Typing tool
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Typing tool
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Complete norovirus genomes
| MW305573 | GII.7 | |
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| GII.P36 |
ORF1: 1..5060
ORF2: 5041..6663
ORF3: 6663..7436
LOCUS MW305573 7485 bp RNA linear VRL 06-JUL-2021
DEFINITION Norovirus GII isolate HK4 nonstructural polyprotein (ORF1) gene,
partial cds; and VP1 (ORF2) and VP2 (ORF3) genes, complete cds.
ACCESSION MW305573
VERSION MW305573.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7485)
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JOURNAL Unpublished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 7485)
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..7485
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="HK4"
/isolation_source="feces"
/host="Homo sapiens"
/db_xref="taxon:122929"
/country="Hong Kong"
/collection_date="04-Dec-1976"
/note="genotype: GII.7[GII.P36]"
gene <1..5060
/gene="ORF1"
CDS <1..5060
/gene="ORF1"
/codon_start=3
/product="nonstructural polyprotein"
/protein_id="QPJ59055.1"
/translation="SANATSDSIQDSQNNNEGVSLLSNVKVGFKKMLGSSTRDRPPTP
VERPQQTVKIKGEMLRVPDPPPNGEDVVTYKRDGDQITGIPDLTTVRDETGNTPYTVP
PLSEREHRPATEPLPGSILEMWDGEFFHYALYVENGKALGVHKPPAAISMATIELTPI
SLYWRVVYTPPYLVSPDSLKGLAGEKFPYTAFSNNCYNFCCWVLELNDTWLSRKSITR
TTGFFRPYQTWNRKPAPSVDDSKIKKVANAILCALGSLFSRPIKDLLGKLKPLNVLNL
LASCDWSFSGVVETMALLAELFGVFWSPPDISNFITSIIGDMELQGPQDLAADLVPVV
MGGIGMVLGFTTEKLGRMLTSAASTLRACKDLGGYALDILKLVMKWFFPPKEEKAEME
TLRAIEDAVLDMEAIGNNHLTSLLKDKDSLQAYMKTLDMEEEKARKLSTKSSSPDIVG
TINAILARIAAARSLLHKAKEEMCSRIRPVVVMISGRPGIGKTHMARHLAKTVAGTMT
GDQRVGLVPRNGVDHWDAYRGERIVLWDDYGMGSPVKDALTLQELADTCPVTLNCDRI
ENKGKMFDSDVIVITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEKAKKDFPGQP
DMWKDYFKPDFSHIKLTLAPQGGFDKNGNTPHGKGVMKTLSQGSLTARIAGLVHERRD
EFQLQGEDIQTYDFDTSTIGSFRKLAADNKYSLMETMRVGKQLKDVKTMDQLKLAIKD
FRVKECKIIYKGNLYRMSSDGKGKVSVNREASATSQTVNEAISAINRLRQARIRFYVQ
SAQEIILTLLQVAGAAFVVGRISRRFNWGKAIGEDKTIEGDHDQPAETGSDKWKIKID
DAETEGKKGKNKKGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKYSIEEYLQDRDRY
YEELAVARATEEDFCEEEEIKIRQRIFRPTRKQRKEERGVLGLVTGSEIRKRRPDDFQ
PKGKLWADDDRNVDYNERLDFEAPPSIWSRIVPFGTGWAFWVSPSLLITTTHVVPKGL
NEAFGVDIKQIQVHRSGEFCRLRFPRPIRTDVTGMILEEGAPEGTVCSILIKRATGEM
LPLAVRMGTHASMKIQGKTVGGQMGMLLTGSNAKNMDLGTSPGDCGCPYVYKRGNDLV
VAGVHTAAARGGNTVICATQGAEGEATLEGKENLGTYCGAPILSTGKAPKLSTKTKFW
RSSPEALPPGTYEPAYLGGKDPRVENGPSLQQVMRDQLRPFTEPRGKPPNPKVLEEAK
KTIMNVLEQTIDPPQKWTYQQACQSLDKTTSSGSPHHVRKNEHWNGESFTGPLADQAS
KANLMYEQGKHMKPMYTAALKDELVKTSKLYKTIKKRLLWGSDLGTMIRCARAFGGLL
