Typing tool
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Typing tool
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Complete norovirus genomes
| OP690425 | GII.6 | |
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| GII.P7 |
ORF1: 5..5098
ORF2: 5079..6728
ORF3: 6728..7507
LOCUS OP690425 7560 bp RNA linear VRL 25-OCT-2022
DEFINITION Norovirus GII isolate Hu/US/2022/GII.6[P7]/CA-RGDS-1156, complete
genome.
ACCESSION OP690425
VERSION OP690425.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7560)
AUTHORS Pan,C.-Y., Hatada,A., Morales,C., Wagner,J., Montmayeur,A.M.,
Chhabra,P. and Vinje,J.
TITLE Direct Submission
JOURNAL Submitted (20-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..7560
/organism="Norovirus GII"
/mol_type="genomic RNA"
/strain="CA-RGDS-1156"
/isolate="Hu/US/2022/GII.6[P7]/CA-RGDS-1156"
/isolation_source="stool"
/host="Homo sapiens"
/db_xref="taxon:122929"
/country="USA: UT"
/collection_date="Feb-2022"
/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="UYL33170.1"
/translation="MKMASNDASAAFGSQNSVNDSFNTAPSKKEEVGAFSNIKVGFKK
MLGAVPKGTKAPSNDQHCPTVKIGTKTLTVPPEPPNGEDIVQFDAKSETVLGLPDLTT
VQNEHENTPYSVPPLSEREHRPATEPLPGTILEMWDGEFYHYSIYVSGGKALGVHKPP
AAISLATIELTPISLYWRPVYTPNYLVCPDTLKGLAGEKFPYTAFSNNCYNFCCWVLE
LNDTWLSRRSISRTTGFFKPYQSWNRKPLPTVDDGKIKKVANAILCALGSLFSKPIKD
LLGKLKPLNLLHLLASCDWTFAGIVETVILMAELFNIFWTPPDVSNFISSLIGDFELQ
GPEDLAVELVPVVMGGIGMVLGFTAEKIGRMLSSAASTLRACKDLGNYALDILKLVMK
WFFPKKEEKAEMETLRAIEDAVLDMEAIGNNHLTTLLKDKDSLTAFMKTLDLEEEKAR
KLSTKSSSPDIVGTINAILARIAAARSLLHKAKEEMFSRIRPVVVMISGRPGIGKTHM
ARHLAKSIANTMSGDQRVGLVPRNGVDHWDAYRGERVVLWDDYGMGNPVKDALTLQEL
ADTCPVTLNCDRIENKGKMFDSDVIIITTNLVNPAPLDYVNFEACSRRVDFLVYAESP
EIEKVKRDFPGQPDMWKDHFKPDFSHIKLTLAPQGGFDKNGNTPHGKGTMRSLTQGSL
TARVAGLVHERRDEFQLQGNDLQTYNFDTNRVSAFRKLAADNKYGIMETMRVGAALKN
VKTLEDLKAALRDVKFNECEIIYRNSKYRISSNGKGSVSVDKVEGQTSQTANEVCSAL
LRLRQARARYYVSCFQDLIYTLMQVAGASFVVSRISKRFCWERWVKPTEAQETSESEK
EVAQSSWEIEPKDTEPEGKKGKNKKGRGKKHTAFSSKGLSDEEYDEFKRIREERNGKY
SIEEYLQDRDRYYEEVAVARATEEDFCEEEEAKIRQRIFRPTKKQRKEERGVLGLVTG
SDIRKRRPDDFQPKGKLWADDTRSVDYNERLDFEAPPSVWSRIVPLGTGWGFWVSSNL
LITTTHVLPKGIKELFGVEIKQIQIHKSGEFCRFRFPRPIRPDVTGLVLEEGAPEGTV
CSILVKRPTGEMIPLAVRMGTHASMKIQGRTVGGQMGMLLTGANAKNMDLGTGPGDCG
CPYIYKRGNDIVVAGVHTAAARGGNTVICATQGQDGEAVLEGNENLGTYCGAPILGPG
KAPKLSTKTKFWRSSPDALPPGTYEPAYLGGKDPRVEKGPSLQQVMRDQLKPFTEPRG
KPPRPAILEEAKKTVMNVLEQTIDPAKPWTYSQACASLDKTTSSGSPHHVKKNDHWNG
ESFTGPLADQASKANLMYEQAKHVQPVYTAALKDELVKTDKIYKKIKKRLLWGSDLGT
MIRCARAFGGLMDSMKASCIALPCRVGMNMNEDGPIIFDKHSKYRYHYDADYSRWDST
QQRSILSAAMEVMVRFSAEPELAQVVAEDLLAPSQLDVGDFVISVQEGLPSGVPCTSQ
