Typing tool
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Typing tool
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Complete norovirus genomes
| MZ279713 | GII.17 | |
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| GII.P31 |
ORF1: 1..5094
ORF2: 5075..6697
ORF3: 6697..7476
LOCUS MZ279713 7504 bp RNA linear VRL 30-MAY-2021
DEFINITION Norovirus GII isolate Hu/US/2013/GII.17[P31]/CA-RGDS-1125
nonstructural polyprotein (ORF1) gene, partial cds; and VP1 (ORF2)
and VP2 (ORF3) genes, complete cds.
ACCESSION MZ279713
VERSION MZ279713.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7504)
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 (24-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..7504
/organism="Norovirus GII"
/mol_type="genomic RNA"
/strain="CA-RGDS-1125"
/isolate="Hu/US/2013/GII.17[P31]/CA-RGDS-1125"
/isolation_source="stool"
/host="Homo sapiens"
/db_xref="taxon:122929"
/country="USA"
/collection_date="16-Feb-2013"
/note="Amplicon sequencing: first 31 nt does represent
primer sequence;
genotype: GII.17[P31]"
gene <1..5094
/gene="ORF1"
CDS <1..5094
/gene="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="QVU61689.1"
/translation="MASNDASAAAAANSNNDIAKSSSDGVLSSMAVTFKRALGARPKQ
PPPKEIPPRPPRPPTPELVKKIPPPPPNGEDEPVVSYSAKDGVSGLPELTTVRQPDEI
NTAFSVPPLNQRENRDAKEPLTGTIIEMWDGEIYHYGLYVERGLILGVHKPPAAISRA
KVELTPLSLFWRPVYTPQYLISPDTLRRLHGESFPYTAFDNNCYAFCCWVLDLNDSWL
SRRMIQRTTGFFRPYQDWNRKPLPTMDDSKLKKVANIFLCTLSSLFTRPIKDIIGKLK
PLNILNILATCDWTFAGVVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPEDLA
VELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFPKK
EEANELAMVRSIEDAVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARKLSTKS
ASPDIVGTINALLARIAAARSLVHRAKEELSSRPRPVVVMISGKPGIGKTHLARELAK
KIAASLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTCPL
TLNCDRIENKGKVFDSDAIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVERAK
RDFPGQPDMWKNAFSPDFSHIKLSLAPQGGFDKNGNTPHGKGVMKTLTTGSLIARASG
LLHERLDEYELQGPALTTFNFDRNKILAFRQLAAENKYGLMDTMRVGKQLKDVKTMPD
LKQALKNVAIRKCQIVYGGSTYTLEADGKGSVKIDKVQSAAVQTNNEIAGALHHLRCA
RIRYYVKCVQEALYSIIQIAGAAFVTTRIAKRMNIQNLWSKPQVEDTEETASKDGCPK
PKEDEEFVVSSDDIKTEGKKGKNKSGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKY
SIEEYLQDRDKYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGLVTG
SEIRKRNPEDFKPKGKLWADDDRSVDYNEKLNFEAPPSIWSRIVNFGSGWGFWVSPSL
FITSTHVIPQGAKEFFGVPIKQIQIHKSGEFCRLRFPKPIRTDVTGMILEEGAPEGTV
ATLLIKRPTGELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGDCG
CPYIYKRGNDYVAIGVHTAAARGGNTVICATQGSEGEATLEGGDNKGTYCGAPILGPG
SAPKLSTKTKFWRSSTTPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKPFTEPRG
KPPRPNVLEAAKKTIINVLEQTIDPPQKWSFAQACASLDKTTSSGHPHHMRKNDCWNG