DSMKASCIALPCRVGMNMNEDGPIIFEKHSRFKYHYDADYSRWDSTQQRAVLAAAMEI
MVKFSAEPELAQVVAEDLVAPSSLDVGDFVVSVQEGLPSGVPCTSQWNSISHWLLTLC
AMSEVSGLSPDVVQAYSLFSFYGDDEIVSTDIDIDPEKLTQQLRSYGLVPTRPDKTEG
PLIISKDLTNLTFLRRTITRDPAGWFGKLDKDSILRQLYWTKGPNHENPYESMIPHAQ
RATQLMALLGESALHGPQFYKKVSKMVISEIKSGGLEFYVPRQEAMYRWMRFSDLSTW
EGDRNLAPDYVNEDGVE"
mat_peptide <1..965
/gene="ORF1"
/product="p48"
mat_peptide 966..2063
/gene="ORF1"
/product="NTPase"
mat_peptide 2064..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..6663
/gene="ORF2"
CDS 5041..6663
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="QPJ59056.1"
/translation="MKMASNDAAPSSDGAAGLVPEINNEVMPLEPVAGASLATPVVGQ
QNIIDPWIRNNFVQAPAGEFTVSPRNSPGEILLDLELGPELNPYLAHLARMYNGHAGG
MEVQIVLAGNAFTAGKIIFAAIPPGFPYENLSPSQITMCPHVIIDVRQLEPVLLPMPD
IRNNFFHYNQGNDPKLRLVAMLYTPLRANNSGDDVFTVSCRVLTKPSPDFEFTFLVPP
TVESKTKQFTLPILKISEMTNSRFPVPVDVMYTARNENQVVQPQNGRVTLDGELLGTT
PLLAVNICKFKGEVIAKNGDVRSYRMDMEITNTDGTPIDPTEDTPGPIGSPDFQGILF
GVASQRNKNEQNPATRAHEANINTGGDQYAPKLAQVKFFSESQDFEVHQPTIFTPVGV
AGDTSHPFRQWTLPRYGGHLTNNTHLAPAVAPLFPGEQLLFFRSQIPSSGGHEQGYMD
CLVPQEWVQHFYQEAATAQSEVALIRFINPDTGRVLFEAKLHKQGFITVAHTGDNPIV
MPPNGYFRFEAWVNQFYSLAPVGTGNGRRRVQ"
gene 6663..7436
/gene="ORF3"
CDS 6663..7436
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="QPJ59057.1"
/translation="MASAFFANLAGGVASNGISSLINAGANAINQKVEFDYNKQLQNA
SFSHDKEMLQAQIEATKRLQQEMIDIKQGVLSAAGFSPTDAARGSVNAPMTKLVDWNG
TRYWAPGAMRTTGYSGTFSHLSPMQLAPHISNQSGQSPKVDLPSPSLSGSSVSSIKTQ
STTLSGTSRTGSSSQSTLSTRPSSRTSDWVRSQNERLSPFMNGALQTTYVTPPSSKAS
SVSTVSTVPKEVLDSWTPMFNTRRQPLFAHLRRRGESQI"
ORIGIN
1 gcagtgcaaa cgctaccagc gacagcattc aagactccca gaataacaac gagggagtct
61 cattattatc caacgtaaag gttggattta aaaagatgtt agggtcttcc accagagata
121 gaccaccaac tccggtggaa agaccacaac aaactgttaa aataaaaggg gagatgttac
181 gggtccctga cccccctcca aacggggaag atgtggtgac ctacaagagg gatggagacc
241 aaataacagg tatacctgat ttgacaacag tccgagatga aactggcaac accccctaca
301 ctgtgccacc tcttagtgag agagagcaca ggccagccac cgaaccacta cctggctcaa
361 ttcttgaaat gtgggacggc gagttcttcc attacgcact atacgtggag aatgggaaag
421 cattgggcgt gcacaaacca cccgccgcca tcagcatggc caccatcgag ctcacaccaa
481 tctcactgta ctggagggtg gtttacaccc ccccgtacct cgtgtcacca gactccctta
541 agggattggc tggggagaaa tttccgtaca ccgcgttcag caacaattgt tacaactttt
601 gttgctgggt gctcgagttg aatgacacct ggctatcgag gaagtcgatc acaaggacta
661 caggtttctt cagaccctac caaacctgga acagaaaacc ggcaccttcc gttgacgaca
721 gcaaaatcaa gaaagtcgct aacgcgatac tgtgtgctct tgggtccctc ttttctaggc
781 ccatcaaaga tctcctaggg aagttgaagc cactgaacgt actcaatcta ttggcttcgt
841 gtgattggtc attctcaggt gttgtagaaa ccatggcctt gctggcagaa ctctttggtg