WNSIAHWILTLSAMAEVSGLSPDVVQAHSCFSFYGDDEIVSTDINLDPMKLTQKLREY
GLAPTRPDKTEGPLVITEDLTGLTFLRRSIARDPAGWFGKLDQDSILRQLYWTRGPNH
ENPYESMVPHSQRATQLMALLGEASLHGPQFYKKVSKMVINEIKSGGLEFYVPRQEAM
FRWMRFSDLSTWEGDRNLAPEGVNEDGVD"
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..6728
/gene="ORF2"
CDS 5079..6728
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="UYL33171.1"
/translation="MKMASTDAAPSNDGAANLVPEANNEVMALEPVVGASIAAPVVGQ
QNIIDPWIRENFVQAPQGEFTVSPRNSPGEMLLNLELGPELNPYLSHLSRMYNGYAGG
MQVQVVLAGNAFTAGKIIFAAVPPHFPVENISAAQITMCPHVIVDVRQLEPVLLPLPD
IRNRFFHYNQEDTPRMRLVAMLYTPLRANSGEDVFTVSCRVLTRPAPDFEFTFLVPPT
VESKTKPFTLPILTLGELSNSRFPAPIDMLYTDPNEGVVVQPQNGRCTLDGTLQGTTQ
LVPTQICAFRGKLIGQTSRSPDSDSTDSAPRRRDHPLHVQLENLDGTQYDPTDEVPAT
LGAVDFKGTIFGVASQRDTSGSQVGATRAHEVHINTTDPRYTPKLGSILMYSESLDFE
TGQPVRFTPIGMGENDWHQWELPDYSGRLTLNMNLAPAVAPAFPGERILFFRSIVPSA
GGYGSGQIDCLIPQEWVQHFYQEAAPSQSAVALIRYVNPDTGRNIFEAKLHREGFITV
ANSGNNPIVVPPNGYFRFEAWVNQFYTLTPMGTGQGRRRNQ"
gene 6728..7507
/gene="ORF3"
CDS 6728..7507
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="UYL33172.1"
/translation="MASAFLAGLAGDVITSGVGSLINAGANAINQKVEYDFNKQLQLA
SFKHDKEMLQSQVSATKQLQQEMMNIRQGVLTAGGFSPADAARGAVNAPMTKILDWNG
TRYWAPNSMKTTSYSGQFSSSPVHRSPAPSQLVASSKGKLQNDSASVYSSPSSVSSQS
THSTVLSTGTRSSRPTTTSTATPTLSRTSDWVRGQNERLSPFMDGALQTAFVTPPSSK
ASSNGTVSTVPKAVLDSWTPMFNTHRQPLFAHLRRRGESQV"
ORIGIN
1 gtgaatgaag atggcgtcta acgacgcttc cgctgccttt ggcagtcaaa actctgtcaa
61 tgacagtttt aacaccgccc cttctaagaa agaagaggtt ggtgcattct ccaacatcaa
121 agttggattt aagaaaatgc tgggtgccgt tcccaagggg accaaagcac ccagcaatga
181 tcagcactgt cccacagtta agatcgggac caaaacatta acagttcccc ctgagccccc
241 aaatggtgaa gacatcgtgc agtttgatgc gaagtcagaa actgtgcttg ggctaccaga
301 cttaacaacg gtgcaaaatg aacacgagaa cacaccatac tcagtccccc cattgagtga
361 aagggaacac agaccagcca ctgagccgct ccctggcaca atactggaga tgtgggatgg
421 tgaattctac cactactcca tatacgtcag cggtggcaaa gccctagggg ttcataagcc
481 ccctgcggca attagcctcg cgacgataga gctcacaccc atatctcttt actggaggcc
541 cgtttacacc cccaactacc tggtctgccc ggacacgttg aaaggcctcg ctggtgagaa
601 gttcccctac acggccttca gcaacaactg ttacaacttc tgttgctggg tgcttgaact
661 caacgacacg tggcttagca ggagaagcat ctccaggacc accggcttct tcaaaccata
721 ccagtcttgg aacaggaaac ccctcccaac cgttgatgat ggaaagatca aaaaggtggc
781 caacgcaatc ctctgtgcac ttggatcact gttttcaaaa ccaatcaaag acctgttagg
841 caaacttaaa ccattgaact tgttgcactt gctcgcgtca tgtgattgga cgtttgcggg
901 catagtggag acagttatcc taatggcaga acttttcaat atcttttgga caccgccaga
961 cgtttccaac ttcatatcct ccctgatagg tgattttgaa ttgcaagggc ctgaggacct
1021 ggccgtggag ctcgtccccg tggtcatggg tggcatagga atggttctcg gctttactgc
