Typing tool
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Typing tool
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Complete norovirus genomes
| MW305704 | GII.6 | |
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| GII.P7 |
ORF1: 1..5060
ORF2: 5041..6693
ORF3: 6693..7472
LOCUS MW305704 7478 bp RNA linear VRL 06-JUL-2021
DEFINITION Norovirus GII isolate CMH-N006-11-c2 nonstructural polyprotein
(ORF1) gene, partial cds; and VP1 (ORF2) and VP2 (ORF3) genes,
complete cds.
ACCESSION MW305704
VERSION MW305704.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7478)
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JOURNAL Unpublished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 7478)
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..7478
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="CMH-N006-11-c2"
/isolation_source="feces"
/host="Homo sapiens"
/db_xref="taxon:122929"
/country="Thailand"
/collection_date="23-Jan-2011"
/note="genotype: GII.6[GII.P7]"
gene <1..5060
/gene="ORF1"
CDS <1..5060
/gene="ORF1"
/codon_start=3
/product="nonstructural polyprotein"
/protein_id="QPJ59448.1"
/translation="GSQNSVNDSINTTPSNKEEAGAFSNIKVGFKKMLGAVPKGTKAP
SSDQHCPTVKIGPKTLTVPPEPPNGEDTVQFDAKSETVIGIPDLTTVQNEHENTPYTV
PPLSEREHRPATEPLPGTILEMWDGEFYHYSVYVSGGKALGVHKPPAAISLATIELTP
ISLYWRPVYTPNYLVCPDTLKGLAGEKFPYTAFSNNCYNFCCWVLELNDTWLSRRSIS
RTTGFFKPYQSWNRKPLPTVDDGKIKKVANAILCALGSLFSKPIKDLLGKLKPLNLLH
LLASCDWTFAGIVETVILMAELFNVFWTPPDVSNFIASLIGDFQLQGPEDLAVELVPV
VMGGIGMVLGFTAEKIGRMLSSAASTLRACKDLGNYALDILKLVMKWFFPKKEEKAEM
ETLRAIEDAVLDMEAIGNNHLTTLLKDKDSLTAFMKTLDLEEEKARKLSTKSSSPDIV
GTINAILARIAAARSLLHKAKEEMFSRIRPVVVMISGRPGIGKTHMARHLAKNIANTM
SGDQRVGLVPRNGVDHWDAYRGERVVLWDDYGMGNPVKDALTLQELADTCPVTLNCDR
IENKGKMFDSDVIIITTNLVNPAPLDYVNFEACSRRIDFLVYAESPEIEKVKRDFPGQ
PDMWKDYFKQDFSHIKLTLAPQGGFDKNGNTPHGKGTMRSLTQGSLTARVAGLVHERK
DEFQLQGNDLQTYNFDTNRVSAFRKLAADNKYGIMETMRVGAVLKNVKTLEDLKIALR
DVKFNECEIIYRNSKYRVSSNGKGSVSVDKVEDHTSQTANEVGSALLRLRQARARYYV
SCFQDLIYTLIQVAGASFVVNRISKRFCWERWVKPTEAQEASEPEKEVAQGRWEIEPK
DTEPEGKKGKNKKGRGKKHTAFSSKGLSDEEYDEFKRIREERNGKYSIEEYLQDRDRY
YEEVAVARATEEDFCEEEEAKIRQRIFRPTRKQRKEERGVLGLVTGSDIRKRRPDDFQ
PKGNLWADDTRSVDYNERLDFEAPPSVWSRIVPLGTGWGFWVSSNLLITTTHVLPKGV
KELFGVEVKQIQIHKSGEFCRFRFPRPIRPDVTGLVLEEGAPEGTVCSILVKRPTGEM
IPLAVRMGTHASMKIQGRTVGGQMGMLLTGANAKNMDLGTGPGDCGCPYIYKRGNDIV
VAGVHTAAARGGNTVICATQGQDGEAVLEGNEDLGTYCGAPILGPGKAPKLSTKTKFW
RSSPDALPPGTYEPAYLGGKDPRVEKGPSLQQVMRDQLKPFTEPRGKPPRPAVLEEAK
KTVMNVLEQTIDPAKPWTYSQACASLDKTTSSGSPHHVRKNDHWNGESFTGPLADQAS
KANLMYEQAKHVQPVYTAALKDELVKTDKIYRKIKKRLLWGSDLGTMIRCARAFGGLM
DSMKASCIALPCRVGMNMNEDGPIIFDKHSKYRYHYDADYSRWDSTQQRSILSAAMEV