901 tcttttggag ccccccagac atatccaact ttatcacctc aatcataggg gatatggagc
961 tgcagggccc ccaagacctc gctgctgact tggtcccagt ggtcatgggt ggcatcggca
1021 tggtccttgg attcaccaca gagaagctcg gccggatgct gacctccgca gcatccacct
1081 tgcgcgcgtg taaagatctt ggtgggtacg cgcttgacat actcaaactt gtcatgaagt
1141 ggttcttccc ccccaaggaa gaaaaggcag agatggagac actcagggca atagaggatg
1201 cagtcctcga tatggaagct ataggaaata accacttgac cagcttgctc aaggacaaag
1261 acagcctcca agcatacatg aaaacccttg acatggaaga agagaaagct aggaagctgt
1321 ctacaaagtc ttcatcacct gacatagttg gcacgattaa tgctatactg gctagaatcg
1381 cagctgctag gtcgctctta cacaaagcaa aggaagagat gtgttcaaga ataagacccg
1441 tcgtcgtcat gatatcaggc cgccccggga ttggtaaaac ccacatggca agacatctgg
1501 caaaaacggt ggcaggtaca atgactggcg accaaagagt tggccttgtg cctaggaatg
1561 gggttgacca ctgggacgcg tacaggggtg agagaattgt gctgtgggat gactatggca
1621 tgggcagccc cgtgaaggac gcactaaccc tccaggaatt ggctgacacc tgcccagtga
1681 ccttgaactg tgacaggata gaaaacaaag gaaaaatgtt tgacagtgat gtcattgtga
1741 taacaaccaa tcttgccaac ccagcgcccc tcgactatgt caacttcgag gcgtgctcga
1801 gacgaattga cttcctcgtc tatgctgagg ccccagaggt cgagaaggcc aagaaagact
1861 tccccggcca acctgacatg tggaaagatt acttcaaacc tgacttctcc cacataaaat
1921 tgaccctcgc cccccaaggt gggtttgaca agaacggtaa tacgccccat ggaaaaggag
1981 tgatgaagac tctttcgcaa gggtcgctca cggcaaggat cgcgggactc gttcacgaga
2041 ggcgcgacga gttccagctt caaggcgaag acatacaaac ttatgatttt gacaccagca
2101 caattggctc gttccggaaa ctggctgcag acaacaaata cagcctgatg gagacaatga
2161 gggtcggtaa acagcttaaa gatgtcaaga ccatggatca actcaagctc gctatcaaag
2221 acttcagggt caaagagtgc aagatcatat ataagggaaa cctgtatagg atgtcatcag
2281 atggcaaggg gaaggttagt gtcaacaggg aagcttctgc caccagtcag actgtcaatg
2341 aggccatatc agccatcaac cggttgagac aggcaagaat caggttctat gtgcaaagtg
2401 cccaggagat catcctgacc ttgctgcaag tggcgggagc cgcctttgtt gttggcagga
2461 tatcaaggag gttcaactgg ggcaaagcca ttggagagga caaaacgata gagggagacc
2521 acgaccaacc cgcagagact ggcagtgaca agtggaagat aaagattgat gacgctgaga
2581 ctgagggtaa gaaaggtaag aacaagaaag ggagaggcaa gaaacacaca gctttctcca
2641 gcaagggcct cagcgatgaa gagtacgatg agtacaagag aatcagggaa gaaagaaatg
2701 gaaagtactc cattgaagaa tacctccaag acagagacag atactatgag gagctcgccg
2761 tagccagggc gacagaggag gatttctgtg aagaggagga aataaagatc agacaaagaa
2821 tcttccgccc aacaaggaaa caaagaaaag aagaaagggg cgtgttgggc ttggtcactg
2881 gctctgaaat caggaagaga agaccagatg atttccagcc aaagggaaaa ctgtgggctg
2941 atgatgaccg gaatgtggac tataatgaga gactagactt tgaggcccca cccagtatat
3001 ggtctcgcat agtcccattt ggcaccggct gggctttctg ggtatcgcct agcctcctga
3061 taacaaccac ccatgtagtg ccgaagggac taaatgaagc ctttggcgtt gacatcaaac