1081 tgagaagata ggccgcatgc tgtcgtccgc tgcatcaaca ctgcgggcat gtaaagacct
1141 tgggaattat gcccttgaca tactaaaact ggttatgaaa tggttcttcc caaagaaaga
1201 agagaaagcc gagatggaaa ccttaagggc gattgaggat gccgtcctgg acatggaggc
1261 tataggaaac aatcatctca caaccctcct caaagataag gatagcctca cggccttcat
1321 gaagaccctg gacctagaag aggagaaggc aaggaagctg tccaccaaat catcctcgcc
1381 agacatcgtc ggtactatca atgccatact ggccagaata gctgctgcca gatccctcct
1441 gcacaaggct aaagaagaaa tgtttagtag gatcagacct gtggttgtta tgatctcggg
1501 tagacctggt attggcaaaa cccacatggc gagacacttg gccaagagca tcgccaacac
1561 catgagtggc gaccagagag tcgggctcgt tccgcgcaac ggggtcgatc actgggacgc
1621 ctacaggggg gagagggtgg tcttatggga tgattatggc atgggaaacc ctgtcaaaga
1681 tgctctaaca ctgcaagagt tggccgacac ctgcccagta actctaaact gtgataggat
1741 tgagaacaag gggaagatgt tcgacagtga tgtcatcata atcacgacca acctagtcaa
1801 cccagcaccc ctcgattatg taaacttcga ggcgtgctcc agaagggttg actttctggt
1861 ctatgcagag tcaccagaaa ttgagaaggt taagagagat ttccccggcc agcctgacat
1921 gtggaaggac cactttaagc cagacttctc ccatataaaa ctgactctag ccccccaggg
1981 tggatttgac aaaaatggta acaccccgca tggcaagggc accatgcggt ccctaaccca
2041 ggggtccctg actgcaaggg ttgcaggcct tgttcatgag aggagagatg agtttcagct
2101 ccaggggaac gaccttcaaa catacaactt tgacaccaac agggtctccg catttaggaa
2161 gctggccgca gataacaagt atggaatcat ggaaacaatg agagtaggtg cggcgcttaa
2221 gaatgtcaag accttggaag atctgaaagc tgccctgagg gatgtgaagt tcaatgagtg
2281 tgagataatt tacaggaact ccaaatatcg aatctcctcc aacggtaaag gttctgtctc
2341 tgttgacaaa gttgagggcc aaacgtccca gactgcgaac gaggtgtgtt cagcactcct
2401 taggctcagg caggcaaggg ccagatacta tgtcagctgc ttccaagatc tcatctacac
2461 tctaatgcag gttgccggag catcattcgt tgtcagcaga atttctaaga ggttctgttg
2521 ggagagatgg gtcaaaccaa ccgaggccca ggaaacgagt gaatccgaaa aggaagtagc
2581 acaaagtagc tgggagattg aacccaagga cacagaacca gaaggtaaga agggtaagaa
2641 caagaaagga agaggcaaga aacacacagc tttctccagc aaaggcctga gtgatgagga
2701 gtatgacgag ttcaagagaa tcagggaaga aaggaacggg aaatactcca ttgaagaata
2761 cctgcaagac cgggatcgct actatgagga agtggcggtt gcccgggcga cagaggagga
2821 cttctgtgaa gaggaggagg ccaagataag acaaagaatc ttccgcccca caaagaaaca
2881 gaggaaggaa gaaagggggg tgcttggctt ggtcactggc tcagacatca ggaagaggag
2941 accagatgat ttccaaccaa agggcaaact gtgggcagac gacaccagaa gtgtggacta
3001 caacgagaga cttgatttcg aggctccccc gagtgtctgg tcgagaatag tcccattggg
3061 cactggctgg ggcttttggg tctcatccaa cctcctgatc acaacaacac atgtcctgcc
3121 taaggggatt aaggaacttt ttggggttga aatcaaacag atccaaattc ataagtctgg
3181 agagttttgc aggttcagat tcccaagacc aatcaggcca gatgtcacag ggctcgtgct
