Typing tool
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Typing tool
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Complete norovirus genomes
| MT731279 | GII.6 | |
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| GII.P7 |
ORF1: 5..5098
ORF2: 5079..6722
ORF3: 6722..7501
LOCUS MT731279 7561 bp RNA linear VRL 13-JUL-2020
DEFINITION Norovirus GII isolate Hu/US/2018/GII.6[P7]/CA-RGDS-1095, complete
genome.
ACCESSION MT731279
VERSION MT731279.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7561)
AUTHORS Pan,C.-Y., Huynh,T., Padilla,T., Montmayeur,A.M., Chhabra,P.,
Barclay,L., Vinje,J. and Morales,C.
TITLE Direct Submission
JOURNAL Submitted (07-JUL-2020) Viral and Rickettsial Disease Laboratory,
California Department of Public Health, 850 Marina Bay Parkway,
Richmond, CA 94804, USA
COMMENT ##Assembly-Data-START##
Assembly Method :: SPAdes v. 3.6; Geneious v. R10
Sequencing Technology :: Illumina
##Assembly-Data-END##
FEATURES Location/Qualifiers
source 1..7561
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="Hu/US/2018/GII.6[P7]/CA-RGDS-1095"
/isolation_source="stool"
/host="Homo sapiens"
/db_xref="taxon:122929"
/country="USA: California"
/collection_date="Jan-2019"
/note="genotype: GII.6[P7]"
gene 5..5098
/gene="ORF1"
CDS 5..5098
/gene="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="QLD99997.1"
/translation="MKMASNDASAAFGSQNSVNDSTNTAPSNKEEVGALSNIKVGFKK
ILGAVPKGTKAPSSDQLCPTVKIGTKTLTVPPEPPNGEDTVQFDAKSETVRGLPDLTT
VQNEHENTPYTVPPLSEREHRPATEPLPGTILEMWDGEFYHYSVYVSGGKALGVHKPP
AAISLATIELTPISLYWRPVYTPNYLVCPDTLKGLAGEKFPYTAFSNNCYNFCCWVLE
LNDTWLSRRSISRTTGFFKPYQSWNRKPLPTVDDGKIKKVANAILCALGSLFSKPIKD
LLGKLKPLNLLHLLASCDWTFAGIVETVILMAELFNIFWTPPDVSSFIASLIGDFELQ
GPEDLAVELVPVVMGGIGMVLGFTAEKIGRMLSSAASTLRACKDLGNYALDILKLVMK
WFFPKKEEKAEMETLRAIEDAVLDMEAIGNNHLTTLLKDKDSLTAFMKTLDLEEEKAR
KLSTKSSSPDIVGTINAILARIAAARSLLHKAKEEMFSRIRPVVVMISGRPGIGKTHM
ARHLAKSIANTMSGDQRVGLVPRNGVDHWDAYRGERVVLWDDYGMGNPVKDALTLQEL
ADTCPVTLNCDRIENKGKMFDSDVIIITTNLVNPAPLDYVNFEACSRRVDFLVYAESP
EIEKVKKDFPGQPDMWKDHFKPDFSHIKLTLAPQGGFDKNGNTPHGKGTMRSLTQGSL
TARVAGLVHERRDEFQLQGNDLQTYNFDTNRVSAFRKLAADNKYGIMETMRVGKALKS
VKTLEDLKVALRDVKFNECEIIYRNSRYRVSSNGKGSVSVDKVEDQTSQTANEVGAAL
LRLRQARARYYVSCFQDLVYTLIQVAGASFVVNRISKRFCWERWVKPTETQETSESEK
EVAQGRWEIEPKDTEPEGKKGKNKKGRGKKHTAFSSKGLSDEEYDEFKRIREERGGKY
SIEEYLQDRDRYYEEVAVARATEEDFCEEEEAKIRQRIFRPTKKQRKEERGVLGLVTG
SDIRKRRPDDFQPKGNLWADDTRSVDYNERLDFEAPPSVWSRIVPLGTGWGFWVSSNL
LITTTHVLPKGIKELFGVEVKQIQIHKSGEFCRFRFPRPIRPDVTGLVLEEGAPEGTV
CSILVKRPTGEMIPLAVRMGTHASMKIQGRTVGGQMGMLLTGANAKNMDLGTGPGDCG
CPYIYKRGNDIVVAGVHTAAARGGNTVICATQGQDGEAVLEGNENLGTYCGAPILGPG
KAPKLSTKTKFWRSSPDALPPGTYEPAYLGGKDPRVEKGPSLQQVMRDQLKPFTEPRG
