Typing tool
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Typing tool
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Complete norovirus genomes
| MZ265418 | GII.6 | |
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| GII.P7 |
ORF1: 5..5098
ORF2: 5079..6731
ORF3: 6731..7510
LOCUS MZ265418 7531 bp RNA linear VRL 26-MAY-2021
DEFINITION Norovirus GII isolate Hu/US/2012/GII.6[P7]/CA-RGDS-1118
nonstructural polyprotein (ORF1), VP1 (ORF2), and VP2 (ORF3) genes,
complete cds.
ACCESSION MZ265418
VERSION MZ265418.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7531)
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 (21-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..7531
/organism="Norovirus GII"
/mol_type="genomic RNA"
/strain="CA-RGDS-1118"
/isolate="Hu/US/2012/GII.6[P7]/CA-RGDS-1118"
/isolation_source="stool"
/host="Homo sapiens"
/db_xref="taxon:122929"
/country="USA"
/collection_date="14-Jan-2012"
/note="Amplicon sequencing: first 35 nt does represent
primer sequence;
genotype: GII.6[P7]"
gene 5..5098
/gene="ORF1"
CDS 5..5098
/gene="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="QVQ62902.1"
/translation="MKMASNDASAALGSQNSVNDSINTTPSNKEEAGAFSNIKVGFKK
MLGAVPKGTKAPSSDQHCPTVKIGPKTLTVPPEPPNGEDTVQFDAKSETVIGIPDLTT
VQNEHENTPYTVPPLSEREHRPATEPLPGTILEMWDGEFYHYSVYVSGGKALGVHKPP
AAISLATIELTPISLYWRPVYTPNYLVCPDTLKGLAGEKFPYTAFSNNCYNFCCWVLE
LNDTWLSRRSISRTTGFFKPYQSWNRKPLPTVDDGKIKKVANAILCALGSLFSKPIKD
LLGKLKPLNLLHLLASCDWTFAGIVETVILMAELFNVFWTPPDVSNFIASLIGDFELQ
GPEDLAVELVPVVMGGIGMVLGFTAEKIGRMLSSAASTLRACKDLGNYALDILKLVMK
WFFPKKEEKAEMETLRAIEDAVLDMEAIGNNHLTTLLKDKDSLTAFMKTLDLEEEKAR
KLSTKSSSPDIVGTINAILARIAAARSLLHKAKEEMFSRTRPVVVMISGRPGIGKTHM
ARHLAKNIANTMSGDQRVGLVPRNGVDHWDAYRGERVVLWDDYGMGNPVKDALTLQEL
ADTCPVTLNCDRIENKGKMFDSDVIIITTNLVNPAPLDYVNFEACSRRIDFLVYAESP
EIEKVKRDFPGQPDMWKDYFKQDFSHIKLTLAPQGGFDKNGNTPHGKGTMRSLTQGSL
TARVAGLVHERKDEFQLQGNDLQTYNFDTNRVSAFRKLAADNKYGIMETMRVGAALKN
VKTLEDLKVALRDVKFNECEIIYRNSKYRVSSNGKGSVSVDKVEDHTSQTANEVGSAL
LRLRQARARYYVSCFQDLVYTLIQVAGASFVVNRISKRFCWERWVKPTETQEASEPEK
EVAQGRWEIEPKDTEPEGKKGKNKKGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKY
SIEEYLQDRDRYYEEVAVARATEEDFCEEEEAKIRQRIFRPTRKQRKEERGVLGLVTG
SDIRKRRPDDFQPKGNLWADDTRSVDYNERLDFEAPPSVWSRIVPLGTGWGFWVSSNL
LITTTHVLPKGVKELFGVEVKQIQIHKSGEFCRFRFPRPIRPDVTGLVLEEGAPEGTV
CSILVKRPTGEMIPLAVRMGTHASMKIQGRTVGGQMGMLLTGANAKNMDLGTGPGDCG
CPYIYKRGNDIVVAGVHTAAARGGNTVICATQGQDGEAVLEGNEDLGTYCGAPILGPG
KAPKLSTKTKFWRSSPDALPPGTYEPAYLGGKDPRVEKGPSLQQVMRDQLKPFTEPRG
KPPRPAVLEEAKKTVMNVLEQTIDPAKPWTYSQACASLDKTTSSGSPHHVRKNDHWNG
ESFTGPLADQASKANLMYEQAKHVQPVYTAALKDELVKTDKIYKKIKKRLLWGSDLGT
MIRCARAFGGLMDSMKASCIALPCRVGMNMNEDGPIIFDKHSKYRYHYDADYSRWDST
