Typing tool
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Typing tool
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Complete norovirus genomes
| MW305581 | GII.6 | |
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| GII.P7 |
ORF1: 1..5063
ORF2: 5044..6696
ORF3: 6696..7475
LOCUS MW305581 7528 bp RNA linear VRL 06-JUL-2021
DEFINITION Norovirus GII isolate S9d nonstructural polyprotein (ORF1) gene,
partial cds; and VP1 (ORF2) and VP2 (ORF3) genes, complete cds.
ACCESSION MW305581
VERSION MW305581.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7528)
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JOURNAL Unpublished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 7528)
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..7528
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="S9d"
/isolation_source="feces"
/host="Homo sapiens"
/db_xref="taxon:122929"
/country="Senegal"
/collection_date="15-Mar-1976"
/note="genotype: GII.6[GII.P7]"
gene <1..5063
/gene="ORF1"
CDS <1..5063
/gene="ORF1"
/codon_start=3
/product="nonstructural polyprotein"
/protein_id="QPJ59079.1"
/translation="FGSQNSVNDSTNTTPSNKEEAGAFSNIKVGIKKMLGAVPKNPKA
PSGDQHCPTVKIGPKTLVIPPEPPNGEDVVQFDAKSETVRGIPDLTTVQNEHENTPYT
VPPLSEREHRPATEPLPGTILEMWDGEFYHYSIYVSGGKALGVHKPPAAISLATIELT
PISLYWRPVYTPNYLVCPDTLKGLAGEKFPYTAFSNNCYNFCCWVLELNDTWLCRRSI
SRTTGFFKPYQSWNRKPLPTVDDGKIKKVANAILCALGSLFSKPIKDLLGKLKPLNLL
HLLASCDWTFAGIVETVILMAELFDVFWTPPDVSNFIASLIGDFELQGPEDLAVELVP
VVMGGIGMVLGFTAEKIGRMLSSAASTLRACKDLGNYALDILKLVTKWFFPKKEEKAE
METLRAIEDAVLDMEAIGNNHLTTLLKDKDSLTAFMKTLDLEEEKARKLSTKSSSPDI
VGTINAILARIAAARSLLHKAKEEMFSRIRPVVVMISGRPGIGKTHMARHLAKSIANT
MSGDQRVGLVPRNGVDHWDAYRGERVVLWDDYGMGNPVKDALTLQELADTCPVTLNCD
RIENKGKMFDSDVIIITTNLVNPAPLDYVNFEACSRRIDFLVYAESPEIEKVKRDFPG
QPDMWKDHFKPDFSHIKLTLAPQGGFDKNGNTPHGKGTMRSLTQGSLTARVAGLVHER
RDEFQLQGDDLQTYNFDTNRVSAFRKLAADNKYGIMETMRVGAALKNVKTLEDLKVAL
KDVKFNECEIIYRNSKYRVSSNGKGAVSVDKIEDLTSQTANEVSSALLRLRQARARYY
VSCFQDLVYTLIQVAGASFVVNRISKRFCWERWVKPTETQETNEPEKETAQGRWEIEP
KDAEPEGKKGKNKKGRGKKHTAFSSKGLSDEEYDEFKRIREERNGKYSIEEYLQDRDR
YYEEVAVARATEEDFCEEEEAKIRQRIFRPTRKQRKEERGVLGLVTGSDIRKRRPDDF
QPKGNLWADDTRSVDYNERLDFEAPPSVWSRIVPLGTGWGFWVSSNLLITTTHVLPKG
IKELFGVDVKQIQIHKSGEFCRFRFPRPIRPDVSGLVLEEGAPEGTVCSVLVKRSTGE
MIPLAVRMGTHASMKIQGRTVGGQMGMLLTGANAKNMDLGTGPGDCGCPYIYKRGNDI
IVAGVHTAAARGGNTVICATQGQDGEAVLEGNENLGTYCGAPILGPGKAPKLSTKTKF
WRSSPDALPPGTYEPAYLGGKDPRVEKGPSLQQVMRDQLKPFTEPRGKPPRPTVLEEA
KKTVMNVLEQTIDPAKPWTYSQACASLDKTTSSGSPHHVKKNDHWNGESFTGPLADQA
SKANLMYEQAKHMQPVYTAALKDELVKTDKIYKKIKKRLLWGSDLGTMVRCARAFGGL
MDSMKASCITLPCRVGMNMNEDGPIIFDKHSKYRYHYDADYSRWDSTQQRSILSAAME
