Typing tool
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Typing tool
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Complete norovirus genomes
| OR397766 | GII.1 | |
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| GII.P1 |
ORF1: 5..5104
ORF2: 5085..6692
ORF3: 6692..7471
LOCUS OR397766 7513 bp RNA linear VRL 28-NOV-2023
DEFINITION Norovirus GII isolate NHP_#2_ch2_d3, complete genome.
ACCESSION OR397766
VERSION OR397766.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7513)
AUTHORS Rimkute,I., Chaimongkol,N., Woods,K.D., Nagata,B.M., Darko,S.,
Gudbole,S., Henry,A.R., Sosnovtsev,S.V., Olia,A.S., Verardi,R.,
Bok,K., Todd,J.-P., Woodward,R., Kwong,P.D., Douek,D.C.,
Alves,D.A., Green,K.Y. and Roederer,M.
TITLE A non-human primate model for human norovirus infection
JOURNAL Unpublished
REFERENCE 2 (bases 1 to 7513)
AUTHORS Rimkute,I., Chaimongkol,N., Woods,K.D., Nagata,B.M., Darko,S.,
Gudbole,S., Henry,A.R., Sosnovtsev,S.V., Olia,A.S., Verardi,R.,
Bok,K., Todd,J.-P., Woodward,R., Kwong,P.D., Douek,D.C.,
Alves,D.A., Green,K.Y. and Roederer,M.
TITLE Direct Submission
JOURNAL Submitted (04-AUG-2023) VRC, NIH, 40 Convent Drive, Bethesda, MD
20892, USA
COMMENT ##Assembly-Data-START##
Assembly Method :: CLC Genomics Workbench v. v.21.0.3
Sequencing Technology :: Illumina
##Assembly-Data-END##
FEATURES Location/Qualifiers
source 1..7513
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="NHP_#2_ch2_d3"
/isolation_source="stool"
/host="Rhesus macaque"
/db_xref="taxon:122929"
/country="USA"
/collection_date="May-2022"
/note="genotype: GII.1"
gene 5..5104
/gene="ORF1"
CDS 5..5104
/gene="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="WLE90371.1"
/translation="MKMASNDASAAAAANSNNDTVKSSSDGVLSSMAVTFKRALGARP
KQPPPREIPQRPPRPPTPELIKKVPPPPPNGEDEPVVSYSVKDGVSGLPDLSTVRQPP
ENNTAFSVPPLNQRENRDAKEPLTGTILEMWDGEIYHYGLYVEQGLVLGVHKPPAAIS
LAKVELTPLSLYWRPVYTPQYLISPDTLRRLHGESFPYTAFDNNCYAFCCWVLDLNDS
WLSRRMIHRTTGFFRPYQDWNRKPLPTMDDSKLEKVANIFLCALSSLFTRPIKDIIGK
LRPLNILNILASCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPED
LAVELVPVVMGGVGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFP
KKEEASELAMVRSIEDAVLDLEAIENNHMTALLKDKDSLAAYMRTLDLEEEKARKLST
KSASPDIVGTINALLARIAAARSLVHRAKEELSSRPRPVVVMISGKPGIGKTHLAREL
AKKIAATLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRIQELADTC
PLTLNCDRIENKGKVFDSDAIIITTNLANPAPLDYVNFEACSRRIDFLVYADAPDVEK
AKRDFPGQPDMWKNAFSPDFSHIKLMLAPQGGFDKNGNTPHGKGVMKTLTVGSLIARA
SGLLHERLDEYELQGPALTTYNFDRNKVLAFRQLAAENKYGLMDTMRVGGQLKGVRTM
SELKQALKNISVKRCQIVYSGCTYTLESDGKGSVRVDRVQNTTVQTNNELAGALHHLR
CARIRYYVKCVQEALYSIIQIAGAAFVTTRIAKRMNIQDLWSKPQLEDTGEAVSKEGC
PKPKDDEEFVVSSDDIKVEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNG
KYSIEEYLQDRDKYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGLV
TGSEIRKRNPDDFKPKGKLWADDDRSVDYNEKLSFEAPPSIWSRIVNFGSGWGFWVSP
SLFITSTHVIPQGTQEFFGVSIKQIQIHKSGEFCRLRFPKPIRTDVTGMILEEGAPEG
TVATLLIKRPTGELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGD
CGCPYIYKRGNDYVVIGVHTAAARGGNTVICATQGNEGEAILEGGDDKGTYCGAPILG
PGSAPKLSTKTKFWRSSTTPLPPGTYEPAYLGGKDPRVKSGPSLQQVMRDQLKPFTEP
RGKQPKPSVLEAAKKTIINVLEQTIDPPQKWSFAQACASLDKTTSSGHPHHIRKNDCW
NGDSFTGKLADQASKANLMFEEGKNMTPVYTGALKDELVKTDKIYGKIKKRLLWGSDL
ATMIRCARAFGGLMDELKAHCVTLPVRVGMNMNEDGPIIFEKHSRYKYHYDADYSRWD
STQQRAVLAAALEIMVKFSPEPHLAQVVAEDLLSPSVMDVGDFKISINEGLPSGVPCT
SQWNSITHWLLTLCALSEVTDLSPDIIQANSLFSFYGDDEIVSTDIKLDPEKLTAKLK
EYGLKPTRPDKTEGPLIISEDLDGLTFLRRTVTRDPAGWFGKLEQSSILRQMYWTRGP
NHEDPSETMIPHSQRPIQLMSLLGEAALHGPAFYSKISKLVISELKEGGMDFYVPRQE
PMFRWMRFSDLSTWEGDRNLAPSFVNEDGVE"
mat_peptide 5..994
/gene="ORF1"
/product="p48"
mat_peptide 995..2092
/gene="ORF1"
/product="NTPase"
mat_peptide 2093..2629
/gene="ORF1"
/product="p22"
mat_peptide 2630..3028
/gene="ORF1"
/product="VPg"
mat_peptide 3029..3571
/gene="ORF1"
/product="Pro"
mat_peptide 3572..5101
/gene="ORF1"
/product="RdRp"
gene 5085..6692
/gene="ORF2"
CDS 5085..6692
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="WLE90372.1"
/translation="MKMASNDAAPSNDGAAGLVPEVNNETMALEPVAGASIAAPLTGQ
NNVIDPWIRMNFVQAPNGEFTVSPRNSPGEILLNLELGPELNPFLAHLSRMYNGYAGG
VEVQVLLAGNAFTAGKLVFSAIPPHFPLENLSPGQITMFPHVIIDVRTLEPVLLPLPD
VRNNFFHYNQQPEPRMRLVAMLYTPLRSNGSGDDVFTVSCRVLTRPSPDFDFNYLVPP
TVESKTKPFTLPILTIGELSNSRFPVPIDELYTSPNEGVIVQPQNGRSTLDGELLGTT
QLVPSNICALRGRINAQVPDDHHQWNLQVTNTNGTPFDPTEDVPAPLGTPDFLANIYG
VTSQRNPNNTCRAHDGVLATWSPKFTPKLGSVILGTWEESDLDLNQPTRFTPVGLFNT
DHFDQWALPSYSGRLTLNMNLAPSVSPLFPGEQLLFFRSHIPLKGGTSDGAIDCLLPQ
EWIQHFYQESAPSPTDVALIRYTNPDTGRVLFEAKLHRQGFITVANSGSRPIVVPPNG
YFRFDSWVNQFYSLAPMGTGNGRRRVQ"
gene 6692..7471
/gene="ORF3"
CDS 6692..7471
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="WLE90373.1"
/translation="MAGAFIAGLAGDIVTNSVGSLVNAGANAINQKVDFENNKQLQQA
SFNHDKEMLQAQIQATKQLQADMIALRQGVLTAGGFSPTDAARGAVNAPMTQVLDWNG
TRYWAPGATKTTAFSGGFTSSSHARTVDLPKKTAAAPATMPVSRPSSSASTASTRSTL
VSGSSNLPSSARSSSSVFSQSTSPSSRTSEWVRSQNRALEPYMRGALQTAYVTPPSSR
ASSNGTVSTVPKEVLDSWTSVFNTHRQPLFAHLRRRGESQV"
ORIGIN
1 gtgaatgaag atggcgtcta acgacgcttc cgctgccgct gctgctaaca gcaacaacga
61 caccgtaaaa tcttcaagtg acggagtact ctctagtatg gctgtcacct ttaaacgggc
121 cctcggggcg cggcctaagc agccgccccc gagggaaata ccacaaagac ccccacgacc
181 acccactcca gagttgatca aaaaggtccc ccctcccccg cccaatgggg aggatgaacc
241 agtggtctcc tatagcgtca aagatggcgt ttccgggctg cctgacctct ccaccgtcag
301 acagccacct gagaacaaca cggcgtttag cgttcctcca ctcaaccaga gggagaacag
361 ggatgccaag gagccactga ctggaacaat cctggaaatg tgggatgggg agatttacca
421 ttatggcttg tatgtggaac aaggcctggt gcttggcgtg cacaaaccgc cagcggccat
481 cagcctcgct aaagttgaat taacaccact ctctttatac tggagacctg tgtacacccc