QQRSILSAAMEVMVRFSAEPELAQVVAEDLLAPSQLDVGDFVISVQEGLPSGVPCTSQ
WNSIAHWILTLSAMAEVSGLSPDVVQAHSCFSFYGDDEIVSTDINLDPMKLTQKLREY
GLVPTRPDKTEGPLVITEDLTGLTFLRRSIARDPAGWFGKLDQDSILRQLYWTRGPNH
ENPYESMVPHSQRATQLMALLGEASLHGPQFYKKVSKMVINEIKSGGLEFYVPRQEAM
FRWMRFSDLSTWEGDRNLAPESVNEDGVE"
mat_peptide 5..1006
/gene="ORF1"
/product="p48"
mat_peptide 1007..2104
/gene="ORF1"
/product="NTPase"
mat_peptide 2105..2623
/gene="ORF1"
/product="p22"
mat_peptide 2624..3022
/gene="ORF1"
/product="VPg"
mat_peptide 3023..3565
/gene="ORF1"
/product="Pro"
mat_peptide 3566..5095
/gene="ORF1"
/product="RdRp"
gene 5079..6731
/gene="ORF2"
CDS 5079..6731
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="QVQ62903.1"
/translation="MKMASNDAAPSNDGAANLVPEANNEVMALEPVVGASIAAPVVGQ
QNIIDPWIRENFVQAPQGEFTVSPRNSPGEMLLNLELGPELNPYLSHLSRMYNGYAGG
MQVQVVLAGNAFTAGKIIFAAVPPHFPVDNISAAQITMCPHVIVDVRQLEPVLLPLPD
IRNRFFHYNQEDTPRMRLVAMLYTPLRANSGEDVFTVSCRVLTRPAPDFEFTFLVPPT
VESKTKPFTLPILTLGELSNSRFPAAIDMLYTDPNESIVVQPQNGRCTLDGTLQGTTQ
LVPTQICAFRGTLISQNARAADLTDSPQRARNHPLHVQVKNLDGTQYDPTDDIPAVLG
AIDFKGTVFGVASQRDVSGTQEQGHYATRAHEAHIDTTDPKYAPKLGTILIKSESTDF
TTNQPIRFTPVGMGDNNWRQWELPDYSGSLTLNMNLAPAVSPSFPGERILFFRSIVPS
AGGYGSGYIDCLIPQEWVQHFYQEAAPSQSAVALVRYVNPDTGRNIFEAKLHREGFLT
VANSGNNPIVVPPNGYFRFEAWVNQFYTLAPMGSGQGRRRAQ"
gene 6731..7510
/gene="ORF3"
CDS 6731..7510
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="QVQ62904.1"
/translation="MAGAFFAGLAGDVASNGIGSLINAGANAVNQKVEYDFNKQLQMA
SFKHDKEMLQSQVLATKQLQQEMMNIKQGMLTAGGFSPADAARGAVNAPMTKILDWNG
TRYWAPNSMKTTSYSGQFSSSPVHRSPAPLQHTAPSKSKLQSDSASVYSSPSTVSSQL
THSTVLSAGAGSSRSTPTSTATSTLSRTSDWVRGQNERLGPFMDGALQTTFVTPPSSK
ASSNGTVSTVPKAVLDSWTPMFNTHRQPLFAHLRRRGESQI"
ORIGIN
1 cgcgatgaag atggcgtcta acgacgcttc cgctgccctt ggcagtcaaa actctgtcaa
61 tgacagtatc aacaccaccc cttcaaacaa agaagaggct ggtgcattct ccaacatcaa
121 agttggattt aagaaaatgc tgggtgccgt acctaagggc actaaagcac ccagcagtga
181 ccagcactgt ccaacagtta agatcgggcc caaaacacta acagtccccc ctgaaccccc
241 aaatggtgaa gacactgtac agtttgatgc aaaatcggaa actgtaattg ggataccgga
301 tttgacaaca gtgcaaaatg aacatgaaaa taccccatac actgtccctc cactgagtga
361 gagggaacac agaccagcca ctgagccact tcctggcaca atattggaga tgtgggatgg
421 tgaattttac cactactccg tgtacgtcag cggcggcaaa gctctggggg ttcacaaacc
481 tccggcagct ataagtctcg cgacgataga gctcaccccc atatctctat actggaggcc
541 cgtttacacc cccaactacc tggtctgccc agacacactg aaaggtctcg ctggtgaaaa
601 gttcccctac acggccttca gcaacaattg ctacaacttc tgttgctggg tgcttgaact
661 caatgacacg tggcttagca gaagaagcat ttctagaacc accggcttct tcaaaccgta
721 ccagtcttgg aacaggaaac ctctcccaac cgttgatgat ggaaagatca aaaaggtggc
781 caacgcgatc ctttgtgcac tcggttcgct gttctcaaaa ccaatcaagg acctgctagg