ESFTGRLADQASKANLMFEEGKNMTPVYTGALKDELVKTDKIYGKIKKRLLWGSDLAT
MIRCARAFGGLMDEFKAHCVTLPVRVGMNMNEDGPIIFEKHSRYKYHYDADYSRWDST
QQRDVLAAALEIMVKFSPEPHLAQVVAEDLLSPSVMDVGDFQISISEGLPSGVPCTSQ
WNSIAHWLLTLCALSEVTDLSPDIIQANSLFSFYGDDEIVSTDIKLDPEKLTAKLKEY
GLKPTRPDKTEGPLVISEDLDGLTFLRRTVTRDPAGWFGKLEQSSILRQMYWTRGPNH
EDPSETMIPHSQRPIQLMSLLGEAALHGPAFYSKISKLVIAELKEGGMDFYVPRQEPM
FRWMRFSDLSTWEGDRNLAPSFVNEDGVE"
mat_peptide <1..984
/gene="ORF1"
/product="p48"
mat_peptide 985..2082
/gene="ORF1"
/product="NTPase"
mat_peptide 2083..2619
/gene="ORF1"
/product="p22"
mat_peptide 2620..3018
/gene="ORF1"
/product="VPg"
mat_peptide 3019..3561
/gene="ORF1"
/product="Pro"
mat_peptide 3562..5091
/gene="ORF1"
/product="RdRp"
gene 5075..6697
/gene="ORF2"
CDS 5075..6697
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="QVU61690.1"
/translation="MKMASNDAAPSNDGATGLVPEINNETLPLEPVAGAAIAAPVTGQ
NNIIDPWIRTNFVQAPNGEFTVSPRNSPGEILLNLELGPDLNPYLAHLSRMYNGYAGG
VEVQVLLAGNAFTAGKILFAAVPPNFPVEFLSPAQITMLPHLIVDVRTLEPIMIPLPD
VRNTFFHYNNQPANRMRLVAMLYTPLRSNGSGDDVFTVSCRVLTRPTPDFEFTYLVPP
SVESKTKPFSLPILTISELTNSRFPVPVDSLFTAQNNNLNVQCQNGRCTLDGELQGTT
QLQPSGICAFRGKITADVRPNHDDRWHMQLTNLNGTPFDPTEDVPAPLGTPDFTGLLF
GVASQRNVQPHPNTTRAHEAVISTTSSQFVPKLGSINFGSTSDDFTVGQPTKFTPVGI
KIEDGHAFDQWTLPRYSGHLTLNMNLAPPVAPNFPGEQLLFFRSNVPCAGGISDGIID
CLLPQEWIQHFYQESAPSQSDVALIRYVNPDTGRTLFEAKLHRTGYITVAHSGDYPLV
VPSNGYFRFDSWVNQFYSLAPMGTGNGRRRVQ"
gene 6697..7476
/gene="ORF3"
CDS 6697..7476
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="QVU61691.1"
/translation="MAGAFIAGLAGDMLTNTVGSLANAGANAITQKIDFENNKQLQSA
SFQHDKDMLQAQVAATKQLQAEMIAIKQGILTAGGFSPTDAARGAVGAPMTKVLDWSG
TRYWAPNSTRTTGYSGQFTSAPVHMPTKTIQPAPVKRTQPLSSSSGSIYSLSTQSTVL
TKPSSGSSSVSSASTQSTKLSSVSSMDRTANWVNQQRSLSPFMSGALNISHVTPPSSR
ASSSGTVSTVPKEVLDSWTPAFNTRRQPLFAHLRVRGESRV"
ORIGIN
1 atggcgtcta acgacgcttc cgctgccgct gctgccaaca gcaacaacga catcgcaaaa
61 tcttcaagtg acggtgtgct ctctagcatg gctgtcactt ttaaacgggc cctcggggcg
121 cggcctaaac agccgccccc gaaggaaata ccacccagac ccccacggcc acccacacca
181 gagttggtca aaaagatccc tcctccccca cccaacgggg aggatgaacc agtggtttcc
241 tatagcgcca aagatggtgt ttccggactg cctgagctca ccactgtcag acaaccggat
301 gaaattaaca cggcgttcag tgttcccccg ctcaaccaaa gggagaacag ggacgccaag
361 gaaccattaa ctggaacaat tattgaaatg tgggatggag aaatctacca ttacggcctg
421 tacgtggaac gaggtcttat acttggtgtg cataagccac cggcggccat cagccgtgcc
481 aaagtcgagc tgacaccact ctctctgttc tggagacctg tatacacacc ccagtatctc
541 atctccccag acactctcag gagactacat ggggagtcat tcccctacac tgcatttgac
601 aacaattgct acgccttctg ttgttgggta ttagacctaa acgactcatg gctaagcagg
661 agaatgattc agagaacaac aggtttcttc agaccatacc aggattggaa caggaaaccc
721 ctccccacta tggatgattc caaattgaag aaggtagcca acatattctt atgcaccttg