MVRFSAEPELAQVVAEDLLAPSQLDVGDFVISVQEGLPSGVPCTSQWNSIAHWILTLS
AMAEVSGLSPDVVQAHSCFSFYGDDEIVSTDINLDPMKLTQKLREYGLVPTRPDKTEG
PLVITEDLTGLTFLRRSIARDPAGWFGKLDQDSILRQLYWTRGPNHENPYESMVPHSQ
RATQLMALLGEASLHGPQFYKKVSKMVINEIKSGGLEFYVPRQEAMFRWMRFSDLSTW
EGDRNLAPESVNEDGVE"
mat_peptide <1..968
/gene="ORF1"
/product="p48"
mat_peptide 969..2066
/gene="ORF1"
/product="NTPase"
mat_peptide 2067..2585
/gene="ORF1"
/product="p22"
mat_peptide 2586..2984
/gene="ORF1"
/product="VPg"
mat_peptide 2985..3527
/gene="ORF1"
/product="Pro"
mat_peptide 3528..5057
/gene="ORF1"
/product="RdRp"
gene 5041..6693
/gene="ORF2"
CDS 5041..6693
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="QPJ59449.1"
/translation="MKMASNDAAPSNDGAANLVPEANNEVMALEPVVGASIAAPVVGQ
QNIIDPWIRENFVQAPQGEFTVSPRNSPGEMLLNLELGPELNPYLSHLSRMYNGYAGG
MQVQVVLAGNAFTAGKIIFAAVPPHFPVDNISAAQITMCPHVIVDVRQLEPVLLPLPD
IRNRFFHYNQENTPRMRLVAMLYTPLRANSGEDVFTVSCRVLTRPAPDFEFTFLVPPT
VESKTKPFTLPILTLGELSNSRFPAAIDMLYTDPNESIVVQPQNGRCTLDGTLQGTTQ
LVPTQICAFRGTLISQNARAADSTDSPQRARNHPLHVQVKNLDGTQYDPTDDIPAVLG
AIDFKGTVFGVASQRDVSGTQEQGHYATRAHEAHIDTTDPKYAPKLGTILIKSESTDF
TTNQPIRFTPVGMGDNNWRQWELPDYSGSLTLNMNLAPAVSPSFPGERILFFRSIVPS
AGGYGSGYIDCLIPQEWVQHFYQEAAPSQSAVALVRYVNPDTGRNIFEAKLHREGFLT
VANSGNNPIVVPPNGYFRFEAWVNQFYTLAPMGSGQGRRRAQ"
gene 6693..7472
/gene="ORF3"
CDS 6693..7472
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="QPJ59450.1"
/translation="MAGAFFAGLAGDVVSNGIGSLINAGANAVNQKVEYDFNKQLQMA
SFKHDKEMLQSQVLATKQLQQEMMNIKQGMLTAGGFSPADAARGAVNAPMTKILDWNG
TRYWAPNSMKTTSYSGQFSSSPVHRSPAPLQHTAPPKSKLQSDSASVYSSPSTVSSQL
THSTVLSAGTGSSRSTPTTTATSTLSRTSDWVRGQNERLGPFMDGALQTTFVTPPSSK
ASSNGTVSTVPKAVLDSWTPMFNTHRQPLFAHLRRRGESQI"
ORIGIN
1 ttggcagtca aaactctgtc aatgacagta tcaacaccac cccttcaaac aaagaagagg
61 ctggtgcatt ctccaacatc aaagttggat ttaagaaaat gctgggtgcc gtacctaagg
121 gcactaaagc acccagcagt gaccagcact gtccaacagt taagatcggg cccaaaacac
181 taacagtccc ccctgaaccc ccaaatggtg aagacactgt acagtttgat gcaaaatcgg
241 aaactgtaat tgggataccg gacttgacaa cagtgcaaaa tgagcatgaa aataccccat
301 acactgtccc tccactgagt gagagggaac acagaccagc caccgagcca cttcctggca
361 caatattgga gatgtgggat ggtgaatttt accactactc cgtgtacgtc agcggcggca
421 aagctctggg ggttcacaaa cctccggcag ctataagtct cgcgacgata gagctcaccc
481 ccatatctct atactggagg cccgtttaca cccccaacta tctggtctgc ccagacacac
541 tgaaaggtct cgctggtgaa aagttcccct acacggcctt cagcaacaat tgctacaact
601 tctgttgctg ggtgcttgaa ctcaatgaca cgtggcttag cagaagaagc atttctagaa
661 ccaccggctt cttcaaaccg taccagtctt ggaacaggaa acctctccca accgttgatg
721 atggaaagat caaaaaggtg gccaacgcga tcctttgtgc actcggttcg ctgttctcaa
781 aaccaatcaa ggacctgcta ggcaagctca aaccattgaa cttactacac ctgctcgcgt