VMVRFSAEPELAQVVAEDLLAPSQLDVGDFVISVQEGLPSGVPCTSQWNSIAHWILTL
SAMAEVSGLSPDVVQAHSCFSFYGDDEIVSTDINLDPSKLTQKLREYGLVPTRPDKTE
GPLVITEDLTGLTFLRRSIARDPAGWFGKLDQDSILRQLYWTRGPNHENPYESMVPHS
QRATQLMALLGEASLHGPQFYKKVSKMVISEIKSGGLEFYVPRQEAMFRWMRFSDLST
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..6696
/gene="ORF2"
CDS 5044..6696
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="QPJ59080.1"
/translation="MKMASNDAAPSNDGAANLVPEANNEVMALEPVVGASIAAPVVGQ
QNIIDPWIRENFVQAPQGEFTVSPRNSPGEMLLNLELGPELNPYLSHLSRMYNGYAGG
MQVQVVLAGNAFTAGKIIFAAVPPHFPVENISAAQITMCPHVIVDVRQLEPVLLPLPD
IRNRFFHYNQESTPRMRLIAMLYTPLRANSGEDVFTVSCRVLTRPAPDFEFTFLVPPT
VESKTKPFTLPILTLGELSNSRFPAAIDMLYTDPNESIVVQPQNGRCTLDGTLQGTTQ
LVPTQICAFRGTLISQTARAADSTDSPQRARDHPLHVQVKNLDGTQYDPTDDIPAVLG
AIDFKGTVFGVASQRDVSGQQEQGHYATRAHEAHIDTTDPKYAPKLGTILIKSESNDF
TTNQPIRFTPVGMGDNNWRQWELPDYSGRLTLNMNLAPAVSPSFPGERILFFRSIVPS
AGGFGSGYIDCLIPQEWVQHFYQEAAPSQSAVALVRYVNPDTGRNIFEAKLHREGFLT
VANSGNNPIVVPPNGYFRFEAWVNQFYTLAPMGSGQGRRRAQ"
gene 6696..7475
/gene="ORF3"
CDS 6696..7475
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="QPJ59081.1"
/translation="MAGAFFAGLAGDVVSNGIGSLINAGANAVNQKVEYDFNKQLQMA
SFKHDKEMLQSQVLATKQLQQEMMNIRQGVLTAGGFSPADAAKGAVNAPMTKILDWNG
TRYWAPNSMKTTSYSGQFSSSPVHRSFATPQHTAPPKGKLQGDSASVYSSPSTISSQS
THSTALSAGTGSSRSTSTSTATSTLSRTSDWVRGQNERLSPFMDGALQTTFVTPPSSK
ASSNGTVSTVPKAVLDSWTPMFNTHRQPLFAHLRRRGESQI"
ORIGIN
1 cctttggcag ccaaaactct gtcaatgaca gcactaacac caccccttct aacaaagagg
61 aggctggtgc attctccaac attaaagttg gaattaagaa aatgctgggt gccgtgccca
121 aaaaccccaa ggcacccagc ggtgaccagc actgtcccac ggttaagatt ggacctaaaa
181 ctttagtgat cccaccagag cccccaaacg gtgaagatgt tgtgcagttt gacgcgaagt
241 cggaaactgt gcgtgggatt cccgatctga cgacagtgca aaatgaacat gaaaacaccc
301 catacacggt ccctccactg agtgaaaggg aacatagacc agccactgag ccactccctg
361 gcacaatact ggagatgtgg gatggtgagt tctaccacta ctccatctat gtcagcggtg
421 gcaaagccct gggggtccac aaacccccag cagctataag cctcgcgaca atagagctca
481 cccccatatc tctctactgg cggcctgtct acaccccaaa ttatttggtc tgtccagaca
541 cattgaaggg ccttgctggt gaaaagtttc cctacacggc cttcagtaat aactgctaca
601 acttctgttg ctgggtgctt gagctcaatg acacatggct ttgcagaaga agcatttcca
661 gaaccactgg cttcttcaaa ccataccagt cttggaacag gaagcctctc ccaaccgttg
721 acgatggaaa aatcaaaaag gtggccaacg caatcctctg tgcgcttggc tcactgtttt
781 caaaaccaat caaagacctt ttgggaaaac tcaaaccact aaacctacta cacctactcg
841 cgtcctgtga ctggacattc gcaggcatag tggagacggt catcttaatg gcggaactct
901 tcgatgtctt ttggactccg ccagatgtct ccaactttat agcctctctg ataggtgatt
961 ttgagctaca agggcctgag gacttggctg tggagcttgt ccccgtggtc atgggtggca