KPPRPAVLEEAKKTVMNVLEQTIDPAKPWTYSQACASLDKTTSSGSPHHVKKNDHWNG
ESFTGPLADQASKANLMYEQAKHVQPVYTAALKDELVKTDKIYKKIKKRLLWGSDLGT
MIRCARAFGGLMDSMKASCITLPCRVGMNMNEDGPIIFDKHSKYRYHYDADYSRWDST
QQRSILSAAMEVMVRFSAEPELAQVVAEDLLAPSQLDVGDFVISVQEGLPSGVPCTSQ
WNSIAHWILTLSAMAEVSGLSPDVIQAHSCFSFYGDDEIVSTDINLDPMKLTQKLREY
GLVPTRPDKTEGPLVITEDLTGLTFLRRSIARDPAGWFGKLDQDSILRQLYWTRGPNH
ENPYESMVPHSQRATQLMALLGEASLHGPQFYKKVSKMVINEIKSGGLEFYVPRQEAM
FRWMRFSDLSTWEGDRNLAPEGVNEDGVE"
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..6722
/gene="ORF2"
CDS 5079..6722
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="QLD99998.1"
/translation="MKMASNDAAPSNDGAANLVPEANNEVMALEPVVGASIAAPVVGQ
QNIIDPWIRENFVQAPQGEFTVSPRNSPGEMLLNLELGPELNPYLSHLSRMYNGYAGG
MQVQVVLAGNAFTAGKIIFAAVPPHFPVENISAAQITMCPHVIVDVRQLEPVLLPLPD
IRNRFFHYNQENTSRMRLVAMLYTPLRANSGEDVFTVSCRVLTRPAPDFEFTFLVPPT
VESKTKPFTLPILTLGELSNSRFPAPIDMLYTDPNEGIVVQPQNGRCTLDGTLQGTTQ
LVPTQICAFRGTLIGQTSRSSDSTDSAPRRRDHPLHVQLKNLDGTQYDPTDEVPAVLG
AIDFKGTVFGVASQRDVSGGQVGATRAHEVHINTTDPRYTPKLGSILMHSESDDFVTG
QPVRFTPIGMGDNDWHQWELPDYSGHLTLNMNLAPAVAPAFPGERILFFRSIVPSAGG
YGSGQIDCLIPQEWVQHFYQEAAPSQSAVALIRYVNPDTGRNIFEAKLHREGFITVAN
SGNNPIVVPPNGYFRFEAWVNQFYTLTPMGTGQGRRRNQ"
gene 6722..7501
/gene="ORF3"
CDS 6722..7501
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="QLD99999.1"
/translation="MASAFLAGLAGDVITNGVGSLINAGANAVNQKVEYDFNKQLQMA
SFKHDKEMLQSQVLATKQLQQEMMNIRQGVLTAGGFSPADAARGAVNAPMTKILDWNG
TRYWAPNSMKTTSYSGQFSSSPVHKSPAPPQHVVSSKSRLQNDSASVYSSPSSVSSQS
THSTVLSAGTGSSRSISTSTATPTLSRTSDWVRGQNERLSPFMDGALQTAFVTPPSSK
ASSNGTVSTVPKAVLDSWTPMFNTHRQPLFAHLRRRGESQV"
ORIGIN
1 gtgaatgaag atggcgtcta acgacgcttc cgctgccttt ggcagccaaa actctgtcaa
61 tgacagtacc aacaccgccc cttccaacaa agaagaggtt ggtgcgttat ccaacatcaa
121 agttggtttt aagaaaatac tgggtgccgt tcccaaagga actaaagcac ccagtagtga
181 tcagctctgc cccacagtta agatcgggac caagacatta acagttcccc ctgagccccc
241 aaatggtgaa gacaccgtac agtttgatgc gaaatcggaa accgtgcgtg ggctaccaga
301 cttgacaacg gtgcaaaatg aacacgaaaa cacaccatat actgtccccc cattgagtga
361 aagggagcac agaccagcca ccgagccgct tcctggcaca atattggaga tgtgggatgg
421 tgaattctac cattactctg tgtacgtcag cggtggcaaa gccctggggg ttcacaagcc
481 ccctgcagcg ataagcctcg cgacgataga gctcacaccc atatctcttt attggaggcc
541 cgtttacacc cccaactacc tggtctgtcc agacacgttg aaaggcctcg ctggtgagaa
601 gttcccctac acggccttca gcaacaattg ttacaacttc tgttgctggg tgcttgagct
661 caatgacacg tggcttagca ggagaagcat ctccaggacc accggcttct tcaaaccata
721 tcagtcttgg aataggaagc ccctcccaac cgttgatgat ggaaagatca aaaaggtggc
781 caacgcaatt ctctgcgctc ttgggtcatt gttttcaaaa ccaatcaagg acctattggg
841 caaacttaaa ccattgaact tgctgcacct actcgcatca tgtgattgga cgtttgcggg
