKDIETAVIDMEVISTTAVTQLVRDKQAARTYMNILDAEEEKA
RKLSVRHADPHVVSTTNALISRISLARSALAKAQAEMTNRVKPVVIMMCGPPGIGKTK
AAEYLAKRLANEIRPGGKVGLVPREAVDHWDGYHGEEVMLWDDYGMSKIADDCNKLQA
IADTAPLTLNCDRIEKKGLQFVSDAIVITTNAPGPAPVDFVNLGPVCRRVDFLVYCTA
PDVEQTRRTNPGDTGALKDCFKSDFSHLKMELAPQGGFDNQGNTPFGKGTMRPTTLNR
LLIQAVALTMERQDEFQMQGQVYDFDADRISAFTSLARANGLGLISMASLGKKLRGVD
SVHGLKNALSGYTITPCSIKWQARVYDIESDGTNVRIKENTSAQTQRQQSIDTAALAL
TRLKAARAAAYAACIQSAITTILQMAGSAIVINRAVKRMFGAHSSTIALEGPPREHRC
RAHLAKAAGGGPIGHDDVIDKYGLCETEEEGTSEEINVELPTATSEGKNKGKTKKGRG
RRANYNAFSRRGLSDEEYEEYKKIREEKNGNYSIQEYLEDRQRYEEELAEVQAGGDGG
IGETEMEIRHKIFYKSKKGRQNERRQLGLVTGSDIRKRKPIDWTPPKNDWADDNREVD
YNEKLSFEAPPTLWSRVVRFGSGWGFWVSPTVFITTTHVIPSGAREFFGEPIESIAIH
RAGEFTQFRFSHKVRPDLTGMVLEEGCPEGVVCSILIKRDSGELLPLAVRMGAIASMK
IQGRLVHGQSGMLLTGANAKGMDLGTLPGDCGAPYVYKRNNDWVVCGVHAAATKSGNT
VVCAVQAGEGETTLEGGDKGHYAGHEIIKHSKGPALSTKTKFWRSTPEPLPPGVYEPA
YLGGRDPRVKGGPSLQQVLRDQLKPFAEPRGRMPEPGLLEAAVETVTSMLEQTMDTPT
PWSFSDACQSLDKTTSSGHPYHKRKNDDWNGTSFVGELGEQAAHANNMYELGKSMKPL
YTAALKDELVKPEKVYQKIKKRLLWGADLSTVIRAARAFGPFCDAIKPHVIKLPIKVG
MNSIEDGPMIYAEHAKYKNHFDADYSAWDSTQNRQIMTESFAIMCRLTASPELASVVA
KDLLAPSEMDVGDYIIRVKEGLPSGFPCTSQVNSINHWLITLCAMSEVTGLSPDVIQS
QSYFSFYGDDEIVSTDIDFDPARLTQVLKEYGLRPTRPDKSEGPIILRRQVDGLVFLR
RTISKDAAGFQGRLDRGSIERQLWWTRGPNHDDPSETLIPHPQRKVQLISLLGEASLH
GEKFYRKISSKVIQEIKTGGLEMYVPGWQAMFRWMRFHDLGLWTGDRNLLPEFVNDDG
V"
mat_peptide 5..1192
/gene="ORF1"
/product="p48"
mat_peptide 1193..2281
/gene="ORF1"
/product="NTPase"
mat_peptide 2282..2884
/gene="ORF1"
/product="p22"
mat_peptide 2885..3292
/gene="ORF1"
/product="VPg"
mat_peptide 3293..3835
/gene="ORF1"
/product="Pro"
mat_peptide 3836..5359
/gene="ORF1"
/product="RdRp"
gene 5346..6980
/gene="ORF2"
CDS 5346..6980
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="QVL22420.1"
/translation="MMMASNDAIPSADGATGAGQLVPEVNTADPIPIDPVAGSSTALA
TAGQVNLIDPWIINNFVQAPQGEFTISPNNTPGDVLFDLQLGPHLNPFLSHLSQMYNG
WVGNMRVRVVLAGNAFTAGKVIICCVPPGFQSRTLSIAQATLFPHVIADVRTLDPVEV
PLEDVRNVLYHNNDTQPTMRLLCMLYTPLRTGGASGGTDSFVVAGRVLTCPGPDFNFL
FLVPPTVEQKTRPFTVPNIPLKYLSNSRIPNPIEGMSLSPDQTQNVQFQNGRCTIDGQ
PLGTTPVSVSQLCKFRGRITSGQRVLNLTELDGSPFMAFAAPAPAGFPDLGSCDWHIE
MSKIPNSSTQNNPIVVNSVKPNSQQFVPHLSSITLDDNVSSGGDYIGTLQWTSPPSDS
GGANTNFWKIPDYGSSLAEASQLAPAVYPPGFNEVIVYFMASIPGPNQSGSPNLVPCL
LPQEYITHFISEQAPIQGEAALLHYVDPDTNRNLGEFKLYPGGYLTCVPNSSSTGPQQ
LPLDGVFVFASWVSRFYQLKPVGTAGPARGRLGVRR"
gene 6980..7615