1021 taggaatggt cctcggtttc actgctgaga agatagggcg catgttgtca tctgccgcat
1081 caactctgcg ggcgtgcaaa gatctgggga actacgccct cgacatacta aaactagtca
1141 cgaagtggtt cttcccaaag aaagaagaga aggctgagat ggagactttg agggcgattg
1201 aggacgccgt attggacatg gaggcgatag ggaacaacca cctcacgacg ctcctcaagg
1261 acaaggacag tctcactgca tttatgaaga ctctagacct ggaggaggag aaagcaagaa
1321 aactgtcaac aaagtcatcc tcgccagaca tcgtcggtac catcaatgcc atattggcca
1381 gaatagcagc tgccagatcc cttctacaca aggccaagga agagatgttt agcaggatta
1441 gaccagtggt tgtcatgatc tcaggcaggc ctggtattgg caaaacccat atggcgaggc
1501 atctggctaa gagtatagcc aacaccatga gtggagacca gagagttggg ctcgtccctc
1561 gcaacggggt tgaccactgg gacgcctaca gaggagagag agtggtcctg tgggacgact
1621 atggtatggg aaaccctgtc aaagatgcct taacattgca agaactggcc gacacctgtc
1681 cagtcactct aaattgtgac aggattgaga acaagggaaa gatgtttgac agtgatgtca
1741 tcataattac aactaatttg gtcaaccctg cacccctcga ttacgtaaat tttgaggctt
1801 gctccagaag aattgacttc cttgtttatg cagaatcccc agaaatagaa aaggtcaaaa
1861 gagacttccc tggccaacct gatatgtgga aagaccactt caagccggac ttctcacaca
1921 taaaactgac cttagccccc cagggcgggt ttgacaagaa tggtaacacc ccacatggta
1981 agggtaccat gcggtcccta acccaagggt ccctgactgc aagagtcgca ggtctcgttc
2041 atgagaggag agatgaattc cagctacaag gggatgacct ccaaacatac aactttgaca
2101 ccaacagggt ctctgcgttc agaaaactgg ccgcggataa caagtatgga atcatggaga
2161 caatgagagt gggagcggca ctcaagaacg tcaaaacttt ggaagacctt aaagttgcct
2221 tgaaagatgt gaaattcaat gaatgtgaga tcatttacag gaactccaag taccgagtct
2281 catccaatgg caagggcgct gtctctgttg acaaaatcga agacctcaca tctcagactg
2341 caaacgaggt gagctcagcc ctcctcaggc tcagacaagc aagggccaga tactacgtca
2401 gctgcttcca ggaccttgtc tacaccctca tacaggttgc tggggcttca ttcgttgtca
2461 ataggatctc gaagaggttc tgctgggaaa ggtgggttaa gccgaccgag actcaggaaa
2521 cgaatgagcc cgagaaggaa actgcccaag gtagatggga gattgaaccc aaggatgcag
2581 aaccagaagg taaaaagggc aaaaacaaga aaggaagagg caagaaacac acagccttct
2641 ccagtaaggg cttgagtgat gaagagtatg atgaattcaa gaggatcagg gaagaaagaa
2701 acgggaagta ttccattgag gaatatctgc aggaccggga tcgttactac gaagaagtag
2761 cggtcgcccg tgcaacagaa gaggacttct gtgaagagga agaggccaag ataagacaaa
2821 gaatcttccg cccaacaagg aaacagagga aagaagagag gggggtgctt ggcctggtta
2881 ctggctcgga catcagaaag aggagaccag atgacttcca gccaaagggt aacttgtggg
2941 cagatgacac cagaagtgtg gactataacg aaaggcttga ctttgaggcc cctccaagtg
3001 tgtggtcaag gatagtccca ctgggcaccg gttggggttt ttgggtctca tccaacctcc
3061 ttatcacaac aacacatgtc ctacctaagg gcatcaagga actctttgga gttgatgtca
3121 aacaaatcca aattcataaa tctggagagt tttgcaggtt cagattcccg agaccaatca