901 tatagtagag acagtcatcc taatggcgga acttttcaac atcttttgga caccgccaga
961 tgtttccagt ttcatagcct ccctaatagg tgattttgaa ctgcaagggc ctgaggatct
1021 ggctgtggag cttgtccccg tggtcatggg tggcatagga atggttctcg gctttactgc
1081 cgagaagata ggccgcatgc tgtcgtcagc tgcatcaacg ctgcgggcat gcaaagactt
1141 ggggaattat gcccttgaca tattgaaact ggttatgaag tggttcttcc caaagaagga
1201 agagaaagcc gagatggaga ccctaagagc gattgaggat gccgtcctag acatggaagc
1261 tataggaaac aaccatctca caaccctcct caaggacaag gatagcctca cggctttcat
1321 gaaaactctg gatctagaag aggagaaggc aaggaagctg tccaccaaat catcttcgcc
1381 agacatcgtc ggcactatta atgccatact ggccaggata gctgccgcca ggtccctctt
1441 acacaaggcc aaagaagaaa tgtttagtag gatcagacct gtggttgtca tgatctcggg
1501 cagacctggc attggcaaaa cccacatggc aagacacttg gctaagagta tcgccaacac
1561 catgagcggt gaccagagag tagggctcgt cccacgcaac ggagtcgatc actgggacgc
1621 ctacagggga gagagggtgg tcttgtggga tgattatggc atgggaaacc ctgtcaaaga
1681 tgccctgaca ctgcaagaac tggctgacac ctgcccagta actctaaact gtgatagaat
1741 tgagaacaag gggaagatgt tcgacagtga tgtcatcata atcacgacta atttagtcaa
1801 cccagcgccc ctcgattatg tgaacttcga ggcgtgctct agacgggtcg actttttggt
1861 ctatgcggag tcaccagaaa ttgagaaggt taagaaagat ttccccggcc aacctgacat
1921 gtggaaagac cattttaagc cagacttttc ccacataaaa ctgactctag ccccacaggg
1981 tggatttgac aagaatggca acaccccgca tggtaagggc accatgcgat ccctaaccca
2041 ggggtccctg actgcaaggg tcgcaggcct tgttcatgag aggagagacg agtttcagct
2101 ccaggggaat gaccttcaaa catacaactt cgataccaac agggtctctg catttaggaa
2161 gctggccgca gacaacaagt acgggatcat ggagacgatg agagtgggca aagcgcttaa
2221 gagtgtcaag accctggagg acctgaaagt tgccctgagg gatgtgaaat tcaatgagtg
2281 tgagataatt tacaggaact ccagatatcg agtctcttcc aatggtaaag gctctgtctc
2341 tgttgataaa gtcgaggacc aaacatccca gactgcaaac gaagtgggtg cagcactcct
2401 caggcttagg caggcaagag ccagatacta tgtcagctgc ttccaagatc ttgtctacac
2461 cctaatacag gtcgccggag catcattcgt tgtcaacagg atctctaaga ggttttgctg
2521 ggagagatgg gtcaaaccaa ccgagaccca ggaaacgagt gaatccgaaa aggaagtagc
2581 ccaaggcaga tgggagattg aacccaaaga cacagaacca gaaggtaaga agggtaagaa
2641 caagaaagga agaggcaaga agcacacagc tttctccagc aaaggcctta gtgatgagga
2701 gtatgacgag tttaagagaa ttagagaaga aaggggcgga aaatactcca ttgaggaata
2761 cctgcaagac cgggatcgct actatgagga agtggcagtt gcccgggcga cagaggagga
2821 cttctgtgaa gaggaggagg caaaaataag acaaagaatc tttcgcccca caaagaaaca
2881 gaggaaggaa gaaagggggg tgcttggttt ggtcactggc tcagacatca ggaagaggag
2941 accagacgat tttcaaccaa agggcaacct gtgggcagac gacaccagga gtgtggatta
3001 caacgagagg cttgatttcg aagctccccc gagtgtctgg tctagaatag tcccattggg
3061 tactggctgg ggcttctggg tctcatccaa cctcctgatc acaacaacac acgtcctgcc