/gene="ORF3"
CDS 6980..7615
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="QVL22421.1"
/translation="MAQAIIGAIAASAAGSALGAGIQAGAEAALQAQRYQQDLTLQQN
SFNHDKEMLGYQVEMSNKLLAKNLNTRYSLLQAGGLSPSDAARAVAGAPVTRLVDWGG
VRVAAPQSSATTLRSGNFMAVPLPAQPKQKPLASEGYSNPAYDPMQRTASWVQSQNSS
RNWSPYHRQALQTVWVTPPGSTSSSSISSVSTAPRGYFNTDRLPLFANLRR"
ORIGIN
1 agtaatgatg atggcgtcta acgacgctat tgcagctact gctgctagtg ctgaaaacac
61 tagtgacaat agtgattcta taaagaaccg tttcttcaca aagttgaaga atttaggttc
121 taacaataag cctataaaaa ttgagaacac ccacatggcc cttaacttaa ttagtagggg
181 tccatctcca attccacaag ataagccccc taaagaccag agggataaac ccccaaggaa
241 tgtggctgag acccagcagg caatgggatg gattgacccc cccatggacc agaatctacc
301 aacctgggag gagttgagcc aaacagaaaa acaagagata ctcaagaaca attcaaactg
361 gtttgatgct ggtggtttgg caccagctag catccctact ggttatgtga agaatacaga
421 gcaacaaccc cctgaccacc aagtcaagtg gagtgccagt aatggggttg atcttggggt
481 aggcaatcta acaactgtgc caggtccagc atggaatctg tgccccatgc caccaattga
541 ccaacgcaat aatggtccag caaaggaacc acttattggt gacatgatag aattctatga
601 ggggcacatt taccattatg caatatacat tggccaagga aaaactgttg gggttcactc
661 acctcaagcg gccttttcaa tagccaggat aactatacac cccatcgccg cttggtggag
721 ggtttgttat gtgccaacac ctgatcagag gttaaattat gaccaactca aagaacttga
781 gaatgagcca tggccatatg ctgcagttac caataattgt tatgagttct gctgcaggat
841 tctcaatctt caagactctt ggttggaacg tcgcttggtc acatctggcc gtttcaacca
901 cccagcacaa gactggtcca gggacacgcc tgacttccag caagatagca agttagaaat
961 agtcagggat gccgtgcttg ctgctatcaa tggcttggta tcaaaacctt tcaaagacct
1021 cctaaacaaa cttaagccac tcaacgtgct caacctactc tctaactgtg attggacatt
1081 tatgggggtg gttgagacga taatactact tatggaactg tttgggatct tctggaaccc
1141 ccctgatgtg tccagcttca tagcctcatt attgcctgat atgcacttac aaggaccgga
1201 agatctggct aaagacttga taccattggt attggggggt gtggggcttg caattgggtt
1261 caccaaggac aaagttacaa aggtcatgaa gagtgctgtt gaagggctca gggcagccac
1321 acaattaggc cagtatggcc tggagatatt tgcagtttta aagaaatatt tctttggtgg
1381 agaccaaaca gagaagacct taaaagatat tgagacagcc gtaattgaca tggaggttat
1441 ctcaacaact gctgttactc aactagtcag ggacaaacag gctgcccgga cctacatgaa
1501 catcttagat gctgaagaag agaaggcaag aaagctttca gttagacatg cagaccccca
1561 tgttgtgtcc acgaccaatg ccctgatctc acgtatttca ttggctcgct ccgcacttgc
1621 taaggcacaa gctgagatga ctaatagggt taaaccagta gtgataatga tgtgtggtcc
1681 cccaggtata ggcaagacaa aggcagccga gtaccttgct aagagattgg ccaatgagat