3121 aaatacaagt ccacaggtcc ggtgagttct gtaggctcag gttcccaagg ccaatcagga
3181 cagatgtgac tggcatgatc ctcgaagagg gcgcaccaga agggacggtt tgctcgattc
3241 tgataaagcg tgccactggt gagatgctcc ctctagctgt ccgcatgggg acacatgctt
3301 caatgaagat acaaggcaag acagtaggtg gacagatggg catgctgctc actggctcga
3361 atgcaaagaa catggacctc ggcacgagcc caggggactg tggctgcccg tacgtctaca
3421 agaggggcaa cgatctggtg gtggcaggag tgcacactgc agcggcccgg ggtggcaaca
3481 ccgtgatctg tgccacacag ggggcggaag gagaggcgac ccttgaaggg aaggagaacc
3541 ttggaaccta ctgtggggcc cctatactat ccactggcaa ggcaccaaag ctcagtacca
3601 aaacaaaatt ctggaggtca tcaccagagg cattgccccc ggggacctat gaacctgcct
3661 acctcggcgg gaaagaccca agggtggaga atggcccgtc cctgcaacaa gtcatgaggg
3721 accaactaag acctttcact gagcccaggg ggaagccacc aaaccccaaa gtccttgaag
3781 aggccaagaa gactatcatg aatgtcctgg aacagacaat agacccacca caaaaatgga
3841 cgtaccagca ggcatgccag tccctggaca agacaacgtc cagtggtagc ccgcatcatg
3901 tcagaaagaa tgaacactgg aacggggaat cgtttactgg gccacttgcc gatcaggctt
3961 ctaaagccaa cctaatgtat gagcagggca agcacatgaa accaatgtac acagcagcat
4021 taaaggatga attggtcaaa actagcaaat tgtacaaaac tataaagaaa agactcttgt
4081 ggggatcaga ccttggtaca atgattcggt gtgcgcgggc atttggcggg ctccttgaca
4141 gtatgaaggc cagctgtata gcactaccct gcagagtggg catgaacatg aatgaagatg
4201 gccccatcat cttcgaaaaa cattctaggt tcaaatacca ttatgatgct gattactcca
4261 ggtgggattc aacacaacag agggcagtgc tagcagctgc tatggaaatc atggtgaagt
4321 tctctgctga acctgagctg gcacaagtag tcgcagagga cttggtggcc cctagcagtc
4381 ttgatgtcgg tgattttgtg gtgtctgtcc aggaaggcct accatctgga gttccatgca
4441 catcacagtg gaactccatc tcccactggc tgctaaccct ttgtgctatg tcagaagtct
4501 ctggattgtc acccgatgtg gtccaggcat attccctgtt ctctttttat ggtgacgatg
4561 agatagtgag caccgacatt gatatcgacc cagagaagct cacacaacaa ctgaggagct
4621 atggactcgt gcccactagg ccagacaaaa ccgagggccc gctgattatc tctaaagacc
4681 tcacaaatct gaccttcctg agaagaacca tcacaagaga tcctgcagga tggtttggaa
4741 agctggacaa agattcaata ctcagacaac tctattggac aaaggggcca aatcatgaga
4801 atccatatga gagtatgata ccacatgcac agagagcaac acagctaatg gcactcctag
4861 gagagtctgc cctgcacggc cctcaatttt acaaaaaggt tagcaaaatg gtgattagtg
4921 aaataaagag tggtggtctg gagttttatg tgcccagaca agaggccatg tacaggtgga
4981 tgagattctc tgacctcagc acatgggagg gcgatcgcaa tctggctccc gactatgtga
5041 atgaagatgg cgtcgaatga cgcagctcca tctagtgatg gtgcagcagg cctcgtacca
5101 gagatcaata atgaggtcat gccccttgaa cccgtggctg gtgcatcgct ggcgacacca
5161 gtcgtcgggc aacaaaatat aattgatccc tggataagaa ataattttgt gcaggctcct
5221 gcaggtgagt ttactgtttc ccctagaaat tcccccggag agatcttgct tgatttggaa