3241 ggaggaaggt gctccagaag gcactgtctg ctccatactc gtaaagagac ctacaggtga
3301 gatgatccct ctggcagtga ggatgggcac gcatgcatcc atgaagatac agggtaggac
3361 cgtcggtggc caaatgggga tgctcctcac aggggctaac gcgaagaaca tggatcttgg
3421 caccggccct ggtgactgcg gttgccctta tatctacaaa cgcggcaatg acatagttgt
3481 cgcgggtgtc cacaccgcag cagcccgggg aggcaatacc gtcatatgtg ccactcaagg
3541 gcaagatggg gaggcagttc ttgagggaaa tgagaacctt ggcacttact gcggtgcccc
3601 aattttgggt ccgggcaagg cgcccaaact cagcacgaag accaaattct ggcgttcatc
3661 accagacgct ttgccgccag gcacttatga gcctgcctac ctaggaggca aggaccccag
3721 agtggagaaa ggaccatccc tgcagcaagt catgagggat cagttaaaac ctttcacaga
3781 acccagaggc aaaccaccta gacctgcaat cttagaagaa gccaaaaaga cagtgatgaa
3841 tgttctagaa caaaccatcg accctgccaa gccatggacc tattcccaag catgtgcctc
3901 actggacaag accacttcta gtggtagccc ccaccatgtc aagaaaaatg accattggaa
3961 tggagaatcc ttcaccggcc cccttgcaga ccaagcatcc aaagccaatc tcatgtatga
4021 gcaggccaaa catgtgcagc ccgtgtacac ggccgctctc aaagatgagc ttgtcaagac
4081 tgacaagatc tacaaaaaga taaagaagag gctcttatgg gggtcggatc ttggcacgat
4141 gatcaggtgc gccagggcct ttggcggtct catggatagc atgaaggcaa gctgtatagc
4201 cctcccatgc agggtaggaa tgaacatgaa cgaagatggt cccatcatat ttgacaagca
4261 ctctaagtac aggtatcact atgatgctga ctattccagg tgggattcaa cccagcaaag
4321 gagcattctc tcggccgcta tggaagtgat ggtgcggttt tctgccgaac cagagctggc
4381 acaggtggtc gcagaggacc ttctggcacc cagccaacta gatgttggcg attttgtcat
4441 ctcagtccag gagggtctgc catcaggggt cccatgcaca tcacagtgga attcaatagc
4501 acattggatc ctaaccctga gtgcaatggc agaagtatca ggtctctcac cagatgtagt
4561 tcaagcccac tcctgtttct cattttacgg tgacgatgag atcgtcagca ctgacataaa
4621 ccttgacccc atgaagttga cacagaaact cagggaatat ggtctggccc ccacccggcc
4681 tgataaaact gaaggccccc tcgtaataac tgaagacctc accggcctaa cgttccttcg
4741 taggtcgatt gcacgagacc cagctgggtg gtttggaaaa ttggaccagg actcaatcct
4801 caggcagtta tattggacaa gaggccccaa tcatgagaat ccatatgaga gcatggtccc
4861 tcactcccaa cgggccacac aactcatggc ccttctcggt gaagcctcac tgcatggccc
4921 ccagttctac aagaaagtta gcaagatggt catcaatgaa atcaaaagtg gtggtctgga
4981 attttatgtg cccagacaag aggccatgtt caggtggatg agattctctg acctcagcac
5041 atgggagggc gatcgcaatc ttgctcccga gggtgtgaat gaagatggcg tcgactgacg
5101 ctgctccatc gaatgatggt gctgccaacc tcgtaccaga ggccaacaat gaggttatgg
5161 cacttgaacc ggtggtggga gcctcaatcg cggctcctgt cgtcggccaa caaaacataa
5221 ttgacccctg gattagagaa aattttgtcc aagcaccaca gggcgagttc accgtctcac
5281 cgagaaactc gcctggtgag atgctattaa atcttgaatt aggcccagaa cttaaccctt
5341 acctaagtca tttgtcccgc atgtacaacg ggtatgctgg tggcatgcag gttcaggtgg