841 cgtgtgattg gacgtttgca ggtatagtgg agacagtcat cttaatggca gaactcttca
901 acgtcttttg gaccccgcca gacgtctcta attttatagc ctccctgata ggtgattttc
961 aattgcaggg gcctgaggac ttggcggtag agcttgttcc tgtggttatg ggtggtatag
1021 gaatggttct cggcttcaca gctgagaaga taggtcgcat gctgtcgtcc gctgcatcaa
1081 cactgcgggc gtgtaaagac ttagggaact atgcccttga catacttaaa ttggtcatga
1141 aatggttctt cccaaagaaa gaggagaaag ccgagatgga aaccttaagg gcgattgagg
1201 atgccgtcct agatatggag gccataggca acaaccacct cacgaccctc ctcaaggaca
1261 aagacagtct cacggccttc atgaagacct tggatctgga agaagagaaa gcaaggaagc
1321 tatccaccaa atcatcctcg ccggacatcg tcggcactat caatgccata ctggctagga
1381 tagctgccgc tagatccctc ctgcacaaag ccaaagaaga aatgttcagc aggatcagac
1441 cagtggttgt tatgatctca ggcagacctg gcattggcaa aactcatatg gcgagacatc
1501 tggctaaaaa catcgccaac accatgagtg gtgaccaaag agtcgggctc gttccgcgca
1561 acggggttga ccactgggac gcttacaggg gagagagggt ggtcttgtgg gatgattatg
1621 gaatggggaa ccctgtcaaa gatgctttaa cactacaaga gctagctgac acatgcccag
1681 tcactctaaa ctgtgacagg atcgagaaca agggaaagat gttcgacagt gatgtcatca
1741 taatcacgac caacctagtc aaccctgcac ctctcgatta tgtgaacttc gaggcgtgct
1801 ctagaagaat tgatttcttg gtctatgcag agtcaccaga aattgagaag gttaagaggg
1861 atttccctgg ccaacctgac atgtggaaag actatttcaa acaagacttt tcccatataa
1921 agctaaccct agccccccaa ggcggatttg acaagaatgg taacaccccg catggtaagg
1981 gcaccatgcg atccctcacc caggggtccc tgaccgcaag ggttgcaggc cttgttcatg
2041 agagaaagga tgagttccag ctacaaggga atgacctcca gacatacaac tttgacacca
2101 acagggtctc tgcgttcagg aaactggctg cagacaacaa gtatggaatc atggaaacaa
2161 tgagagtggg tgcagtgctc aaaaatgtca aaaccttgga agatctgaag atcgccttga
2221 gagatgtaaa gttcaatgag tgtgaaataa tctacaggaa ctctaagtac cgggtctctt
2281 ccaacggcaa gggctctgtt tctgttgaca aagttgagga ccacacgtct cagactgcaa
2341 atgaagtggg ctcagcactc ctcagactta ggcaagcaag ggctagatat tatgtcagct
2401 gcttccaaga cctcatctac actctcatac aggttgctgg ggcatcattc gttgtcaaca
2461 ggatctctaa aaggttctgc tgggaaaggt gggttaaacc aaccgaagcc caagaagcga
2521 gtgagcccga aaaggaagtg gctcaaggta gatgggagat agagcccaag gacacagaac
2581 cagaaggcaa gaagggtaag aacaagaaag ggagaggcaa gaaacacaca gccttctcca
2641 gcaaaggcct aagtgatgaa gagtatgatg agttcaagag aatcagagaa gagaggaacg
2701 gaaaatattc cattgaggaa tacctgcaag accgggaccg ctactatgaa gaagtggcag
2761 ttgcccgagc aacagaagag gacttttgtg aagaagaaga agccaaaata agacaaagaa
2821 tcttccgccc gacaaggaag caaagaaaag aggaaagagg ggtacttggc ttagtcactg
2881 gctcagatat caggaagagg agaccagacg attttcaacc aaaaggcaac ctgtgggcag
2941 atgatactag gagtgtggac tacaatgaga gacttgactt tgaggctcca ccaagcgtct
3001 ggtcaagaat agtcccattg ggcactggtt ggggcttctg ggtttcatca aacctcctga