1741 acggcctgga ggaaaagtgg gcctcgtgcc aagggaggct gtggatcact gggatggata
1801 tcatggtgaa gaggttatgc tatgggatga ctatggtatg tctaagatag ctgatgactg
1861 taataaatta caggctatag ccgacacagc tccactcact ttgaactgtg accgaattga
1921 gaagaaaggg ttacaatttg tctctgatgc catagtgata acaacaaatg ccccaggacc
1981 agccccagtt gactttgtca atcttggccc ggtgtgtcgg cgggtagatt tcctggttta
2041 ctgcactgca cctgacgttg aacaaacacg tcgcactaac cctggagaca ccggagccct
2101 taaggattgc tttaaaagtg atttctctca tctaaaaatg gagttggctc cacagggcgg
2161 attcgacaat caaggaaaca ctccatttgg taaagggacc atgcggccta ccacattaaa
2221 ccgcctcctt atacaggccg tggcactaac catggagcgt caggatgagt tccagatgca
2281 aggtcaagtg tacgattttg atgctgacag gatctctgcc ttcaccagtt tagcaagagc
2341 caatggtttg ggtctcatta gcatggcctc tctaggaaag aaattaaggg gtgtggactc
2401 ggttcatggc ctcaagaatg cactatcagg ctataccata accccctgta gcataaagtg
2461 gcaagctagg gtatatgaca ttgaatcaga tggtaccaat gtacgcataa aggaaaacac
2521 ctcagcccag acacaacgcc agcaatcaat tgacacagca gccctagcac ttaccagact
2581 taaagcagca cgggcagcag catatgcagc ttgcatacaa agcgcaataa caactatcct
2641 gcagatggct gggtcagcca tcgttataaa tcgtgctgtt aaaaggatgt tcggtgcaca
2701 ctcgagcact atagcccttg aaggaccccc aagagaacat cggtgcaggg ctcacttagc
2761 taaggctgca ggtggtgggc caataggcca tgatgatgtc attgataagt atggcctatg
2821 tgagactgaa gaagagggta ccagtgagga gataaatgtg gagctaccca ccgccacttc
2881 cgaaggtaaa aacaaaggaa agaccaagaa aggaaggggc agaagggcca actacaatgc
2941 tttttcacgg cgcggcctga gtgatgagga gtatgaggag tataagaaga tcagggaaga
3001 aaagaatggc aactacagca ttcaggagta ccttgaagac aggcaacgct atgaagaaga
3061 gctcgcagaa gtgcaagctg gtggtgatgg aggcattggt gagacagaaa tggagatccg
3121 acataaaatc ttttacaagt ccaaaaaggg ccgccagaat gaacgccgcc aattagggct
3181 agtcactggt agtgatatca gaaagagaaa accaattgat tggacccccc ccaaaaacga
3241 ttgggcagat gataataggg aagtggacta caatgaaaaa ctcagttttg aagccccacc
3301 aaccctctgg agccgggttg tgagatttgg ctctgggtgg ggcttttggg tgagcccgac
3361 tgtttttatc accaccactc acgtcatacc atctggggcg cgtgaattct ttggggaacc
3421 cattgagtcc attgcaatcc atcgtgctgg tgaattcaca caattcagat tttcacacaa
3481 ggtccgccca gatctgactg gaatggtgct ggaggaaggc tgtcctgagg gtgtcgtgtg
3541 ttctattctc attaaacgtg actctggtga gctgctaccc cttgctgtcc gaatgggtgc
3601 tatagcgtcc atgaagattc agggaaggct agtgcatggt cagtctggga tgctgcttac
3661 tggagctaac gctaagggga tggatttagg taccctacca ggtgattgtg gtgcccctta
