Typing tool
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Typing tool
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Complete norovirus genomes
| MW305583 | GII.4 Sydney | |
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| GII.PNA3 |
ORF1: 1..5069
ORF2: 5050..6666
ORF3: 6666..7457
LOCUS MW305583 7506 bp RNA linear VRL 18-JUL-2024
DEFINITION Norovirus GII isolate T091 nonstructural polyprotein (ORF1) gene,
partial cds; and VP1 (ORF2) and VP2 (ORF3) genes, complete cds.
ACCESSION MW305583
VERSION MW305583.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norovirus norwalkense.
REFERENCE 1 (bases 1 to 7506)
AUTHORS Tohma,K., Lepore,C.J., Martinez,M., Degiuseppe,J.I., Khamrin,P.,
Saito,M., Mayta,H., Nwaba,A.U.A., Ford-Siltz,L.A., Green,K.Y.,
Galeano,M.E., Zimic,M., Stupka,J.A., Gilman,R.H., Maneekarn,N.,
Ushijima,H. and Parra,G.I.
TITLE Genome-wide analyses of human noroviruses provide insights on
evolutionary dynamics and evidence of coexisting viral populations
evolving under recombination constraints
JOURNAL PLoS Pathog 17 (7), e1009744 (2021)
PUBMED 34255807
REMARK Publication Status: Online-Only
REFERENCE 2 (bases 1 to 7506)
AUTHORS Tohma,K., Lepore,C.J., Martinez,M., Degiuseppe,J.I., Khamrin,P.,
Saito,M., Mayta,H., Nwaba,A., Ford-Siltz,L.A., Galeano,M.E.,
Zimic,M., Stupka,J.A., Gilman,R.H., Maneekarn,N., Ushijima,H.,
Green,K.Y. and Parra,G.I.
TITLE Direct Submission
JOURNAL Submitted (23-NOV-2020) CBER/OVRR/DVP/LHV, U.S. Food and Drug
Administration, 10903 New Hampshire Avenue, Silver Spring, MD
20993, USA
COMMENT ##Assembly-Data-START##
Assembly Method :: High-performance Integrated Virtual
Environment (HIVE) v. 2
Sequencing Technology :: Illumina
##Assembly-Data-END##
FEATURES Location/Qualifiers
source 1..7506
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="T091"
/isolation_source="feces"
/host="Homo sapiens"
/db_xref="taxon:122929"
/geo_loc_name="Tunisia"
/collection_date="30-Sep-1976"
/note="genotype: GII.4[GII.PNA]"
gene <1..5069
/gene="ORF1"
CDS <1..5069
/gene="ORF1"
/codon_start=3
/product="nonstructural polyprotein"
/protein_id="QPJ59085.1"
/translation="AVANSNNDNAKSSSDGVLSSMAVTFKRALGARPKQPPPREIPQR
PPRPPTPELVKRIPPPPPNGEDEPVVSYSVRDGVSGLPELSTVRQPEETNTAFSVPPL
NQRENRDAKEPLTGTILEMWDGEIYHYGLYVERGLVLGVHKPPAAISLAKVELTPLSL
FWRPVYTPQYLISPDTLRRLHGELFPYTAFDNNCYAFCCWVLELNDSWLSRRMIQRTT
GFFRPYQDWNRKPLPTMDDSKLKKVANIFLCALSSLFTRPIKDIIGKLRPLNILNILA
SCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPEDLAAEIVPVVMG
GIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFPKKEEASELAMV
RSIEDAVLDLEAIENNHLTTLLKDKDSLATYMKTLDLEEEKARKLSTKSASPDIVGTI
NALLARIAAARSLVHRAKEELSSRPRPVVVMISGKPGIGKTHLARELAKKIATTLTGD
QRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTCPLTLNCDRIEN
KGKVFDSDAIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPDVEKAKRDFPGQPDM
WKNAFSSDFSHIKLMLAPQGGFDKNGNTPHGKGVMKTLTIGSLIARASGLLHERLDEY
