Typing tool
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Typing tool
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Complete norovirus genomes
| MW305611 | GII.6 | |
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| GII.P7 |
ORF1: 1..5063
ORF2: 5044..6687
ORF3: 6687..7463
LOCUS MW305611 7515 bp RNA linear VRL 06-JUL-2021
DEFINITION Norovirus GII isolate Arg5448 nonstructural polyprotein (ORF1)
gene, partial cds; and VP1 (ORF2) and VP2 (ORF3) genes, complete
cds.
ACCESSION MW305611
VERSION MW305611.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7515)
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 Genome-wide analyses of human noroviruses reveal coexistence of
viral populations evolving under recombination constraints
JOURNAL Unpublished
REFERENCE 2 (bases 1 to 7515)
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..7515
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="Arg5448"
/isolation_source="feces"
/host="Homo sapiens"
/db_xref="taxon:122929"
/country="Argentina"
/collection_date="2008"
/note="genotype: GII.6[GII.P7]"
gene <1..5063
/gene="ORF1"
CDS <1..5063
/gene="ORF1"
/codon_start=3
/product="nonstructural polyprotein"
/protein_id="QPJ59169.1"
/translation="LGSQNSVNDSNNTAPSSKEEVGAFSNIKVGFKKMLGAVPKGTKT
PSSDQPCPTVKIGTKTLAVPPEPPNGEDTVQFDAKSETVRGLPDLTTVQNEHENTPYT
VPPLSEREHRPATEPLPGTILEMWDGEFYHYSVYVSGGKALGVHKPPAAISLATIELT
PISLYWRPVYTPNYLVCPDTLKGLAGEKFPYTAFSNNCYNFCCWVLELNDTWLSRRSI
SRTTGFFKPYQSWNRKPLPTVDDGKIKKVANAILCALGSLFSKPIKDLLGKLKPLNLL
HLLASCDWTFAGIVETVILMAELFNIFWTPPDVSNFIASLIGDFELQGPEDLAVELVP
VVMGGIGMVLGFTAEKIGRMLSSAASTLRACKDLGNYALDILKLVMKWFFPKKEEKAE
METLRAIEDAVLDMEAIGNNHLTTLLKDKDSLTAFMKTLDLEEEKARKLSTKSSSPDI
VGTINAILARIAAARSLLHKAKEEMFSRIRPVVVMISGRPGIGKTHMARHLAKSIANT
MSGDQRVGLVPRNGVDHWDAYRGERVVLWDDYGMGNPVKDALTLQELADTCPVTLNCD
RIENKGKMFDSDVIIITTNLVNPAPLDYVNFEACSRRVDFLVYAESPEIEKVKRDFPG
QPDMWKDHFKPDFSHIKLTLAPQGGFDKNGNTPHGKGTMRSLTQGSLTARVAGLVHER
RDEFQLQGNDLQTYNFDTNRVSAFRKLAADNKYGIMETMRVGTALKNVKTLEDLKVAL
RDVKFNECEIIYRNSRYRVSSNGKGSVSVDKVEDQASQTANEVGSALLRLRQARARYY
VSCFQDLVYTLIQVAGASFVVNRISKRFCWERWVKPTETQETNESEKEVAQGRWEIEP
KDTEPEGKKGKNKKGRGKKHTAFSSKGLSDEEYDEFKRIREERNGKYSIEEYLQDRDR
YYEEVAVARATEEDFCEEEEAKIRQRIFRPTKKQRKEERGVLGLITGSDIRKRRPDDF
QPKGNLWADDTRSVDYNERLDFEAPPSVWSRIVPLGTGWGFWVSSNLLITTTHVLPKG
IKELFGVEIKQIQVHKSGEFCRFRFPRPIRPDVTGLVLEEGAPEGTVCSILVKRPTGE
MIPLAVRMGTHASMKIQGRTVGGQMGMLLTGANAKNMDLGTGPGDCGCPYIYKRGNDI
VVAGVHTAAARGGNTVICATQGQDGEAILEGNENLGTYCGAPILGPGKAPKLSTKTKF
WRSSPDALPPGTYEPAYLGGKDPRVEKGPSLQQVMRDQLKPFTEPRGKPPRPAVLEEA
KRTVMNVLEQTIDPAKPWTYSQACASLDKTTSSGSPHHVRKNDHWNGESFTGPLADQA
SKANLMYEQAKHVQPVYTAALKDELVKTDKIYKKIKKRLLWGSDLGTMIRCARAFGGL