5401 tcctggctgg gaatgcgttc acagctggga aaatcatctt tgccgccgtg ccaccacatt
5461 ttcccgtaga aaacatcagt gcagcccaaa taactatgtg cccccatgta attgttgatg
5521 tgaggcaact tgaaccagta cttttgcccc tccctgacat aaggaacagg ttcttccatt
5581 acaatcagga agacaccccc cggatgaggc ttgtggcaat gctttatact cccctgaggg
5641 ctaattctgg tgaagatgtg tttactgtct cttgtagggt tttaacccgt cctgcccctg
5701 attttgaatt cactttcttg gtgccaccaa ccgttgaatc aaagactaaa ccttttacac
5761 tacccatatt aactcttggt gagctatcca actctaggtt cccagccccg atagacatgt
5821 tgtacactga cccaaatgag ggggttgtgg tccaaccaca aaatggtagg tgcactcttg
5881 atggcactct gcaaggcacc acacaactgg tccccaccca aatttgtgct ttcaggggca
5941 aactaattgg ccagacatca aggtctccag actcagactc aactgactca gcccctcgga
6001 gaagggatca cccactccat gtgcaattag agaatcttga tggcacgcag tacgacccaa
6061 ctgatgaagt gccagcaacc cttggtgccg ttgacttcaa ggggaccatt tttggagtgg
6121 ccagtcagag agacacgtca gggagccaag tgggggcaac ccgagcccat gaggtgcaca
6181 ttaacacgac cgatcccagg tatacaccaa aactggggtc catcctcatg tactcagagt
6241 cgctagactt tgagactgga cagccggtcc gcttcacacc tataggaatg ggtgagaacg
6301 attggcacca gtgggagctg cctgactact ctggacgcct gaccctgaac atgaaccttg
6361 ccccagctgt tgctcctgct tttcccggtg agaggattct tttcttcagg tcaatagtcc
6421 catccgctgg tggctatggg tctggacaga tagattgcct cataccacag gagtgggttc
6481 agcatttcta ccaggaagct gcaccgtccc aatctgccgt ggcactcatc aggtatgtca
6541 atcctgacac aggcagaaac atctttgagg ctaagctgca tagggaaggt ttcatcaccg
6601 tggcaaattc tggtaacaac cccattgttg tcccccctaa tgggtatttc aggtttgaag
6661 cttgggtgaa tcaattttat actttgaccc ccatgggaac tggtcagggg cgcaggagga
6721 atcaataatg gctagtgctt ttcttgcagg tcttgctggc gacgtcataa caagtggcgt
6781 tggatcttta ataaatgctg gagctaatgc aattaatcag aaagttgaat atgattttaa
6841 taaacagctt caattggcat catttaaaca tgataaagag atgttgcaat cacaagtttc
6901 agcaaccaag cagttgcagc aggagatgat gaacataagg cagggggtgt tgaccgctgg
6961 cggcttctcc cccgcggacg ctgctagagg ggccgttaac gccccaatga caaagattct
7021 ggattggaat ggcaccaggt attgggcacc aaacagcatg aaaactacaa gctactcagg
7081 acagttctct agcagccctg ttcataggtc ccctgctcct tcccagcttg ttgcctcatc
7141 aaagggtaaa ttgcaaaatg attctgctag tgtatatagc tctccttcct ctgtttcttc
7201 acaatcaacc cattcaacag tgctgtcaac aggaactaga tcatccaggc ccactaccac
7261 atccacagca acccccacct tgtctaggac cagcgactgg gttaggggac agaatgagag
7321 gctcagcccg tttatggatg gtgctctcca aactgccttt gtcacacctc catcgagcaa
7381 agcttcttca aatggtacgg tctcaaccgt tcccaaagct gttttggact cctggactcc
7441 tatgtttaac acacataggc agcctctctt cgcccaccta cgcaggcgag gggagtcaca
7501 agtttagtga aaagagtgat taggttttcc ttcttttctt ttctctcttt taaaaaaaaa
//