3121 caaggggatt aaggaacttt ttggagttga agtcaaacag atccaaattc acaagtctgg
3181 agagttctgc aggttcagat tcccaagacc aatcagacca gatgtcacag ggctcgtgtt
3241 ggaggagggt gctccagaag gcactgtctg ctccatactc gtgaagagac caacaggtga
3301 gatgatccct ctggcagtga ggatgggcac gcatgcatcc atgaaaatac agggtagaac
3361 cgtcggtggt cagatgggaa tgcttctcac aggggcaaat gcgaagaaca tggatcttgg
3421 caccggccct ggtgactgcg gttgtcctta catctacaag cgtggcaatg atatagttgt
3481 cgcgggtgtc cacaccgcag cagcccgggg aggcaacact gtcatatgtg ccactcaagg
3541 gcaagacggg gaggcagtcc tagagggaaa tgagaacctt ggaacttact gcggtgcccc
3601 aattttgggt ccaggcaagg cgcccaaact tagcacaaag accaagttct ggcgctcgtc
3661 accagacgct ctgccgccag gcacttatga gcctgcctac ttgggaggca aggaccctag
3721 agtagaaaaa ggaccatccc tacagcaagt catgagagac cagctaaaac ctttcacaga
3781 acccaggggc aagccaccta gacctgcagt cttagaagaa gccaaaaaga cagtgatgaa
3841 tgttctagaa caaaccattg accctgctaa gccatggacc tattcccaag catgcgcctc
3901 actggacaag accacctcca gtggtagccc ccatcatgtc aagaaaaatg accattggaa
3961 tggggaatcc tttactggtc cccttgcaga ccaagcatcc aaagccaacc tcatgtacga
4021 gcaggccaaa catgtgcagc ccgtgtacac ggccgcactc aaagatgagc tagtcaagac
4081 tgacaagatc tataagaaga taaagaaaag gctcttatgg gggtcggatc ttggtacaat
4141 gatcaggtgc gccagggcct ttggtggtct catggatagc atgaaggcaa gttgcataac
4201 cctcccatgt agggtgggaa tgaacatgaa tgaagatggt cccatcatat ttgacaaaca
4261 ctctaagtat aggtaccatt atgatgctga ctattccagg tgggactcaa cccagcaaag
4321 gagcattctc tcggccgcta tggaagtgat ggtgcggttc tctgccgaac cagagctggc
4381 acaagtggtt gcagaggacc tcctggcacc cagccaacta gatgttggcg actttgtcat
4441 ctcagttcag gagggtctgc cgtcaggggt accatgcaca tcacaatgga attcaatagc
4501 acattggatc ctaactttga gtgcaatggc agaagtgtcg ggtctctcac cagatgttat
4561 tcaagcccat tcctgtttct cattctacgg tgatgatgag atcgtcagca ctgacatcaa
4621 ccttgatccc atgaagttga cacagaagct cagggagtat ggcctggtcc ctactcgacc
4681 tgacaaaact gagggtcccc ttgtaataac tgaagatctc accggcctaa cgttcctgcg
4741 taggtcaatt gcacgggatc cagctgggtg gtttggaaaa ttagaccaag actcaatcct
4801 caggcaattg tactggacaa ggggccccaa ccatgagaac ccatatgaga gcatggtccc
4861 tcattcccag cgggccacac agcttatggc ccttctcggt gaggcttcac tgcatggccc
4921 ccagttttac aagaaggtca gcaagatggt cattaacgaa atcaaaagtg gtggtctgga
4981 attctatgtg cccagacaag aggccatgtt cagatggatg agattctctg acctcagcac
5041 atgggagggc gatcgcaatc ttgctcccga aggtgtgaat gaagatggcg tcgaatgacg
5101 ctgctccatc gaatgatggt gctgccaacc tcgtaccaga ggccaacaat gaggttatgg
5161 cacttgagcc ggtggtgggg gcttcaatcg cagctcctgt cgtcggccaa caaaacataa
5221 ttgacccctg gattagagaa aattttgttc aagcaccaca gggtgagttc accgtctcgc
5281 caaggaactc gcctggtgag atgctattaa atcttgaatt aggcccagaa ctcaaccctt