ELQGPALTTFNFDRNKVLAFRQLAAENKYGLMDTMRVGGQLKGVRTMPELKQALKSIS
IKRCQIVYSGSTYTLESDGKGSVKVDRVQSATVQTNNELAGALHHLRCARIRYYVKCV
QEALYSIIQIAGAAFVTTRIVKRMNIQDLWSKPQLEDTEEAAGKEGCPKPKDYEEFVV
SSDDIKAEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKYSIEEYLQDR
DKYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGLVTGSEIRKRNPD
DFKPKGKLWADDDRSVDYNEKLNFEAPPSIWSRIVNFGSGWGFWVSPSLFITSTHVIP
QGTQEFFGVPIKQIQIHKSGEFCRLRFPKPIRTDVTGMILEEGAPEGTVVTLLIKRPT
GELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGDCGCPYIYKRGN
DYVVIGVHTAAARGGNTVICATQGNEGEATLEGGDNKGTYCGAPILGPGSAPKLSTKT
KFWRSSTAPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKPFTEPRGKQPKPSVLE
AAKRTIINVLEQTIDPPQKWSFAQACASLDKTTSSGHPHHIRKNECWNGESFTGKLAD
QASKANLMFEEGKNMTPIYTGALKDELVKTDKIYGKIKKRLLWGSDLATMIRCARAFG
GLMDELKAHCVTLPVRVGMNMNEDGPIIFEKHSRYRYHYDADYSRWDSTQQRAVLAAA
LEIMVKFSPEPHLAQIVAEDLLSPSVMDVGDFKISINEGLPSGVPCTSQWNSIAHWLL
TLCALSEVTDLSPDIVQANSLFSFYGDDEIVSTDIKLDPEKLTAKLKEYGLKPTRPDK
TEGPLIISEDLNGLTFLRRTVTRDPAGWFGKLEQSSILRQMYWTRGPNHEDPSETMIP
HSQRPTQLMSLLGEAALHGPAFYSKISKLVITELKEGGMDFYVPRQEPMFRWMRFSDL
STWEGDRNLAPSFVNEDGVE"
mat_peptide <1..959
/gene="ORF1"
/product="p48"
mat_peptide 960..2057
/gene="ORF1"
/product="NTPase"
mat_peptide 2058..2594
/gene="ORF1"
/product="p22"
mat_peptide 2595..2993
/gene="ORF1"
/product="VPg"
mat_peptide 2994..3536
/gene="ORF1"
/product="Pro"
mat_peptide 3537..5066
/gene="ORF1"
/product="RdRp"
gene 5050..6666
/gene="ORF2"
CDS 5050..6666
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="QPJ59086.1"
/translation="MKMASNDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ
QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSMPLSPELNPYLSHLSRMYNGYAGG
FEVQVILAGNAFTAGKIIFAAIPPNFPTDGLSPSQVTMFPHIIVDVRQLEPVLIPLPD
VRNNFYHYNQANDSTLKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFTVPILTVDEMTNSRFPTPLEKLHTGPNNSIVVQPQNGRCTIDGVLLGTT
QLSTVNICNFRGSTTRAGQSHAYTMNLVSQNWNNYDPTEEIPAPLGTPDFVGKIVGML
SQTTRENSSTRAHKATVSTGDAHFTPKSGSVLFTTDTDDLQNGQNTRFTPVGVAQDGE
PHQNEPQQWRLPNYSGTPGHNVHLAPPVAPTFPGEQLLFFRSTMPGCGGYPNMDLDCL
LPQEWVRHFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKAGYITVSHTGPYDLVIP
PNGYFRFDSWVNQFYALAPMGTGTGRRRAL"
gene 6666..7457
/gene="ORF3"
CDS 6666..7457
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="QPJ59087.1"
/translation="MAGAFFAGLASDVLGTGLGSLIGAGAGAINQKVEYENNRKLQQA
SFQFSSDLQQASFQHDKDMLQAQIKATQKLQHDLMRVKQAVLLEGGFSPTDAARGAIN
APMTKVLDWSGTRYWAPGARVTTSNAGQFSFSQPIREPSGRTAPARSPANRASSVSAP
SSTLSNQTTSTRLGTSAGSGASVSGSSSASRVRSWVEGQNRSLSPFMDGALHTSFVTP
PSSKSSSQGTVSTVPKEVLDSWTGAFNTHRQPLFAHVRRQGESRV"
ORIGIN
1 ccgctgttgc taacagcaac aacgacaacg caaaatcttc aagtgacgga gtactttcta
61 gtatggctgt cacttttaaa cgagccctcg gggcacggcc taagcagccg cccccgaggg
121 agataccaca aagaccccca cgaccgccca ctccggagtt ggtcaagagg atacctcccc
181 cccctcctaa tggggaggat gaaccagtgg tctcttatag tgtcagagat ggtgtctccg