3181 ggccagacgt ctcagggctc gtgttggaag agggcgcacc agagggtacc gtctgctctg
3241 tactcgtgaa gagatcaaca ggtgagatga tccctctggc agtaaggatg ggtacacatg
3301 catccatgaa aatccagggc aggactgtcg gtggccaaat ggggatgctt ctcacaggag
3361 cgaacgcaaa gaacatggat cttggcaccg gtccaggtga ctgcggttgt ccttacatct
3421 acaaacgcgg taatgacata attgtggcag gtgtccacac cgcagcagcc cgagggggca
3481 acactgtcat ctgcgccacc caagggcagg atggggaggc agtccttgaa gggaatgaga
3541 atcttggcac gtactgcggt gccccaattt taggtcctgg caaagcgccc aagctcagca
3601 cgaaaaccaa attttggcgc tcgtcgccgg atgccctgcc acctggcaca tatgagcctg
3661 cttacctggg aggcaaggac cccagagtgg agaaaggacc ctccctacag caagtcatga
3721 gagaccagtt aaaacccttc acggagccca gaggcaaacc accaaggccc acagtcctag
3781 aagaggctaa aaagacagtg atgaatgtcc tagaacaaac cattgaccct gctaaaccat
3841 ggacctactc acaagcatgt gcctccctgg acaagaccac ttccagtggt agccctcacc
3901 acgtcaagaa aaatgaccat tggaatggag agtctttcac tggccccctt gcagatcaag
3961 cgtccaaagc caatcttatg tatgagcagg ccaaacacat gcagcccgtg tacacggctg
4021 cactcaaaga tgagctcgtc aagactgata aaatctataa gaagataaag aagaggctcc
4081 tttgggggtc ggatctgggc acaatggtca gatgtgccag agcttttggt ggcctcatgg
4141 acagcatgaa agcaagctgc ataaccctcc cgtgcagggt aggtatgaac atgaatgagg
4201 acggacccat catctttgac aagcactcaa aatacaggta tcactatgat gctgactact
4261 ctaggtggga ttcaactcaa caaaggagca tcttgtctgc cgctatggaa gtgatggtgc
4321 ggttctctgc agaaccagaa ctggcacaag tggttgcaga agaccttcta gcacccagcc
4381 aactagacgt tggtgacttt gtcatctcag tccaggaagg tttaccatca ggagtcccat
4441 gcacatcaca atggaactcg atagcgcatt ggattttaac cttgagtgca atggcagaag
4501 tgtcaggtct ctcaccagat gttgtccaag cccactcctg tttctccttc tatggtgatg
4561 atgagattgt gagcactgat attaaccttg acccttcaaa actgacacag aaacttaggg
4621 agtatggtct ggtccccacc cggcctgata aaactgaagg tcccctcgtc ataactgaag
4681 acctcaccgg cctaacgttc ctacgtaggt cgattgcacg ggacccagct gggtggtttg
4741 gaaaactgga tcaagactca attctcagac agttgtactg gacaagaggg cccaatcatg
4801 aaaacccata tgagagtatg gtcccccact ctcagcgggc cacacagctc atggccctcc
4861 ttggtgaagc ttcattgcat gggccccagt tttacaagaa ggtcagcaag atggtcatca
4921 gtgaaattaa gagtggtggt ctggagtttt atgtgcccag acaggaggcc atgttcaggt
4981 ggatgagatt ctctgacctc agcacatggg agggcgatcg caatcttgct cccgagggtg
5041 tgaatgaaga tggcgtcgaa tgacgctgct ccatcgaatg atggtgctgc caacctcgta
5101 ccagaggcca acaatgaggt tatggcactt gaaccggtgg tgggagcctc aatcgcagct
5161 cctgttgtcg gtcagcaaaa tataattgac ccctggatta gagaaaattt tgtccaagca
5221 ccacagggcg agttcactgt ctcaccaagg aattcgcctg gtgagatgct tttaaatctt
5281 gagttgggcc cagaacttaa tccctattta agtcatttgt cccgcatgta caacggatat