5341 acctaagtca cctgtcccgt atgtataatg ggtatgctgg tggcatgcag gttcaggtgg
5401 tcctagctgg gaatgcgttc acagctggga aaatcatctt tgccgctgtg ccaccacatt
5461 tccccgtgga aaatatcagt gcagctcaaa taactatgtg cccccatgtg attgttgatg
5521 tgagacaact tgagccagta ctcctacccc ttcctgatat aaggaatagg ttctttcatt
5581 acaatcagga gaacacttcc cggatgagac ttgtggccat gctttacacc cccctgaggg
5641 ccaactctgg tgaagatgtg tttactgtct cttgtagggt cttaacccgt cctgcccctg
5701 attttgaatt tactttcttg gtgccgccaa ctgttgaatc aaagactaaa ccttttacat
5761 tacctatatt aactcttggt gagctatcta attccagatt tccagcccca atagatatgt
5821 tgtacactga tccaaatgag ggaattgtgg tccaaccaca aaatggtagg tgcactcttg
5881 atggcacttt gcaaggcacc acacaactgg tccccaccca aatttgtgct ttcaggggca
5941 cactaattgg ccaaacatca agatcttcag actcaaccga ctcagcccct cggaggaggg
6001 atcacccact ccatgtgcaa ttaaagaacc ttgatggcac gcagtatgac cctactgatg
6061 aagtgccagc agtcctcggt gccattgatt ttaaggggac tgtttttggg gtggccagtc
6121 agagggacgt gtcaggaggt caggtgggag caactcgagc ccatgaagtg cacatcaaca
6181 caaccgatcc taggtataca ccaaaactag ggtccattct catgcactca gagtcggatg
6241 acttcgtgac tggacagccg gtccgcttca cacccatagg aatgggcgac aacgactggc
6301 accagtggga gctgcccgac tattctggac acctaaccct aaacatgaac cttgccccag
6361 cagttgctcc tgcattcccg ggtgagagga ttcttttctt cagatcaatt gtcccgtctg
6421 ctggtggcta cggctctggg caaatagatt gcctcatacc acaggagtgg gttcagcatt
6481 tctaccaaga agctgcacca tcccaatctg ccgtggcact catcaggtat gtcaaccctg
6541 acacaggcag aaacatcttt gaggctaaat tgcataggga aggtttcatc acagtggcta
6601 attctggcaa caaccccatt gttgttcccc ctaatgggta ttttaggttt gaggcttggg
6661 tgaatcaatt ttacactttg acccccatgg gaactggtca ggggcgtagg aggaatcaat
6721 aatggccagt gcttttcttg caggtcttgc tggtgacgtc ataacaaatg gcgttggatc
6781 tctaataaat gctggtgcta atgcagttaa tcaaaaagtt gaatatgatt ttaataaaca
6841 gcttcaaatg gcatcattta aacatgataa agagatgttg caatcacaag tgttggcaac
6901 caagcagttg cagcaggaga tgatgaacat taggcagggg gtgttgaccg ctggcggctt
6961 ctcccccgcg gatgctgcta gaggggctgt caatgcccca atgacaaaga ttctggactg
7021 gaatggcacc aggtattggg caccaaacag catgaaaacc acaagttatt caggacagtt
7081 ttctagcagc cccgttcaca agtctcctgc tcctccccag catgttgttt catcaaagag
7141 tagattgcaa aatgattctg ctagtgtata tagttctcct tcttccgttt cttcacaatc
7201 aacccattca acagtgctat cagcaggaac tgggtcctcc aggtccatct ccacatctac
7261 agctaccccc accttgtcta ggaccagtga ctgggttagg ggacagaatg agaggcttag
7321 cccgttcatg gatggtgctc tccaaaccgc ctttgtcaca cctccatcga gtaaagcttc
7381 ttcaaatggt acggtctcaa ccgttcccaa agctgttttg gactcctgga cccctatgtt
7441 taacacacat aggcagcctc tcttcgccca tctacgcagg cgaggggagt cacaagttta
7501 gtgaaaagag tgatcaggtt ttctcccttt ttcttttctc tcttttaaaa aaaaaaaaaa
7561 a
//