781 tcttcactat tcaccaggcc cattaaggac ataataggaa agctgaaacc tcttaacatc
841 cttaacattc tggctacatg tgattggacc ttcgcaggcg tagtggaatc cttgatactc
901 ttggcagagc tctttggagt tttctggaca cccccagatg tgtctgcgat gatcgccccc
961 ttactaggag attatgaact gcaaggacct gaggaccttg cagtagaact ggtcccagtg
1021 gtgatggggg ggataggttt ggtgctagga tttaccaaag agaaaattgg aaagatgcta
1081 tcatccgctg catctacttt gagagcctgt aaagaccttg gtgcatacgg actggaaatt
1141 ttaaaactag tcatgaaatg gttcttccca aagaaagagg aagcaaatga actggctatg
1201 gtgagatcca tcgaggatgc agtgttagac ctcgaagcaa ttgaaaacaa tcacatgacc
1261 accctgctca aagacaaaga cagcttggca acctacatga gaacccttga ccttgaggag
1321 gagaaagcta gaaaactctc aaccaaatct gcttcacccg atattgtggg cacaatcaac
1381 gctcttctgg caagaatcgc tgccgcacgc tccctagtgc atcgggcgaa agaagagctc
1441 tccagcaggc cgagacctgt cgttgtgatg atatcgggga aaccagggat aggaaaaact
1501 caccttgcca gggagttggc caagaagatc gcagcctccc tcacagggga ccagcgtgtg
1561 ggtcttatcc cgcgcaatgg tgttgaccat tgggacgcat acaagggtga aagagtagtc
1621 ctatgggacg actatggaat gagcaacccc atccatgacg ccctcagatt gcaggaactt
1681 gctgacactt gccccctcac gctaaattgt gacagaattg agaacaaagg gaaagtcttt
1741 gacagtgatg ccataattat caccaccaat ctggccaacc cagcaccact ggactatgtc
1801 aacttcgaag cgtgctcgag acgcattgac ttcctcgtgt acgcagaagc tccggaggtg
1861 gaaagggcaa agcgcgactt cccaggtcaa cctgacatgt ggaagaacgc tttcagccct
1921 gacttctcac acataaaact gtcattggct ccacagggtg gttttgacaa gaatggcaac
1981 accccgcatg gaaaaggtgt catgaagacc ctcaccactg gctccctcat agcccgagca
2041 tcagggttac tccatgagag actagatgaa tatgaactgc aaggtccagc cctcaccact
2101 ttcaactttg atcgcaacaa gatacttgct tttagacagc ttgctgctga aaacaagtat
2161 gggctgatgg atacaatgag agttggaaaa cagctcaagg atgtcaagac tatgccagac
2221 ctcaaacaag cactcaagaa tgtcgcgatc aggaagtgcc agatagtgta cggtggtagc
2281 acctacacac ttgaggccga tggtaagggt agtgtgaaaa ttgacaaagt gcaaagtgct
2341 gctgtgcaaa ctaacaatga aatagccggc gccctacacc acctaaggtg cgccagaatc
2401 agatactatg ttaagtgtgt ccaggaggca ctgtattcca tcattcaaat cgctggggct
2461 gcattcgtca ccacgcgcat cgctaagcgc atgaacatac agaatctctg gtccaagcca
2521 caggtggaag acacagaaga gacggccagc aaagatggtt gcccaaaacc caaagaagat
2581 gaagagtttg ttgtttcatc cgacgacatc aaaactgagg gcaagaaagg gaagaataaa
2641 tctggtcgtg gcaagaagca cacagccttc tcaagcaaag ggctcagtga tgaggagtac
2701 gatgagtaca agagaatcag agaagaaagg aatggcaagt attccataga agagtaccta
2761 caggacagag acaagtacta tgaggaggtg gctattgcca gggcaaccga agaagacttc
2821 tgtgaagaag aagaggccaa aatccggcag agaattttca gaccaacaag gaagcaacgc
2881 aaagaagaga gggcctccct cggcttggtc acaggctctg aaatcaggaa gagaaaccca
2941 gaagacttca agcccaaggg aaagctgtgg gctgatgatg acagaagtgt tgactacaat