5341 gctggtggca tgcaggttca ggtggtccta gctgggaatg cgttcacagc tgggaaaatc
5401 atctttgccg ccgtaccacc acatttccct gtagaaaaca tcagtgcagc ccagataact
5461 atgtgtcccc atgtgattgt tgatgtgaga caacttgaac cagtgcttct gcccctccct
5521 gatataagga acaggttctt ccattacaac caagagagca ccccccggat gaggcttata
5581 gccatgcttt atacacctct gagggccaat tctggtgagg acgtgttcac tgtgtcctgc
5641 agggttttga ctcgtcccgc tccagatttt gagttcacat ttttagtgcc accaactgtt
5701 gaatcaaaga caaaaccttt cactttgcct attctgaccc ttggtgagtt gtctaattct
5761 cgctttccgg ctgctataga tatgctttat actgatccta atgaatcaat agttgtacaa
5821 ccccaaaatg gtaggtgcac tcttgatggc accttgcaag gcacaacaca attggtcccc
5881 acacaaattt gtgcctttag aggcactctg atcagccaga ccgcgagagc ggccgactca
5941 acagattccc cccagagagc ccgtgatcat ccattacacg tccaggtcaa gaacctagac
6001 ggcacacaat acgacccaac ggatgatata cctgcagtcc tgggggctat tgacttcaaa
6061 ggtacagttt ttggagtggc cagtcaaagg gatgtctctg ggcaacaaga acagggccac
6121 tatgccaccc gagcccatga agcacacatt gatacaactg acccaaagta tgcacccaaa
6181 ttaggcacaa tccttattaa atctgaatct aatgatttta ctacaaatca gcccattagg
6241 ttcactccgg tgggcatggg tgacaacaat tggagacagt gggagctacc tgattattct
6301 ggtagattaa ctttgaacat gaacctcgct cccgctgttt ctccgtcttt ccctggtgaa
6361 cgaattcttt tcttcaggtc tatagtacca tcagccggag gcttcggatc cggttatata
6421 gactgtctca tacctcagga atgggtacag cacttctacc aggaagcagc gccttcgcaa
6481 tccgctgttg ccctggttag atatgtcaac cccgacactg ggcgtaacat ctttgaggcc
6541 aagttacata gagaagggtt cctcaccgtg gctaactctg ggaacaatcc tattgtggtc
6601 ccccccaatg gttattttag atttgaagct tgggttaatc agttttatac acttgccccc
6661 atgggatctg gacaggggcg tagaagggcc cagtaatggc tggagccttc ttcgcaggat
6721 tagcaggtga tgtcgtgtcg aacggcatcg gatcccttat caatgcaggt gctaatgcag
6781 ttaatcaaaa agtggagtat gactttaaca agcaacttca gatggcatca ttcaagcacg
6841 acaaggagat gctacaatca caggtgttgg caaccaaaca actgcagcag gagatgatga
6901 acataaggca aggggtgttg accgctggcg gcttctcccc cgccgatgct gctaaagggg
6961 ctgttaatgc cccaatgacg aagattctgg actggaatgg cacaagatat tgggcaccaa
7021 acagtatgaa aaccacaagc tattcaggac agttttctag cagccctgtt catagatcct
7081 ttgctacccc ccagcatact gctccaccaa agggcaagtt gcaaggtgat tctgctagtg
7141 tgtacagttc tccctctacc atttcttcac aatcaaccca ttcaacagcg ctgtctgcag
7201 gaactgggtc gtccaggtcc acctccacgt ccacagcaac ctctaccttg tctagaacca
7261 gcgactgggt cagaggacag aatgaaaggc ttagcccgtt tatggatggt gctctccaaa
7321 ctacctttgt cacaccacca tcgagcaagg cttcatcaaa tgggacggtc tcaaccgtgc
7381 ccaaagctgt tttggactcc tggactccta tgttcaatac gcataggcag cctctcttcg
7441 cccatttgcg taggcgaggg gagtcacaaa tttagtgaaa agagtgatta ggttttcttt
7501 ccctttctct tctccttttc tctctttt
//