241 ggctgcctga gctctccact gtcaggcagc cagaagagac caacacagca tttagtgtcc
301 ctccacttaa ccagagagag aacagggatg ccaaagagcc actgactgga acaatcctgg
361 agatgtggga tggggagatc taccattatg gcttgtatgt ggaacggggc ttagtgcttg
421 gcgtgcacaa accaccagca gccattagcc tcgccaaggt tgaactgaca ccactctctt
481 tgttttggag acctgtgtac actccccagt acctcatctc cccagacact cttaggagac
541 tgcatgggga actgttccct tacacagcct ttgacaacaa ttgctatgcc ttctgttgct
601 gggttctaga actgaatgac tcatggctga gtaggaggat gatacagagg acaactggtt
661 tctttagacc ttaccaagac tggaacagga agccccttcc caccatggat gattccaaac
721 taaagaaggt ggccaacata ttcctatgtg ccttgtcttc attgttcacc agaccaatca
781 aggacataat agggaagcta agacccctta acatccttaa catcttggct tcatgtgatt
841 ggacctttgc aggcatagtg gaatccctaa tccttttagc agagctcttt ggagttttct
901 ggacgccccc agacgtgtct gcgatgattg cccccttgct gggtgactac gagctacagg
961 ggcctgagga cctcgcggca gaaatagtgc cagtagtgat ggggggaata ggtttggtgc
1021 taggattcac caaagaaaag attgggaaga tgttgtcatc tgctgcatcc acattgaggg
1081 cttgtaaaga ccttggtgca tacggtctgg agatcttaaa actggtcatg aagtggttct
1141 tcccaaagaa agaggaggca agcgagttgg ccatggttag gtccattgag gatgcagtgt
1201 tggacctcga agcaattgaa aacaaccact tgaccacctt gcttaaggac aaggacagcc
1261 tggcgactta catgaaaact ctcgaccttg aggaagagaa agccaggaaa ctctcaacta
1321 agtctgcttc acctgatatc gtgggtacaa tcaacgctct cctggcgagg attgcagctg
1381 cccgttccct agtgcatcgg gcgaaggaag agctttccag caggccgaga cctgttgttg
1441 tgatgatatc aggaaaacca gggataggga agacccacct cgccagagag ctggccaaaa
1501 agatcgcaac caccctcacg ggggaccaga gagtgggcct tatcccacgc aatggcgtcg
1561 accactggga tgcatacaag ggagagaggg tcgtcctttg ggatgactac ggaatgagca
1621 accccatcca cgacgctctc aggttgcagg agcttgctga cacctgcccc ttaacactaa
1681 attgtgatag aattgaaaac aaaggtaaag tctttgacag tgatgctata atcatcacca
1741 ctaacttggc caacccagca ccactggact atgtcaattt tgaggcgtgc tcaaggcgca
1801 ttgatttcct cgtgtacgcc gaagcccctg atgtcgagaa ggcgaagcgc gacttcccgg
1861 gccaacctga catgtggaag aatgctttca gctctgactt ctctcacata aagctgatgc
1921 tggctccaca gggtggtttt gacaagaatg gcaacacccc acatgggaag ggcgtcatga
1981 agaccctcac tatcggttcc ctcatcgccc gcgcttcagg gctccttcat gagaggctgg
2041 atgagtacga gctgcaaggc ccagccctta caaccttcaa ctttgaccga aacaaagtgc
2101 tcgccttcag gcagctggct gctgaaaaca agtatgggtt gatggacaca atgagagttg
2161 gagggcaact caagggcgtc agaaccatgc cagagctcaa gcaagcactc aagagcatct
2221 caattaagag gtgccagata gtgtatagtg gcagcaccta tacacttgag tctgatggca
2281 agggcagtgt aaaggttgac agagttcaga gcgctactgt gcagaccaac aatgagctag
2341 ccggcgccct acaccacctc aggtgtgcca ggattaggta ctacgtcaag tgtgttcagg
2401 aggccctgta ctccatcatc caaattgcag gggccgcatt tgtcaccaca cgcattgtca
2461 agcgcatgaa catacaggac ctttggtcta agccacagct ggaggacaca gaagaagctg
2521 ccggtaaaga agggtgccca aaacccaaag attatgagga gtttgttgtc tcgtctgacg
2581 acatcaaggc cgagggcaag aaagggaaga acaagaccgg tcgcggcaag aaacacacag
2641 ccttctcgag taaaggtctc agtgatgagg agtacgatga gtacaaaaga atcagggagg