541 ccagtatctc atctccccag acactcttag gaggctccat ggggaatcgt tcccttacac
601 agcttttgac aacaactgct atgccttctg ttgctgggtt ttagacctga atgactcatg
661 gttgagtaga agaatgatac ataggacaac tggcttcttc agaccttacc aagattggaa
721 tagaaagccc cttcccacca tggatgactc caaactggag aaggtggcca atattttcct
781 gtgtgctttg tcttcactat tcactagacc catcaaagac ataataggga agctaagacc
841 ccttaacatc ctcaatattt tagcatcatg tgattggact tttgcaggca tagtggaatc
901 cctgatcctc ttggcagagc tctttggagt tttctggaca cccccagatg tgtctgcgat
961 gatcgccccc ttactgggtg actacgagct gcaggggcct gaggacctcg cggtagaact
1021 agtgccagta gtaatgggag gggtaggttt ggtgttagga ttcaccaaag aaaagattgg
1081 aaagatgctg tcatccgctg cgtccacatt gagagcttgt aaagaccttg gtgcgtacgg
1141 gctggagatc ttaaaattag tcatgaaatg gttcttcccg aagaaagagg aggcgagcga
1201 attggccatg gtgaggtcca tcgaggacgc ggtgttggac ctcgaagcaa ttgagaacaa
1261 ccatatgacc gctttactta aagataagga cagcctggcg gcttacatga gaactctcga
1321 ccttgaggaa gagaaagcca gaaagctctc aaccaaatct gcttcacccg acatcgtggg
1381 cacaatcaac gctctcttgg cgaggatcgc agccgctcgc tccctcgtgc atcgggcaaa
1441 ggaagagctc tccagtaggc cgagacccgt tgttgtgatg atatcgggaa aaccagggat
1501 agggaagacc catcttgcca gagaactggc caaaaagatc gcagctactc tcacagggga
1561 tcagagagtg ggtctcattc cacgcaatgg cgttgaccac tgggacgcat acaaggggga
1621 gagggtcgtc ctttgggatg actacgggat gagcaacccc atccatgatg ctctcagaat
1681 acaggagctt gctgacactt gccccctaac attaaactgt gatagaattg aaaacaaagg
1741 gaaagttttt gacagtgatg ccataatcat caccaccaac ttggccaacc ctgcaccact
1801 agactatgtc aattttgagg catgctcgag gcgcattgat ttcctcgtgt atgccgacgc
1861 ccctgatgtc gaaaaggcga agcgcgactt cccaggccaa cctgacatgt ggaaaaatgc
1921 ttttagtcct gacttctcac acataaaatt gatgctagcc ccacagggtg gttttgataa
1981 gaacggcaac accccacatg ggaagggcgt catgaaaacc ctcaccgttg gttccctcat
2041 cgcccgtgca tcaggactcc tccatgagag actggatgag tacgaactac agggcccagc
2101 tctcacaacc tacaactttg accgaaacaa agtgcttgct ttcaggcagc ttgctgctga
2161 aaacaagtac ggtttaatgg acacaatgag agtcggaggg cagctcaagg gtgtcagaac
2221 catgtcagag ctcaaacaag cactcaaaaa catctcagtt aaaaggtgcc agatagtgta
2281 cagtggttgc acttacacac ttgaatctga tggtaagggc agtgtgaggg ttgacagagt
2341 tcagaacacc actgtgcaga ccaacaacga gttagccggc gccctgcacc atctcaggtg
2401 cgccaggatt aggtactatg tcaagtgtgt tcaagaggcc ctgtattcca tcatccaaat
2461 tgcaggggct gcgtttgtca ccacgcgcat tgccaaacgc atgaacatac aggacctttg
2521 gtccaagcca cagctggagg acacaggaga agctgtcagc aaagaagggt gcccaaaacc
2581 caaggatgat gaggagttcg ttgtttcatc tgacgacatc aaggtcgagg gcaagaaagg
2641 gaaaaacaag actggtcgcg gcaagaaaca cacagccttc tctagtaaag gtctcagtga
2701 tgaggagtac gacgagtaca aaagaatcag ggaggaaaga aacggcaagt actctataga
2761 agagtatctc caggacagag acaagtatta cgaggaggtt gccattgcta gggcgactga
2821 ggaggacttc tgtgaagaag aagaagccaa aattcgacag aggatcttca gaccaacaag