3061 tcacaacaac acacgtcctg cccaaggggg tcaaggaact ctttggggtc gaagtcaaac
3121 aaattcaaat ccacaagtct ggagagttct gcaggtttag gttcccaaga ccaatcaggc
3181 cagatgtcac aggactcgtg ttggaggaag gtgctcctga aggtactgtc tgttctatac
3241 tcgttaagag gcctacaggt gagatgatcc ccctagcagt gaggatgggc acgcatgcgt
3301 ccatgaaaat acagggtagg accgtcggtg gtcagatggg aatgcttctc acaggggcaa
3361 atgcaaagaa catggatctt ggcaccggtc ctggtgactg cggttgtcct tacatctata
3421 agcgtggcaa cgacatagtt gtcgcgggtg tccacaccgc agcagcccgg gggggcaaca
3481 ctgtcatttg tgccactcaa ggacaagacg gagaggcagt ccttgaggga aatgaagacc
3541 ttggcaccta ctgtggtgct ccaattctgg gccctggtaa agcgcctaaa ctcagcacaa
3601 aaactaaatt ttggcgctca tcaccagatg ccctacctcc tggtacgtat gagcctgcct
3661 atctgggggg taaggatccc agagtggaaa agggaccctc cctacagcaa gttatgagag
3721 accagctgaa accattcaca gagcccaggg gcaaaccacc tagaccagca gttttagaag
3781 aggctaaaaa gacagtgatg aatgttctag aacagaccat tgaccctgct aaaccatgga
3841 cttactcaca agcatgtgct tcactggaca agaccacttc tagtggaagc ccccaccatg
3901 tcaggaaaaa tgaccactgg aatggggagt cttttactgg tcccctcgcg gaccaagctt
3961 ccaaagccaa cctcatgtat gaacaggcaa agcatgtgca gcccgtgtac acggccgcgc
4021 tcaaagatga gcttgttaag actgataaga tctacaggaa aataaagaag agacttctat
4081 gggggtcaga ccttggcacg atgatcaggt gtgccagggc ttttggcggc cttatggaca
4141 gtatgaaagc aagttgtata gcccttccat gcagggtggg gatgaacatg aatgaggatg
4201 gccctatcat atttgacaaa cactccaagt ataggtacca ctatgatgct gactactcta
4261 ggtgggactc aacccagcaa aggagcattc tttccgccgc catggaggtg atggtgaggt
4321 tctctgctga accagaattg gcacaagtgg tcgcagagga ccttttagcg cctagccagc
4381 tagatgttgg cgattttgtc atctcagtcc aggagggcct gccatcagga gtcccatgta
4441 cgtcacaatg gaattcaata gcgcactgga ttctaactct gagcgcaatg gcagaagtgt
4501 caggtctctc accagacgtt gtccaagccc actcctgttt ctcattttat ggcgacgatg
4561 agatcgtcag cactgacatc aaccttgacc ccatgaaatt gacacagaaa ctcagggagt
4621 atggtctggt ccccacccgg cctgataaga ctgaaggccc cctcgttata actgaagacc
4681 tcaccggcct gacattcctg cgcagatcga ttgcacggga tccagctgga tggtttggaa
4741 aattggatca agactcaatc ctcagacaat tatactggac aagggggccc aaccacgaaa
4801 acccatacga gagcatggtt ccccactccc agcgagctac tcagctcatg gcccttcttg
4861 gtgaggcttc attgcatggt ccccagtttt acaagaaagt cagcaagatg gtcatcaatg
4921 aaattaagag tggtggtctg gagttttatg tgcccagaca agaggccatg tttaggtgga
4981 tgagattctc tgacctcagc acatgggagg gtgatcgcaa tcttgctccc gagagtgtga
5041 atgaagatgg cgtcgaatga cgccgctcca tcaaatgatg gtgctgccaa cctcgtacca
5101 gaggccaata atgaggttat ggcacttgaa ccggtggtgg gagcttcaat cgcagctcct
5161 gttgtcggtc agcagaatat aattgacccc tggattagag aaaattttgt tcaagcacca
5221 cagggcgagt ttactgtttc accaaggaac tcgcccggtg agatgcttct aaatcttgaa