2701 aaagaaacgg caagtactct atagaggagt atctccagga tagagacaag tattatgagg
2761 aggttgccat cgccagagcg actgaggagg atttctgcga agaagaagag gccaaaatcc
2821 ggcagagaat cttcagacca acaaggaaac aacgcaagga agagagagct tctctcggcc
2881 tagtcacggg ctccgaaatc aggaaaagaa acccggatga cttcaaacct aagggaaagc
2941 tatgggccga tgacgacaga agtgtcgact acaatgagaa gctcaatttt gaagccccac
3001 caagtatctg gtcaaggata gtcaactttg gctcaggttg gggtttctgg gtttctccta
3061 gtctgttcat aacatcaact catgtcatac cccagggcac acaggagttc tttggagtac
3121 ccatcaaaca gatccaaata cacaagtcag gcgagttctg ccgtttgagg ttcccaaagc
3181 caattagaac tgatgtaacg ggtatgatct tggaggaggg tgcccccgaa ggaaccgtgg
3241 tcacgctact catcaagaga ccaactggtg aactcatgcc cttagcagcc agaatgggca
3301 ctcatgcaac tatgaaaatc caaggtcgca ctgttggagg tcaaatgggt atgctcctaa
3361 cagggtctaa tgctaagagt atggacctgg gcaccacacc cggtgactgt ggttgccctt
3421 acatctataa gagggggaat gactacgtgg tcatcggggt tcacacggct gctgctcgtg
3481 gaggaaacac cgtcatatgc gccactcagg gaaatgaagg tgaggccaca cttgaaggtg
3541 gtgacaacaa aggcacctac tgtggtgccc cgatcctagg cccaggaagt gccccaaaac
3601 tcagcaccaa gactaaattt tggagatcat ccacagcacc actcccgcct ggcacctatg
3661 aaccagctta cctcggcggt aaggacccca gagttaaggg tggtccatca ctacaacagg
3721 tcatgaggga tcagttgaaa ccattcacag aaccacgagg caaacaacca aagccaagtg
3781 tgctggaagc tgccaagaga accatcatta atgtccttga acaaacaata gacccacctc
3841 aaaaatggtc attcgcgcaa gcttgcgcgt ctcttgacaa aaccacctcc agtggtcacc
3901 cacaccatat acggaagaat gagtgctgga atggggagtc ctttacaggt aagttggcgg
3961 atcaggcttc aaaggccaac ttgatgtttg aggaggggaa gaacatgact ccaatttata
4021 caggtgccct caaggatgag ttagtcaaaa ctgacaagat atatggtaag atcaagaaga
4081 ggctgctttg gggatcggac ctggcaacca tgatccggtg cgcccgggcg ttcggaggcc
4141 tgatggatga gctcaaggcc cactgtgtca cacttcccgt cagagttggc atgaacatga
4201 atgaggatgg ccccatcatc tttgagaagc actccaggta cagataccat tatgatgcag
4261 attactctcg gtgggactca acacaacaga gagctgtgct agctgcagcc ctggagatca
4321 tggttaaatt ctccccagag ccacacttgg cccagatagt tgcagaagac ctcttatccc
4381 ctagtgtgat ggacgtaggt gatttcaaga tatcaatcaa cgagggcctt ccctccgggg
4441 taccttgcac ctcacaatgg aactccatcg ctcactggct cctcacactc tgtgcactct
4501 ctgaagtcac ggacctctcc cctgacatcg tccaggccaa ttctcttttc tccttctatg
4561 gtgatgatga aattgtgagt acagatataa aattggaccc agaaaaattg acagcaaaat
4621 tgaaagaata cgggctgaaa ccaactcgcc ctgacaagac tgagggaccc ctgatcattt
4681 ctgaggatct aaatggtttg actttcttgc ggaggactgt gacccgtgac ccagctggtt
4741 ggtttggcaa actggaacag agttcaatac tcaggcagat gtactggacc aggggcccca
4801 accatgagga cccatctgaa acaatgatac cacactccca aaggcccaca caactgatgt
4861 ccctgctggg tgaggctgcg ttacacggcc cagcgttcta tagcaaaatc agcaaactgg
4921 tcatcacaga gttgaaagaa ggtggcatgg atttttacgt gcccaggcaa gagccgatgt
4981 tcagatggat gagattctca gatctgagca cgtgggaggg cgatcgcaat ctggctccca
5041 gttttgtgaa tgaagatggc gtcgaatgac gccaacccat ctgatgggtc cgcagccaac