841 caagctcaaa ccattgaact tactacacct gctagcgtcg tgtgattgga cgtttgcagg
901 tatagtggag acagtcatct taatggcaga actcttcaac gtcttttgga ccccgccaga
961 cgtctctaat tttatagcct ccctgatagg tgattttgaa ttacaggggc ctgaggactt
1021 ggcggtagag cttgttcctg tggttatggg tggtatagga atggttctcg gcttcacagc
1081 tgagaagata ggtcgcatgc tgtcgtccgc tgcatcaaca ctgcgggcgt gtaaagactt
1141 agggaactat gcccttgaca tacttaaatt ggtcatgaaa tggttcttcc caaagaaaga
1201 ggagaaagcc gagatggaaa ccttaagggc gattgaggat gccgtcctag atatggaggc
1261 cataggtaac aaccacctca cgaccctcct caaggataaa gacagtctca cggccttcat
1321 gaagaccttg gatctggaag aagagaaagc aaggaagctg tccaccaaat catcctcacc
1381 ggacatcgtc ggcactatca atgccatact ggctaggata gctgccgcta gatccctcct
1441 gcacaaagcc aaagaagaaa tgttcagcag gaccagacca gtggttgtta tgatctcagg
1501 cagacctggc attggcaaaa ctcatatggc gagacatctg gctaaaaaca tcgccaacac
1561 catgagtggt gaccaaagag tagggctcgt tccgcgcaac ggggttgacc actgggacgc
1621 ttacagagga gagagggtgg tcttgtggga tgattatgga atggggaacc ctgtcaaaga
1681 tgctttaaca ctacaagagc tagctgacac ttgcccagtc actctaaact gtgacaggat
1741 cgagaacaag ggaaaaatgt tcgacagtga tgtcatcata atcacgacca acctagtcaa
1801 ccctgcacct ctcgattatg tgaacttcga ggcgtgctct agaaggattg atttcttggt
1861 ctatgcagag tcaccagaaa ttgagaaggt taagagagat ttccctggcc aacctgacat
1921 gtggaaagac tatttcaaac aagacttttc ccatataaag ctaaccctag ccccccaagg
1981 cggatttgac aagaatggta acaccccgca tggtaagggc accatgcgat ccctcaccca
2041 ggggtccctg accgcaaggg ttgcaggcct tgttcatgag agaaaggatg agttccagct
2101 acaagggaat gacctccaga catacaactt tgataccaac agggtctctg cgttcaggaa
2161 actggctgca gacaacaagt atggaatcat ggaaacaatg agagtgggtg cagcgctcaa
2221 aaatgtcaaa actttggaag atctgaaggt cgccttgaga gatgtaaagt ttaatgagtg
2281 tgaaataatt tacaggaact ctaagtaccg ggtctcttcc aacggcaagg gctctgtttc
2341 tgttgacaaa gttgaggacc acacgtctca gactgcaaat gaagtgggct cagcactcct
2401 cagacttagg caagcaaggg ctagatatta tgtcagctgc ttccaagacc tcgtctacac
2461 tctcatacag gttgctgggg catcattcgt tgtcaacagg atctctaaaa ggttctgctg
2521 ggaaaggtgg gtaaaaccaa ccgaaaccca agaagcgagt gagcccgaaa aggaagtagc
2581 tcaaggtaga tgggagatag agcccaagga cacagaacca gaaggcaaga agggtaagaa
2641 caagaaaggg agaggcaaga aacacacagc cttctccagc aaaggcctga gtgatgaaga
2701 gtatgatgag tacaagagaa tcagagaaga gaggaacgga aaatactcca ttgaggaata
2761 cctgcaagac cgggaccgct actatgaaga agtggcagtt gcccgagcaa cggaagagga
2821 cttttgtgaa gaagaagaag ccaagataag acaaagaatc ttccgcccga caaggaagca
2881 aagaaaagag gaaagggggg tacttggctt agtcactggt tcagatatca ggaagaggag
2941 accagacgat tttcaaccaa aaggcaacct gtgggcagat gacactagga gtgtggacta
3001 caatgagaga cttgactttg aggctccacc aagcgtctgg tcaagaatag tcccattggg