3721 tgtgtacaaa aggaataacg actgggtggt ttgtggcgta catgcagccg ctacaaagtc
3781 aggcaacact gtggtgtgtg ctgtccaggc tggagagggt gaaaccaccc tagagggtgg
3841 tgacaaaggc cactatgcag gccatgaaat aatcaagcat agtaagggcc cagctctatc
3901 cactaagacc aagttttgga ggtcaacccc tgaaccattg ccgccaggtg tttatgaacc
3961 agcatacctt gggggtcgtg atccaagggt aaaaggtggg ccctctctgc aacaggtctt
4021 gcgtgatcag ctgaaaccat ttgctgagcc gcgaggtcga atgccagagc ctggtctact
4081 tgaggcagct gttgaaactg tcacgtccat gcttgaacaa acaatggata caccaacccc
4141 ctggtctttc tctgatgcat gtcaatcact tgacaaaacc acaagttcgg gacacccata
4201 tcataagagg aagaatgatg attggaatgg aacttcattt gttggagagc ttggagaaca
4261 ggcagcacat gccaacaaca tgtacgaatt aggcaaatct atgaaaccac tatacactgc
4321 agccttaaaa gacgagttag tcaagcccga gaaagtttac caaaagatca agaagaggct
4381 tctctggggt gctgatctct caacagttat aagagctgcc agggcctttg gaccattttg
4441 tgatgctata aagccccatg tcattaaact ccccatcaaa gtcggtatga actccataga
4501 ggatggccca atgatttatg cagagcatgc aaaatataag aaccattttg atgcagatta
4561 ttcggcctgg gattccacgc aaaatagaca gattatgact gaatccttcg caatcatgtg
4621 ccgcctcacg gcatcaccgg aattggcttc tgttgtagct aaagatctac tagcgccttc
4681 agaaatggat gttggtgatt acatcatccg tgtaaaagaa ggcttgccat caggattccc
4741 ttgcacatca caggtgaaca gtataaacca ctggttgatc acactgtgtg ccatgtctga
4801 agtcacgggt ttgtcacccg atgtcataca atcccaatct tacttttctt tctatggtga
4861 tgatgagata gtctcaacag acattgactt tgaccccgct cgcctcaccc aagtgcttaa
4921 ggaatatggg ttgagaccca ccagaccaga caagtcagaa gggcccatca tactcagaag
4981 acaggtggat ggtcttgttt tcttaaggag gacaatttcc aaagatgctg caggctttca
5041 gggaaggcta gataggggct caattgaaag acagctgtgg tggacccggg gccctaacca
5101 tgatgacccc agtgaaactc tgatcccaca cccccagagg aaagttcagc ttatatccct
5161 tcttggagag gcctccctcc atggtgagaa gttttacagg aaaatctcca gtaaagtcat
5221 acaggagata aagaccggtg gcttagaaat gtatgtgcca ggttggcagg ccatgttccg
5281 ctggatgcgc ttccatgatc tcggattatg gacaggagat cgcaatctcc tgcccgaatt
5341 cgtgaatgat gatggcgtct aacgacgcta ttccaagcgc agatggcgcc actggcgccg
5401 gccagctggt accggaggtt aatacagctg accctatacc cattgaccct gtggctggct
5461 cctctacagc ccttgccact gcgggccaag ttaatttgat tgatccctgg ataatcaata
5521 attttgtgca agcccctcag ggcgagttca caatatcccc aaataatacc cccggtgatg
5581 tgctatttga tttgcagtta gggcctcatc tgaatccttt cctttcccat ctttctcaga
5641 tgtacaatgg ctgggtgggt aacatgcgag tacgcgttgt tttggctggt aatgctttta