5101 ctcgtcccag aggtcaacaa tgaggttatg gctttggagc ctgttgttgg agctgctatt
5161 gcagccccag tggcaggtca acaaaatgta attgacccct ggattagaaa caattttgtg
5221 caagcccccg gtggggagtt tacagtgtct cctagaaatg ccccaggtga aatattatgg
5281 agtatgcctt taagccctga attgaacccc tacctttcac atttatctag gatgtataat
5341 gggtatgcag gtggttttga ggtgcaggtg atcctcgcgg ggaatgcgtt caccgcgggg
5401 aagatcatat tcgcagcaat ccccccaaat tttcccactg atggcctgag tcctagtcag
5461 gtcaccatgt ttccgcatat aattgtggat gttagacaat tggaacctgt gctgataccc
5521 ttacccgatg ttaggaacaa tttttatcat tataatcagg caaatgattc caccttgaaa
5581 ttgatagcta tgctgtacac accacttaga gctaataatg ctggagatga tgtttttact
5641 gtttcttgcc gtgtattaac aaggccatcc cctgattttg atttcatatt cttggtccct
5701 cccacagtcg aatcaagaac gaaacctttc actgtcccta tactgactgt tgatgaaatg
5761 accaattcga ggttccctac ccccctggag aaattgcata cgggcccaaa caactctata
5821 gttgtccaac ctcagaatgg aaggtgcaca attgatggcg tcctcttggg cactacgcag
5881 ttgtccaccg tcaacatctg caactttaga ggtagcacca cacgtgcagg tcagtcacac
5941 gcctacacga tgaatttggt ctctcaaaat tggaacaatt atgacccaac agaggagatt
6001 ccagcccctt tggggacacc agactttgtc gggaagatcg tgggcatgct ctcgcagacc
6061 accagagaga acagttcaac gcgagcccac aaggccacgg tgagcactgg agatgcccac
6121 ttcacgccaa agtcaggcag tgtcttgttc accactgaca ctgacgacct ccaaaatggc
6181 caaaatacaa gattcacccc agtcggagtt gcacaagatg gtgaacccca ccagaatgag
6241 ccacaacaat ggcgactccc aaattattct ggcacacccg gccacaatgt gcacctggca
6301 ccccctgtcg cacccacttt cccaggtgaa cagttgctct tctttaggtc caccatgcca
6361 ggttgtggtg gttatcctaa catggatttg gattgcctgc tccctcaaga gtgggtgcgc
6421 catttctacc aagaagccgc accagcacaa tctgatgtgg ctctgctgag gtttgtgaat
6481 ccagacacgg gaagggtgtt atttgagtgc aagctccaca aggcaggata catcacagtc
6541 tctcacactg gtccctatga cttggtcatt ccacctaatg gttactttag atttgattcc
6601 tgggttaatc agttttatgc acttgccccc atgggaactg gaacggggcg cagacgtgct
6661 ttataatggc tggggctttc tttgctggat tagcgtctga cgtactcggc accggccttg
6721 gttctctaat cggcgccggg gctggcgcca tcaatcagaa agtggaatat gagaataaca
6781 gaaaattgca gcaggcttcc ttccaattta gtagtgattt acagcaagct tctttccaac
6841 atgataagga tatgctccaa gctcagatta aggcaaccca aaaattgcaa catgatctta
6901 tgagagtcaa gcaggcagtg ctactagagg gaggcttttc ccccaccgac gctgcacgtg
6961 gtgcaatcaa cgcacctatg acaaaggtct tggactggag cgggactcgc tactgggctc
7021 ctggggctag ggttacaaca tctaacgcag gccaattctc tttctcacaa cccatccggg
7081 agccatctgg caggaccgcc cccgcccgaa gtcccgccaa tcgagcttct agtgtatctg
7141 caccctcttc tacactttct aatcaaacaa cctcaacgag acttggcact tcagcaggtt
7201 ctggtgccag tgtctcgggc tcttcatcgg cctcgagggt taggagctgg gtagagggcc
7261 aaaacaggag cctttcgccc ttcatggacg gggcgctcca cacttcattt gtcacacccc
7321 catcaagtaa gtcctctagc caaggcacag tctcaaccgt gcccaaagaa gttttggact
7381 cctggactgg tgctttcaac acgcacagac agccgctctt cgcccacgtg cgcagacaag
7441 gggagtcacg agtttaaagt gaaaagatta cttaaaattt tctttttctt aagattagtg
7501 tctttt
//