3061 cactggttgg ggcttctggg tttcatcaaa cctcctgatc acaacaacac acgtcctgcc
3121 caagggggtc aaggaactct ttggggtcga agtcaaacaa attcaaatcc acaagtctgg
3181 agagttctgc aggtttaggt tcccaagacc aatcaggcca gatgtcacag gactcgtgtt
3241 ggaggaaggt gctcctgaag gtactgtctg ttctatactc gttaagaggc ctacaggtga
3301 gatgatcccc ctagcagtga ggatgggcac gcatgcgtcc atgaaaatac agggtaggac
3361 cgtcggtggt cagatgggaa tgcttctcac aggggcaaat gcaaagaaca tggatcttgg
3421 caccggtcct ggcgactgcg gttgtcctta catctataag cgtggcaacg acatagttgt
3481 cgcgggtgtc cacaccgcag cagcccgagg gggcaacact gtcatttgtg ccacccaagg
3541 acaagacgga gaggcagtcc ttgagggaaa tgaagacctc ggtacctact gtggtgctcc
3601 aattctgggc cctggtaaag cgcctaaact cagcacaaaa actaaatttt ggcgctcatc
3661 accagatgcc ctacctcctg gtacgtatga gcctgcttat ctggggggta aggatcccag
3721 agtggaaaag gggccctccc tacagcaagt tatgagagac cagctgaaac cattcacaga
3781 gcccaggggc aaaccaccta gaccagcagt tttagaagag gctaaaaaga cagtgatgaa
3841 cgttctagaa cagaccattg accctgctaa accatggact tactcacaag catgtgcttc
3901 actggacaag accacttcta gtggaagccc ccaccatgtc aggaaaaatg accactggaa
3961 tggggagtct tttactggtc ccctcgcgga ccaagcatcc aaagccaacc tcatgtatga
4021 acaggcaaag catgtgcagc ccgtgtacac ggccgcgctc aaagatgaac ttgttaagac
4081 tgataagatc tacaagaaaa taaagaagag acttctatgg gggtcagacc ttggcacgat
4141 gatcaggtgt gccagggctt ttggcggcct tatggacagt atgaaagcaa gttgtatagc
4201 ccttccatgc agggtgggga tgaacatgaa tgaggatggc cctatcatat ttgacaaaca
4261 ctccaagtat aggtaccact atgatgctga ctactctagg tgggactcaa cccagcagag
4321 gagcattctt tccgccgcca tggaggtgat ggtgaggttc tctgctgaac cagaattggc
4381 acaagtggtc gcagaggacc ttttagcgcc tagccagcta gatgttggcg attttgtcat
4441 ctcagtccag gagggcctgc catcaggagt cccatgtacg tcgcaatgga attcaatagc
4501 gcactggatt ctaactctga gcgcaatggc agaagtgtca ggtctctcac cagacgttgt
4561 ccaagcccac tcctgtttct cattttatgg cgacgatgag atcgtcagca ctgacatcaa
4621 ccttgacccc atgaaattga cacagaaact cagggagtat ggtctggtcc ccacccggcc
4681 tgataagact gaaggccccc tcgttataac tgaagacctc accggcctga cattcctgcg
4741 cagatcgatt gcacgggatc cagctggatg gtttggaaaa ttggatcaag actcaatcct
4801 caggcaatta tactggacaa gggggcccaa tcatgaaaac ccatacgaga gcatggttcc
4861 ccactcccag cgagctactc agctcatggc ccttcttggt gaggcttcat tgcatggtcc
4921 ccagttttac aagaaagtta gcaagatggt catcaatgag attaagagtg gtggtctgga
4981 gttttatgtg cccagacaag aggccatgtt taggtggatg agattctctg acctcagcac
5041 atgggagggc gatcgcaatc ttgctcccga gagtgtgaat gaagatggcg tcgaatgacg
5101 ccgctccatc aaatgatggt gctgccaacc tcgtaccaga ggccaataat gaggttatgg
5161 cacttgaacc ggtggtggga gcttcaatcg cagctcctgt tgtcggtcag cagaatataa
5221 ttgacccctg gattagagaa aattttgttc aagcaccaca gggcgagttt actgtttcac