2881 gaaacaacgt aaagaggaga gggcttctct cggtctagtc acaggctctg agattaggaa
2941 gagaaaccca gatgacttca aacccaaggg aaaactgtgg gccgatgacg acagaagtgt
3001 tgattacaat gagaagctca gttttgaagc cccaccaagc atctggtcaa gaatagtcaa
3061 ctttggttcg ggctggggtt tttgggtctc tcctagtctg ttcataacat caactcatgt
3121 tattccccag ggcacacagg agttctttgg agtgtctatc aaacaaatcc aaatacacaa
3181 atcaggtgag ttttgccgct tgaggttccc aaagccaatc aggactgacg tgacaggtat
3241 gatcttagag gaaggtgccc ccgaagggac cgtggccaca ctgctcatca aaagaccaac
3301 tggtgagctc atgcctttag cagccaggat gggaactcac gcaaccatga agatccaagg
3361 tcgcactgtt gggggccaaa tgggtatgct cctaacagga tccaatgcta aaagtatgga
3421 cctgggcact acacccggtg actgtggttg tccctacatc tataagagag ggaatgacta
3481 tgtggtcatc ggggttcaca cagctgctgc ccgtgggggg aacactgtca tatgtgccac
3541 ccagggtaat gaaggtgagg ccatacttga gggcggagat gacaaaggca cctactgtgg
3601 tgccccaatc ctgggtccag gaagtgcccc aaagctcagc accaagacca aattttggag
3661 gtcatccaca acgccactcc cgcctggcac ctacgaacca gcctacctcg gtggcaagga
3721 ccccagagtc aagagtggcc cctcattaca acaagtcatg agagaccagt tgaaaccatt
3781 cacagaacca agaggtaaac aaccaaaacc aagtgtgttg gaggctgcca agaaaaccat
3841 catcaatgtt cttgaacaaa caatagaccc gcctcaaaaa tggtcatttg cgcaagcttg
3901 tgcgtctctt gacaagacca cctccagtgg ccacccacac cacatacgga agaatgactg
3961 ctggaatggg gactctttca caggcaagtt ggcagatcag gcctcgaagg ccaacttgat
4021 gtttgaggag gggaagaaca tgaccccagt ctacacaggt gccctcaagg atgagttagt
4081 caaaactgac aagatatatg gtaagatcaa gaagaggtta ctctggggct cggacctggc
4141 aaccatgatc cggtgtgcac gagcgttcgg aggtctgatg gacgaactta aagcccactg
4201 tgtcacactc cctgtcagag ttggtatgaa catgaatgag gatggcccca ttatctttga
4261 gaaacactcc aggtataaat atcattatga tgcagattat tctcgatggg actcaacaca
4321 gcagagagcc gtactagctg cagccctaga gatcatggtc aaattctccc cagagccaca
4381 cttggcccag gtagttgcag aagaccttct ttcccccagt gtgatggatg tgggtgactt
4441 caagatatca atcaacgagg gtcttccctc tggggtgccc tgcacctcgc aatggaactc
4501 catcacccac tggctcctca ctctttgtgc actctctgaa gtcacggacc tgtcccctga
4561 catcattcaa gccaattcct tattctcttt ctatggtgat gatgaaattg tgagtacaga
4621 cataaaattg gacccagaaa aactgacagc aaaactgaaa gagtatgggc tgaagccaac
4681 ccgccctgac aagactgagg gacctctgat catttctgag gatctggatg gtttaacctt
4741 tctgcggaga actgtaaccc gtgatccagc tggttggttt ggtaaattag aacagagctc
4801 aatacttagg cagatgtact ggactagggg ccccaaccat gaggatccat ctgaaacaat
4861 gataccacat tcccaaaggc ccatacagtt gatgtctctg ctaggtgaag ctgcattgca
4921 cggtccagca ttctacagca aaatcagtaa actagtcatt tcagagttga aggaaggtgg
4981 catggacttt tacgtgccca ggcaagagcc gatgttcaga tggatgagat tctcagacct
5041 gagcacgtgg gagggcgatc gcaatctggc tcccagtttt gtgaatgaag atggcgtcga
5101 atgacgccgc cccatctaat gatggtgcag ccggtctcgt accagaggtc aacaacgaga
5161 cgatggccct cgaaccggtg gctggggctt ctatagccgc ccctctaacc ggtcaaaata