5281 ttgggaccag aattaaaccc ctatcttgcc catttggccc gcatgtataa tgggcacgct
5341 ggtggcatgg aagtgcaaat tgtgctggct gggaatgcgt tcacagcagg caagatcata
5401 tttgctgcca tccccccagg gttcccatat gaaaatttgt caccttctca aattacaatg
5461 tgcccacatg tcataattga tgttaggcaa ttggagccag ttcttttgcc tatgccagac
5521 attaggaata atttcttcca ttataatcag ggcaatgatc caaaattgag gctagttgct
5581 atgctctaca ctcctttaag ggccaataac tctggtgatg atgtgttcac agtttcttgc
5641 agggtgctta caaaaccttc acccgacttt gaattcacat tcttagtccc ccccacagtc
5701 gagtctaaga ccaaacagtt caccttgccc atcctcaaaa tatcagagat gaccaattca
5761 agattcccag tgccagtgga tgtgatgtac acggccagga atgagaacca ggtcgtccaa
5821 ccacagaatg gtagagttac gctcgacggt gagctgttgg gcaccacccc cctgctggct
5881 gttaatatat gtaaatttaa gggagaagtc atagccaaga atggagatgt gaggtcctac
5941 agaatggata tggaaatcac caacactgat ggaacaccta ttgaccctac agaggacaca
6001 cccggtccca ttggctcacc agattttcaa ggcatactct ttggcgttgc cagtcagcgc
6061 aataagaatg agcagaaccc tgccacgagg gctcatgagg ccaacatcaa cactggtggg
6121 gaccagtatg cccccaaact agcccaagtg aagttctttt cagagtccca agattttgag
6181 gtgcaccaac ccacgatctt caccccggtt ggagtggcag gggacacctc tcacccgttc
6241 agacaatgga cgctgccacg atacggtgga cacctcacca ataataccca tctggctcca
6301 gcagtggcac cactgttccc aggagagcag ctcctgtttt tcaggtcaca aatacccagt
6361 tctggtggtc atgaacaggg ttacatggat tgtcttgtcc cacaagaatg ggtccagcac
6421 ttctaccagg aagctgccac ggcccaatct gaggtggccc tcataagatt catcaaccca
6481 gacaccggta gagtcctctt tgaggctaag ctacacaagc aaggctttat aactgtggct
6541 cacaccggtg acaatccaat tgtcatgcca ccgaatgggt acttcagatt tgaggcttgg
6601 gttaatcagt tttattcact tgcccccgtg ggaactggga acgggcgtag gagggtccaa
6661 taatggctag tgctttcttt gcaaatttgg ctggaggtgt tgcctccaat ggaattagtt
6721 cacttataaa tgctggggct aatgccatca accagaaggt tgagtttgat tataacaaac
6781 aactccaaaa tgcatcattt tcacatgaca aggaaatgct ccaagcccaa attgaagcta
6841 ccaaacgcct gcaacaagag atgattgaca taaaacaggg tgtgttgtca gctgcagggt
6901 tctcccccac ggatgccgcg aggggctccg tcaatgcacc aatgacaaag ttagtggatt
6961 ggaatggtac cagatattgg gcacctggtg ctatgagaac aacaggctat tcagggacct
7021 tctctcacct gtctcctatg caacttgccc cacatattag taatcagagt gggcaatccc
7081 ctaaggtaga tcttccctcc ccttccttga gtggttcttc agtttcttct attaaaacac
7141 aatcaaccac cctttcgggc acttcaagaa ctggctcttc gtcacagtca actctgtcga
7201 ccagaccgag ctcaagaaca tccgactggg ttcgcagtca gaatgagagg ctgagcccat
7261 tcatgaatgg agcgttacaa acaacctacg tgacgccacc atccagcaag gcatcaagtg
7321 tcagcacagt ctcaaccgtg ccgaaagagg ttttggactc ctggacgcct atgtttaaca
7381 ctcgtaggca gccactcttc gcccacttgc gtaggcgagg ggagtcacag atttagtgaa
7441 aagattgatt aggaaaactt ttcccgcttt tctttaattc tttct
//