MDSMKASCMALPCRVGMNMNEDGPIIFDKHSKYRYHYDADYSRWDSTQQRSILSAAME
VMVRFSAEPELAQVVAEDLLAPSQLDVGDFIISVQEGLPSGVPCTSQWNSIAHWILTL
SAMAEVSGLSPDVVQAHSCFSFYGDDEIVSTDINLDPMKLTQKLREYGLVPTRPDKTE
GPLVITEDLTGLTFLRRSIARDPAGWFGKLDQDSILRQLYWTRGPNHENPYESMVPHS
QRATQLMALLGEASLHGPQFYKKVSKMVINEIKSGGLEFYVPRQEAMFRWMRFSDLST
WEGDRNLAPEGVNEDGVE"
mat_peptide <1..971
/gene="ORF1"
/product="p48"
mat_peptide 972..2069
/gene="ORF1"
/product="NTPase"
mat_peptide 2070..2588
/gene="ORF1"
/product="p22"
mat_peptide 2589..2987
/gene="ORF1"
/product="VPg"
mat_peptide 2988..3530
/gene="ORF1"
/product="Pro"
mat_peptide 3531..5060
/gene="ORF1"
/product="RdRp"
gene 5044..6687
/gene="ORF2"
CDS 5044..6687
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="QPJ59170.1"
/translation="MKMASNDAAPSNDGAANLVPEANNEVMALEPVVGASIAAPVVGQ
QNIIDPWIRENFVQAPQGEFTVSPRNSPGEMLLNLELGPELNPYLSHLSRMYNGYAGG
MQVQVVLAGNAFTAGKIIFAAVPPHFPVDNISAAQITMCPHVIVDVRQLEPVLLPLPD
IRNRFFHYNQENTPRMRLVAMLYTPLRANSGEDVFTVSCRVLTRPAPDFEFTFLVPPT
VESKTKPFTLPILTLGELSNSRFPAPIDMLYTDPNEAIVVQPQNGRCTLDGTLQGTTQ
LVPTQICSFRGTLISQTSRSADSTDSAPRVRNHPLHVQLKNLDGTPYDPTDEVPAVLG
AIDFKGTVFGVASQRNTTGNSVGATRAHEVHIDTTNPRYTPKLGSVLMYSESADFDDG
QPTRFTPIGMGADDWRQWELPEYSGHLTLNMNLAPAVAPAFPGERILFFRSVVPSAGG
YGSGQIDCLIPQEWVQHFYQEAAPSQSAVALIRYVNPDTGRNIFEAKLHREGFITVAN
SGNNPIVVPPNGYFRFEAWVNQFYTLTPMGTGQGRRRVQ"
gene 6687..7463
/gene="ORF3"
CDS 6687..7463
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="QPJ59171.1"
/translation="MAGAFLAGLAGDAITNGVGSLINAGANAINQKVEYDFNKQLQLA
SFKHDKEMLQSQVLATKQLQQEMMNIRQGVLSAGGFSPTDAARGAVNAPMTRILDWNG
TRYFAPNSMKTTSYSGQFSSNPVHVQPTLSRSNSSKIKVNSDSASVYSSASTAPSQST
HSTVLTAGSGSSRTTSSSAATSTLSRTSDWVRGQNERLSPFMDGALQTTFVTPPSSKA
SSYGSVSTIPKAVLDSWTPMFNTHRQPFFAHVRRRGESQI"
ORIGIN
1 cccttggcag ccaaaactct gtcaatgaca gtaacaacac cgccccttct agtaaagaag
61 aggttggtgc attctccaac attaaagttg gatttaagaa aatgctgggt gccgttccta
121 aggggactaa aacgcccagt agtgaccagc cctgccccac ggttaagatc gggaccaaaa
181 cattagcagt tccccctgag cccccgaacg gtgaagacac cgtacagttt gatgcgaagt
241 cagaaactgt acgtgggttg ccagacttaa caacggtgca aaatgaacac gaaaacacac
301 catacactgt ccccccattg agtgagaggg aacacagacc agccactgag ccgctccctg
361 gcacaatact ggagatgtgg gatggtgaat tctaccacta ttccgtgtac gtcagcggtg
421 gcaaagccct aggggtgcac aaacccccag cagcaataag tctcgcgacg atagagctca
481 cccccatatc tctttactgg aggcctgttt atacccccaa ctacctggtc tgcccagaca
541 cgttgaaagg cctcgctggt gagaagtttc cctacacagc cttcagcaac aactgttaca
601 atttctgttg ctgggtgctt gagctcaatg acacgtggct tagcagaaga agcatctcca
661 ggactaccgg cttcttcaaa ccatatcagt cttggaatag gaaacccctc ccaaccgttg
721 atgatggaaa gatcaaaaag gtggctaacg cgatcctctg tgcacttgga tcactgtttt
781 caaaaccaat caaagacctg ttgggcaaac ttaaaccatt aaatttgcta cacttgctcg