5281 caaggaactc gcccggtgag atgcttctaa atcttgaatt gggcccagaa cttaatccct
5341 atttgagtca tttgtcccgc atgtacaatg ggtatgctgg tggcatgcag gttcaggtgg
5401 tcctagctgg gaatgcgttc acagctggga agatcatctt tgccgctgtg ccaccacact
5461 tccctgtgga taatattagt gcagcccaga taactatgtg tccccatgtg attgttgatg
5521 tgagacagct tgaaccagtg cttctacccc tccccgatat aaggaacagg ttcttccatt
5581 acaaccagga agacaccccc cggatgaggc ttgtggccat gctctacacg cctctaaggg
5641 ctaattccgg agaggatgtg ttcactgtgt cctgtagggt tctgactcgc cctgctccag
5701 attttgaatt tacattctta gttccaccaa ctgttgaatc aaaaacaaaa ccctttactc
5761 tacctattct aacccttggt gagctgtcta attcccgttt tcctgctgcc atagatatgc
5821 tttacactga tcccaatgaa tcaatagttg ttcagcccca aaatggtaga tgtacccttg
5881 acggcacgct gcaaggcaca acacaattgg tcccaacaca gatttgtgcc tttagaggta
5941 ctctgatcag tcagaatgcg agagcggccg atttaacaga ttccccccag agagcccgta
6001 atcacccgtt gcacgtccag gtcaagaacc tagatggcac acagtatgac ccaacagatg
6061 acatccctgc agtcctgggg gctattgact tcaaaggtac agtgttcgga gtggcaagtc
6121 agagggacgt ctctggaaca caagaacagg gccattatgc cacccgggct catgaagcac
6181 acattgacac aactgatcca aagtatgcac ctaaattagg cacaattctc atcaaatctg
6241 aatctactga tttcaccaca aatcagccca ttaggttcac tccagtgggc atgggcgaca
6301 acaattggag acagtgggaa ttgcctgact attctggtag tttgactcta aatatgaacc
6361 ttgcccctgc tgtttcccca tctttccctg gtgaacgaat ccttttcttt aggtctatag
6421 taccatcagc tggaggctac gggtctggct atatagactg tctcataccc caggaatggg
6481 tgcaacattt ctaccaggag gcagcacctt cacaatccgc tgttgcactg gttaggtatg
6541 tcaaccccga cactgggcgt aacatctttg aggccaagtt gcacagagaa gggttcctca
6601 ccgtggccaa ttctggaaac aatcctattg tggttccccc taatggttat tttagatttg
6661 aggcttgggt taatcaattc tatacacttg cccccatggg atctggacag gggcgtagaa
6721 gagctcagta atggctggag ccttcttcgc agggttagca ggtgatgtcg cgtcgaacgg
6781 catcggttcc ctcatcaatg caggtgctaa tgcagtcaat caaaaggttg agtatgattt
6841 taataagcaa cttcagatgg catcattcaa acatgataag gagatgttac aatcacaggt
6901 gttggcaacc aaacaactgc agcaggagat gatgaacata aagcagggga tgttgaccgc
6961 tggcggcttt tctcctgcgg acgctgctag aggggctgtt aacgctccaa tgacaaaaat
7021 actggactgg aatggcacaa gatattgggc acctaacagc atgaaaacca caagctactc
7081 aggacaattc tctagtagcc ctgtccacag gtctcctgct cccctccagc atactgcccc
7141 atcaaaaagt aagttgcaaa gtgattctgc tagtgtgtat agctccccat ccactgtttc
7201 ttcacaatta actcattcaa cagtgttgtc tgcaggagct gggtcgtcca gatccacccc
7261 cacgtccaca gcaacctcca ccctgtctag gaccagcgac tgggttagag gacagaatga
7321 aaggcttggc ccgtttatgg atggtgctct ccaaactact tttgtcacac caccatcgag
7381 caaagcttca tcaaatggga cagtctcgac cgtgcccaaa gctgttttgg actcctggac
7441 tcctatgttc aacacgcata ggcagcctct cttcgcccac ttgcgtaggc gaggggagtc
7501 acagatttag tgaaaagagt gattaggctt t
//