3001 gagaaactca actttgaggc cccgccaagc atctggtcgc ggatagtcaa ctttggttca
3061 ggttggggct tctgggtctc ccccagtctg ttcataacat caacccatgt cataccccag
3121 ggtgcaaaag agttcttcgg agtccctatc aaacaaatcc agatacacaa atcaggtgaa
3181 ttctgtcgat tgagattccc aaaaccaatc agaactgatg tgacgggcat gattctagaa
3241 gaaggtgcgc ccgaagggac cgtggccaca ctgctcatta agagaccaac tggagaactc
3301 atgcctctgg cagccagaat gggaacccat gcaaccatga agattcaggg gcgcacagtt
3361 ggaggacaaa tgggtatgct cctgacagga tccaacgcca agagcatgga cctaggcaca
3421 acaccaggtg actgcggctg tccctacatc tacaagagag ggaatgacta cgtggccata
3481 ggggtccaca cggccgctgc ccgtggagga aacactgtca tatgtgccac ccaggggagt
3541 gagggagaag ccacacttga aggaggtgac aacaaaggaa catactgcgg tgcaccaatc
3601 ttgggcccag ggagtgctcc aaaactcagc accaagacta agttttggag atcatccaca
3661 acaccactcc cgcctggcac ctacgaacca gcctacctcg gtggcaaaga tcccagagtc
3721 aaaggtggcc cttcattaca acaagttatg agggaccagc taaagccatt cacagaaccc
3781 agaggcaaac caccaagacc aaatgtgttg gaagctgcta agaaaaccat catcaacgtt
3841 cttgagcaaa caattgaccc acctcaaaaa tggtcattcg cgcaagcttg cgcatccctt
3901 gacaaaacca cctccagcgg ccacccgcac catatgcgga aaaacgattg ttggaatggg
3961 gagtccttca caggaagatt ggcagatcag gcctccaagg ccaacctaat gtttgaagag
4021 ggaaagaaca tgactccagt ctacacaggt gcacttaaag atgaattggt aaagactgac
4081 aaaatttatg gtaagatcaa gaagaggctt ctgtggggct cagacctggc gaccatgata
4141 cggtgcgccc gagcttttgg aggccttatg gatgaattca aggcacactg tgtcaccctt
4201 cctgtcagag ttggtatgaa catgaacgaa gatggcccca tcatctttga gaaacactcc
4261 agatataaat atcactatga tgctgattat tcccggtggg actcgacaca acaaagggat
4321 gtgctagcag cagcactaga aatcatggtt aaattctctc cagaaccaca cctggctcag
4381 gtagttgcag aagacctcct ctcccctagt gtaatggatg taggtgactt tcaaatatca
4441 ataagtgagg ggctcccctc tggggtgcct tgcacctccc agtggaactc catcgcccac
4501 tggctcctca ctctttgtgc actctctgaa gtcacggacc tgtcccctga cattatccag
4561 gccaactccc ttttctcctt ctatggtgat gatgagattg tgagcacaga cataaagttg
4621 gacccagaga agctgacagc aaaactcaag gagtacgggc tgaaaccaac ccgtcccgac
4681 aaaactgaag gaccccttgt tatctctgaa gatctggatg gcctgacatt cctccggagg
4741 actgtgaccc gtgacccagc tggttggttt ggaaaattgg aacaaagctc aattctcagg
4801 caaatgtact ggactagggg tcccaaccat gaagatccat ctgaaacaat gataccacac
4861 tcccaaagac ccatacaatt gatgtccttg ctgggcgagg ctgcactcca cggcccagca
4921 ttttacagca aaattagtaa attggtcatt gcagagctga aggaaggtgg catggatttt
4981 tacgtgccca gacaagagcc aatgttcagg tggatgagat tctcagatct gagcacgtgg
5041 gagggcgatc gcaatctggc tcccagtttt gtgaatgaag atggcgtcga atgacgccgc
5101 tccatctaat gatggtgcca cgggcctcgt cccagagatc aacaacgaga cccttcctct
5161 ggaaccggta gcgggtgcag ctattgccgc gcctgttact ggccaaaata atataattga
5221 tccctggatt agaacaaatt ttgtacaagc acccaatggg gagttcacag tctcacccag