841 catcatgtga ttggacgttt gcgggcatag tggagacagt tatccttatg gcggaactct
901 tcaacatctt ttggacacca ccagatgttt ccaacttcat agcctccctg ataggtgatt
961 ttgaattgca agggcctgag gacctggctg tagagctagt ccccgtggtc atgggtggca
1021 taggaatggt tctcggtttc actgctgaga agataggtcg catgttgtcg tccgctgcat
1081 caacactgcg ggcatgcaaa gacctgggta attatgccct tgacatactt aagctggtta
1141 tgaagtggtt cttcccaaag aaagaggaga aagccgagat ggaaacctta agggcgattg
1201 aggacgccgt actggacatg gaagctatag ggaacaatca ccttacaacc ctcctcaagg
1261 ataaggatag cctcacggct ttcatgaaaa ctctggacct agaagaagag aaggcaagga
1321 agctgtctac caagtcatcc tcgccagaca tcgtcggcac catcaatgcc atactggcca
1381 gaatagctgc tgccaggtcc ctcctacata aggccaaaga agagatgttt agcaggatca
1441 gaccggtggt tgttatgatc tcaggcagac ctggcattgg aaaaacccac atggcgagac
1501 acttggctaa gagcatcgcc aacaccatga gtggcgacca gagagtcggg ctcgttccgc
1561 gcaacggggt cgatcactgg gacgcctaca ggggagagag ggtagtcttg tgggatgact
1621 atggcatggg taaccctgtc aaggatgctc taactctgca agagctggcc gacacctgcc
1681 cagtcactct aaactgtgat aggattgaga acaaggggaa gatgtttgac agtgatgtta
1741 tcataatcac gaccaatcta gtcaacccag cgcccctcga ttacgtgaac ttcgaggcat
1801 gctccagaag ggtagacttt ctggtctacg cagagtcacc agaaattgag aaggtcaaga
1861 gagacttccc cggccaacct gacatgtgga aggatcattt taagccagac ttctcccaca
1921 taaagctgac tctagccccc cagggtggat ttgacaagaa cggcaacacc ccgcatggta
1981 agggcaccat gcgatcccta acccaggggt ccctaactgc aagggttgca ggtctcgttc
2041 acgagaggag agatgagttt cagcttcaag ggaacgacct ccaaacttac aactttgaca
2101 ccaacagggt ttccgcattt aggaagctgg ccgcagacaa caaatatggg atcatggaaa
2161 caatgagagt aggtacggct ctcaagaatg tcaagacttt ggaagatctg aaagttgctc
2221 tgagggatgt gaagttcaat gagtgtgaaa taatttacag gaattccaga tatcgagtct
2281 cttccaacgg caaaggctct gtctctgttg ataaagttga ggaccaagca tcccagactg
2341 caaacgaggt gggttcagca ctccttagac tcaggcaggc aagggccaga tactatgtca
2401 gctgctttca agacctcgtc tacactctaa tacaggttgc cggagcgtca ttcgttgtta
2461 acagaatctc caagagattc tgttgggaaa ggtgggtcaa accaaccgag acccaggaaa
2521 cgaatgaatc cgaaaaggag gtagcccaag gtagatggga gatcgagccc aaggacacag
2581 aaccagaggg caagaagggc aagaacaaga aaggaagagg caagaagcac acagctttct
2641 ccagcaaagg cctgagtgat gaggagtatg acgagttcaa gcgaatcaga gaagaaagaa
2701 acgggaaata ctccattgag gaataccttc aagaccggga tcgttactat gaggaagtgg
2761 cagttgcccg ggcgacggag gaggacttct gtgaagagga ggaggccaaa ataagacaaa
2821 gaattttccg ccccacaaag aagcaaagaa aggaagaaag gggggtgctt ggtttgatca
2881 ccggttcaga tatcaggaag aggagaccag acgacttcca accaaagggc aacctatggg
2941 cagacgacac cagaagtgtg gactacaatg aaagacttga tttcgaggct cccccgagtg
3001 tctggtcgag aatagtcccg ttgggcactg gctggggctt ctgggtctca tccaatctct