5221 atgtgataga cccctggatt agaatgaact ttgtccaagc cccaaatgga gaattcacag
5281 tgtctccccg caattctcct ggtgaaatct tgctaaattt ggaattaggc cctgaattaa
5341 atccattctt agcacacctt tcaagaatgt ataatggtta tgccggcggg gttgaagtgc
5401 aggtactact cgctgggaac gcgttcacag cgggaaaact ggtgttttca gcaatccccc
5461 cgcacttccc tcttgagaat ctgagtcctg gacaaattac aatgttccct catgtgatta
5521 ttgatgttag aacattagaa cctgtgcttt tgccccttcc agatgttaga aataatttct
5581 ttcattacaa tcagcagccc gagccccgta tgagacttgt agctatgttg tatactcctc
5641 ttagatctaa tggttctggt gatgatgtgt tcacagtttc ttgcagggtt ctcacccgcc
5701 cttctccaga ttttgatttt aattatttgg ttcccccaac tgtggagtct aaaactaaac
5761 cattcaccct gccaatccta actattggag aattgtcaaa ttctagattc ccagttccaa
5821 tagatgaatt gtacaccagc cccaatgaag gagtgatcgt gcagccccaa aatggcagat
5881 caacacttga tggtgaattg ttgggcacca cgcaactcgt gccctcaaac atctgtgcgc
5941 tacgagggcg cattaacgcc caggtgccag atgatcacca tcaatggaac ctacaggtaa
6001 caaacacaaa tgggactcct ttcgacccca ccgaagacgt ccctgcacca ctgggcacac
6061 cggatttcct ggcgaatatc tatggagtca ccagccagag aaaccccaac aacacttgcc
6121 gtgcccatga tggggttttg gcaacttgga gccccaaatt tacacccaag ttaggatctg
6181 tgattttggg cacttgggaa gaaagtgatc ttgatctcaa tcagcccaca aggttcacac
6241 ctgttggtct gtttaacact gaccactttg atcagtgggc cttgcctagt tattctggaa
6301 gattaaccct aaacatgaat ttggcaccct ctgtttcccc cctctttcca ggtgaacagc
6361 tacttttctt caggtcccat ataccactca aaggaggtac ctctgatggt gccattgatt
6421 gtctactccc ccaggaatgg attcagcatt tttatcagga gtcagcccca tcgcccacgg
6481 acgtggctct aattagatac accaatcctg acacaggccg cgttttgttt gaagctaaac
6541 tgcacaggca aggattcatc acagtggcaa actctggttc taggcctatt gttgtccctc
6601 cgaatggcta ttttaggttt gattcttggg ttaatcaatt ctattctctc gcccccatgg
6661 gaactgggaa cgggcgcaga agagtgcagt aatggctgga gcttttatag cagggcttgc
6721 tggtgacata gtcaccaata gtgttggctc acttgtgaac gctggagcta atgcaataaa
6781 ccaaaaagtg gactttgaaa acaacaagca actacagcag gcttctttca atcatgacaa
6841 agagatgctg caagctcaaa tccaagccac caaacagcta caggctgaca tgattgctct
6901 cagacaaggg gtgttgaccg caggcggctt ctcccctact gatgcagcaa gaggggcagt
6961 taatgcgcct atgacgcagg tcttggactg gaatgggact aggtattggg cccccggagc
7021 cacaaaaacc accgctttct ccggtgggtt cactagctct tcccatgcca ggactgttga
7081 tctgcccaag aaaacagcag ctgcaccagc cacgatgcct gtttctagac ccagttcttc
7141 tgcttctaca gcctctactc gctcaacatt ggttagcggg tcttctaacc ttccttcttc
7201 agctaggagt tcttctagtg tcttttccca atccacttcc ccttcctccc ggactagtga
7261 gtgggtgcgt agtcaaaata gggcactgga gccttacatg aggggggcgc tacaaacagc
7321 ttacgtgacg cctccttcta gtagagcatc tagtaatggc acagtctcaa ccgtgccgaa
7381 agaagttttg gactcctgga catctgtgtt taacactcac agacagccgc tcttcgctca
7441 tctccgtcgg agaggggagt cacaagttta gtgaaaagat gatctcttct ttctttgaaa
7501 atttctgtct ttt
//