5281 ttgggcccag aacttaaccc ctatttgagt catttgtccc gcatgtacaa tgggtatgct
5341 ggtggcatgc aggttcaggt ggtcctagct gggaatgcgt tcacagctgg gaagatcatc
5401 tttgccgctg tgccaccaca cttccctgtg gataatatta gtgcagccca gataactatg
5461 tgtccccatg tgattgttga tgtgagacag cttgaaccag tgcttctacc cctccccgat
5521 ataaggaaca ggttcttcca ttacaaccag gaaaacaccc cccggatgag gctcgtggcc
5581 atgctctaca cgcctctaag ggctaattcc ggagaggatg tgttcactgt gtcctgtagg
5641 gttctgactc gccccgctcc agattttgaa tttacattct tagttccacc aactgttgaa
5701 tcaaaaacaa aaccctttac tctgcctatt ctaacccttg gtgagttgtc taattcccgt
5761 tttcctgctg ccatagatat gctttatact gatcctaatg aatcaatagt tgttcagccc
5821 caaaatggta gatgtaccct tgacggcacg ctgcaaggca caacacaatt ggtcccaaca
5881 cagatttgtg cctttagagg tactctgatc agtcagaatg cgagagcggc cgattcaaca
5941 gattcccccc agagagcccg taatcacccg ttgcacgttc aggtcaagaa cctggatggc
6001 acacagtatg atccaacaga tgacatccct gcagtcctgg gggctattga cttcaaaggt
6061 acagtgttcg gagtggcaag tcagagggac gtctctggaa cacaagaaca gggccattat
6121 gccacccggg ctcatgaagc acacattgac acaactgatc caaagtatgc acctaaatta
6181 ggcacaattc tcatcaaatc tgaatctact gattttacca caaatcagcc cattaggttc
6241 actccagtgg gcatgggcga caacaattgg agacagtggg aattgcctga ctattctggt
6301 agtttgactc taaatatgaa ccttgcccct gctgtttccc catccttccc tggtgaacga
6361 atccttttct ttaggtctat agtaccatca gctggaggct acgggtctgg ctatatagac
6421 tgtctcatac cccaggaatg ggtgcaacat ttctaccagg aggcagcacc ttcacaatct
6481 gctgttgcac tggttaggta tgtcaacccc gacactgggc gtaacatctt tgaggccaag
6541 ttgcacagag aagggttcct caccgtggcc aattctggaa acaatcctat tgtggttccc
6601 cctaatggtt attttagatt tgaggcttgg gttaatcaat tctatacact tgcccccatg
6661 ggatctggac aggggcgtag aagagctcag taatggctgg agccttcttc gcagggttag
6721 caggtgatgt cgtgtcgaac ggcatcggtt ccctcatcaa tgcaggtgct aatgcagtca
6781 atcaaaaggt tgagtatgat tttaataagc aacttcagat ggcatcattt aaacatgata
6841 aggagatgtt acaatcacag gtgttggcaa ccaaacaact gcagcaggag atgatgaaca
6901 taaagcaggg gatgttgacc gctggcggct tttctcctgc ggacgctgct agaggggctg
6961 ttaacgctcc aatgacaaaa atactggact ggaatggcac aagatattgg gcacctaaca
7021 gcatgaaaac cacaagctat tcaggacaat tctctagtag ccctgtccac aggtctcctg
7081 ctcccctcca gcacactgcc ccaccaaaaa gtaagttgca aagtgattct gctagtgtgt
7141 atagctcccc ttccactgtt tcttcacaat taactcattc aacagtgttg tctgcaggaa
7201 ctgggtcgtc cagatccacc cccacgacca cagcaacctc caccctgtct aggaccagcg
7261 actgggttag aggacagaat gaaaggcttg gcccgtttat ggacggtgct ctccaaacta
7321 cttttgtcac accaccatcg agcaaagctt catcaaatgg gacagtctcg accgtgccca
7381 aagctgtttt ggactcctgg actcctatgt tcaacacgca taggcagcct ctcttcgccc
7441 acttgcgtag gcgaggggag tcacagattt agtgaaaa
//