3061 taatcacaac aacacacgtc ctgcctaaag ggattaagga actttttgga gttgaaatca
3121 aacagatcca agtccataag tctggagagt tttgcaggtt caggttccca agaccaatca
3181 ggccagatgt cacagggctc gtgttggagg aaggtgctcc agaaggcact gtctgttcca
3241 tactcgtgaa aagacctaca ggtgagatga tccccctggc agtgaggatg ggcacacatg
3301 catccatgaa gatacagggt aggaccgtcg gtggtcagat gggaatgctc ctaactgggg
3361 caaacgcaaa gaacatggat cttggcaccg gccctggtga ctgcggttgt ccttacatct
3421 acaaacgcgg caatgacata gttgtcgcgg gtgtccacac cgcagcagcc cgggggggca
3481 acactgtcat atgtgccact caagggcaag atggggaggc aatccttgag ggaaatgaga
3541 accttggcac ttactgcggt gccccaattt tgggtcctgg caaggcgccc aagctcagca
3601 cgaagaccaa attctggcgt tcatcaccag acgccttgcc gccaggtacc tatgaacctg
3661 cctacctagg aggcaaagac cccagagtag aaaaagggcc gtccctgcag caagtcatga
3721 gggaccagtt aaaacctttc acagaaccaa ggggcaaacc acctagacct gcagtcttag
3781 aagaagccaa aaggacagtg atgaatgttc tagagcaaac catcgaccct gctaagccat
3841 ggacctactc ccaagcatgt gcctcactgg ataagaccac ttccagtggt agcccccacc
3901 atgtcaggaa aaacgaccat tggaacgggg aatccttcac cggccccctt gcagatcaag
3961 cgtccaaagc caacctcatg tatgaacagg ccaaacatgt gcagccagtg tacacggccg
4021 cactcaaaga cgagctcgtc aagactgaca agatctacaa aaagataaag aagaggctct
4081 tatgggggtc ggatcttggc acgatgatca ggtgcgccag ggcttttggt ggtctcatgg
4141 acagcatgaa ggcaagctgc atggccctcc catgcagggt gggaatgaac atgaatgaag
4201 atggtcccat tatatttgac aaacattcta agtacaggta ccattatgat gcagactact
4261 ccaggtggga ttcaactcag caaaggagca ttctctcagc cgctatggaa gtgatggtgc
4321 ggttttctgc cgagccagaa ctggcacaag tggtcgcaga ggaccttttg gctcccagcc
4381 aactagatgt tggtgatttt atcatctcag tccaggaggg tctgccatca ggggtcccat
4441 gcacatcaca gtggaactca atagcacatt ggatcctaac cttgagtgcg atggcagaag
4501 tgtcaggtct ctcaccagat gttgtccaag cccactcctg tttctcattc tatggcgacg
4561 atgagatcgt cagcactgac atcaaccttg accccatgaa gttgacacag aaactcaggg
4621 agtatggctt agtccccacc cgacctgaca aaactgaagg tcccctcgta ataactgagg
4681 acctcaccgg cctaacgttc ctacgtaggt cgattgcacg agacccagct ggatggtttg
4741 gaaaattgga tcaagattca atccttaggc agttatactg gacacggggc cccaaccatg
4801 aaaacccata cgagagcatg gtccctcatt ctcagcgggc cacacagctc atggctcttc
4861 ttggtgaagc atcactgcat ggcccccagt tttacaagaa agttagcaag atggtcatca
4921 atgaaatcaa gagtggtggt ctggaatttt atgtgcccag acaagaggcc atgtttagat
4981 ggatgagatt ctctgacctc agcacatggg agggcgatcg caatcttgct cccgagggtg
5041 tgaatgaaga tggcgtcgaa tgacgctgct ccatcgaatg atggtgctgc caacctcgta
5101 ccagaggcca acaatgaggt tatggcactt gagccggtgg tgggagcctc aattgcagct
5161 cctgtcgtcg gccaacagaa tataattgac ccctggatta gagaaaactt tgttcaggca
5221 ccacagggtg agtttactgt ttcaccaagg aactcacctg gtgagatgct tttaaatctt