5281 aaactctcct ggagaaattc ttctaaattt ggaattgggt cctgatttaa atccatatct
5341 ggcacattta tctagaatgt ataatgggta tgctggtggc gtagaagttc aagtcctcct
5401 tgcagggaat gcgttcactg caggaaagat tctcttcgct gccgtaccac caaatttccc
5461 agttgaattc ttgagtcctg cacaaatcac catgttgcca catttaatag ttgatgttag
5521 aacccttgaa cccatcatga taccactccc tgatgtcagg aacaccttct ttcactacaa
5581 taatcaacct gccaatcgca tgcgattggt agccatgttg tatacccccc tgagatctaa
5641 tggttctggt gatgatgttt tcacagtgtc atgtagagtg ctaactagac ccaccccaga
5701 ttttgagttt acatacttgg tccccccttc ggtagagtct aagactaaac ccttttctct
5761 gcccatacta accatctctg aattgaccaa ttcaagattt cctgtaccgg tggattcatt
5821 gttcacagcc caaaacaata atcttaatgt tcaatgtcaa aatggtcgct gcacattaga
5881 tggtgagttg cagggaacca ctcagttgca accatcaggc atctgcgcct tcagaggcaa
5941 aataacggca gatgtacgtc caaaccacga tgacagatgg catatgcaac tgacaaatct
6001 caatggaacc cccttcgacc caacagagga tgtaccagct ccactgggca ccccagattt
6061 cacaggcctt ctcttcggag tggcaagcca aagaaatgtt caacctcacc caaacactac
6121 cagggcacat gaagccgtga tatccacaac cagttcacag tttgtgccaa aattaggatc
6181 aatcaacttt ggtagcacaa gtgatgattt cactgtgggc cagcccacaa aattcacacc
6241 agttggcatc aagattgagg atgggcatgc atttgatcaa tggaccctac ccaggtattc
6301 aggccattta actctcaata tgaatcttgc cccacctgtt gctccaaatt tccctggtga
6361 acaactactc ttctttaggt caaatgtccc ctgtgccggc ggcattagtg atggtatcat
6421 cgactgcctg ttgcctcagg agtggataca gcacttctac caggagtctg ctccctccca
6481 atctgatgtg gccctgatca gatacgtcaa ccccgacacg ggccgcacac ttttcgaggc
6541 gaaactccat agaacaggct acatcactgt tgcccattca ggtgattatc cccttgttgt
6601 cccctccaat ggatacttta gatttgattc ttgggtgaac caattttatt cacttgcccc
6661 catgggaact gggaatgggc gcagacgggt gcagtaatgg caggagcttt catagcaggt
6721 ctagcaggtg acatgctcac caacacagtt ggctcactgg cgaacgccgg ggccaatgcc
6781 atcactcaaa agatagactt tgaaaacaac aaacagctcc aatctgcctc cttccaacat
6841 gacaaagaca tgctccaagc acaagtggct gccaccaagc agttacaggc tgagatgatc
6901 gccatcaagc aggggatact gaccgcgggc ggcttttccc ccactgatgc ggcgagagga
6961 gcagtgggtg cacccatgac caaagtcctc gactggtctg gtactcgtta ctgggctcca
7021 aactccacga ggacaacagg ttactcaggg cagtttacat cagcaccagt gcatatgccc
7081 acaaaaacaa ttcagcctgc tcctgttaaa aggactcaac ctctttcttc ctcttcaggt
7141 agtatctata gtctttcaac acagagcact gtcttgacca agccttcttc aggctcttct
7201 tctgtttctt ctgcttctac acaatctaca aaattgagtt cagtttcttc aatggataga
7261 acagcaaatt gggtaaatca gcaaagaagc ctcagcccct tcatgagtgg tgcactcaac
7321 atatctcatg taacacctcc atcgagcagg gcttcgagtt cggggacagt ctcaactgta
7381 cccaaagaag ttttggactc ctggacacct gcattcaaca cacgcagaca gccgctcttc
7441 gcacacctca gagtgagggg ggagtcacgt gtttagtgaa aagaatcaat tagttttaat
7501 taaa
//