5701 cagctggaaa ggttataatt tgttgtgttc cccctggctt tcaatctcgc actctttcca
5761 tagctcaggc tactctattt ccccatgtta ttgctgatgt taggaccctt gatcctgtag
5821 aagtgcccct tgaagatgtt aggaatgtat tgtatcacaa taatgacact caacctacca
5881 tgcgcctcct ttgcatgttg tacacccctc ttcgaactgg gggggcgtct ggtgggactg
5941 attcttttgt ggtagctggg cgtgtgctca cttgcccagg ccctgacttt aacttcttat
6001 tcctagttcc tcctacagtc gagcaaaaga ctcgcccttt tactgtgcct aatatccctt
6061 tgaagtatct gtctaattct aggatcccaa accctattga gggtatgtct ttgtcacctg
6121 accagaccca aaatgttcaa ttccagaatg gtaggtgtac aattgatggt cagcccctcg
6181 ggaccacacc tgtctcagtt agccagttat gtaagtttag gggtaggatt acatctggac
6241 agagggtgct caatttgaca gaattggatg gttcaccttt tatggccttt gccgctcccg
6301 cccccgcggg ctttccagat cttggatctt gtgattggca tattgaaatg agtaaaattc
6361 caaactccag cacccagaac aatccaatag tagttaattc tgtcaaaccc aatagtcaac
6421 agtttgtccc gcatttgtca agtatcaccc ttgatgataa tgtttctagt gggggtgact
6481 atattggcac tttacaatgg acctctcctc cttctgattc tggcggagcc aacacaaatt
6541 tttggaagat tcctgactat gggtctagtc tagcagaagc ctcacagctg gcccccgctg
6601 tctatccacc tggtttcaat gaggtgattg tgtactttat ggcatctata cctggcccca
6661 atcaatctgg ttcccccaat ttggtgccat gccttctccc ccaggaatat ataacacact
6721 ttatcagtga gcaggccccc attcagggtg aggctgcctt actccattat gtagacccag
6781 acaccaaccg taatttaggt gagttcaagt tgtatcctgg tggttatctg acttgtgttc
6841 ctaatagttc tagtacagga cctcaacagc ttcctcttga tggtgtgttt gtctttgctt
6901 cttgggtttc tagattttat caattaaagc ctgtgggaac agccggaccg gctagaggta
6961 ggcttggtgt ccgcagatga tggcccaagc cattatagga gccattgctg cctccgcggc
7021 tggcagtgcc ctgggtgctg gcatccaggc tggtgctgaa gctgcgttac aggcacagag
7081 atatcaacaa gatttgactt tacagcaaaa ttctttcaat catgataagg agatgttagg
7141 ttatcaagta gaaatgtcta ataagttatt agctaaaaat ctcaataccc gctattctct
7201 tctccaggcg ggtggtctct ccccctctga tgcggctagg gctgtggccg gggcccctgt
7261 cactaggttg gttgactggg gtggagttcg tgttgcggca cctcaatcat ctgccaccac
7321 actgagatct ggcaatttta tggcagtgcc actcccagcc cagccaaagc agaaacctct
7381 tgctagtgag ggatattcca atccagctta tgaccccatg cagcgtacag cttcttgggt
7441 tcaatcccaa aattccagcc ggaattggtc cccataccac aggcaagctc tccaaactgt
7501 gtgggtgacc ccccctggtt ccacctcttc ttcttctatt tcttctgttt ctactgcccc
7561 tcgagggtat tttaatacag atagattgcc tctgttcgca aacttgaggc gctaatgttg
7621 taataagatt agtgagcatc ctattcaaat tt
//