5281 gaattaggcc ctgagctcaa cccttatctg agtcatttgt cccgcatgta taatggctat
5341 gctggtggta tgcaggttca ggtggtccta gctgggaatg cgttcacagc tggtaaaatc
5401 atctttgccg ccgttccacc acatttccct gtagataata ttagtgcagc ccaaattaca
5461 atgtgccccc atgtgattgt tgatgtgaga cagcttgagc cagtgctttt gcccctccct
5521 gatataagga ataggttctt tcattacaat caggaaaaca ccccccgaat gagacttgtg
5581 gctatgttgt acacacccct tagagcaaat tctggtgagg atgtattcac ggtgtcttgc
5641 agagtcctga cccgcccagc ccccgacttt gagttcactt tcttagtgcc accaactgtg
5701 gagtcaaaga ccaagccctt cacactccct attctgactc ttggagagct gtccaattct
5761 agattccccg ctccgataga tatgctgtac acagatccca atgaggcaat tgtggtacaa
5821 ccacaaaatg gcaggtgcac tctagatgga acacttcaag ggactaccca actggtgccc
5881 acccaaattt gctccttcag gggcacgctg attagccaga cgtcgaggtc tgcagattca
5941 acagattcag ctccacgggt gaggaaccac cctctccacg ttcagctgaa gaacctcgac
6001 gggacaccat atgatccaac agatgaggtg ccagcggtcc tgggagccat agatttcaaa
6061 gggactgtgt ttggagtcgc tagccaaagg aacaccacgg gaaactctgt aggggcgacc
6121 cgtgcccatg aagtacacat agacaccaca aaccctagat acaccccgaa acttggctct
6181 gtgttgatgt attctgagtc tgctgatttt gatgatggac aacccacccg ctttacccct
6241 attggcatgg gagccgatga ttggcgccag tgggaactgc ctgaatattc tggtcacctt
6301 actctcaaca tgaacctggc ccccgcggtt gcccctgctt ttcctggtga gcgtatcctc
6361 ttcttcaggt cagtggtacc atctgccggc ggttatgggt caggtcaaat agattgcctc
6421 atcccacagg aatgggttca gcatttctat caggaggccg ctccatcaca atctgcggtg
6481 gctcttatta gatatgtcaa ccctgacact gggagaaaca tctttgaggc aaagctacat
6541 agagaggggt ttatcactgt ggcaaattct ggaaacaacc ccatagttgt gcccccaaat
6601 ggttacttca ggtttgaggc ctgggttaat caattctaca cactcacccc catgggaact
6661 ggacaggggc gcagaagagt tcaataatgg caggagcctt cttagctgga ttggcaggtg
6721 acgccataac aaatggtgtc gggtccctga tcaatgctgg ggccaatgca attaaccaaa
6781 aggtagagta tgattttaat aaacagctcc aattggcatc ctttaaacat gacaaagaga
6841 tgttgcagtc tcaagttctg gccaccaaac agctccagca ggagatgatg aacataaggc
6901 aaggggtctt gtccgctggc ggcttttccc ctacagatgc cgcgagaggt gctgtgaatg
6961 cgccgatgac aagaattttg gattggaatg gaacgaggta ttttgcccca aacagtatga
7021 aaacaaccag ttattcaggt cagttctcca gtaaccctgt gcatgtgcaa cccaccctgt
7081 ctcgttctaa ttcctcaaaa attaaggtta atagtgattc tgctagtgtg tatagttctg
7141 catctactgc tccttcacaa tcaacccatt cgacggtttt gactgcgggg tctgggtcat
7201 ctagaacaac atcctcttcc gcagcaactt ccactctatc taggactagt gactgggtaa
7261 gaggacaaaa tgaaaggctt agcccgttta tggatggtgc tcttcaaaca acttttgtca
7321 caccaccatc gagcaaggct tcatcatatg ggtcggtctc gaccatcccc aaagctgttt
7381 tggactcctg gactcctatg ttcaacaccc atagacagcc attcttcgct cacgttcgta
7441 ggcgagggga gtcacaaatt tagtgaaaag attgattagg ttttcttttc ttcctctttt
7501 ccttttcttt ctttt
//