Typing tool
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Typing tool
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Complete norovirus genomes
| MW305721 | GII.7 | |
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| GII.P7 |
ORF1: 1..5027
ORF2: 5008..6630
ORF3: 6630..7403
LOCUS MW305721 7459 bp RNA linear VRL 06-JUL-2021
DEFINITION Norovirus GII isolate CMH-ST018-16 nonstructural polyprotein (ORF1)
gene, partial cds; and VP1 (ORF2) and VP2 (ORF3) genes, complete
cds.
ACCESSION MW305721
VERSION MW305721.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7459)
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JOURNAL Unpublished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 7459)
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..7459
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="CMH-ST018-16"
/isolation_source="feces"
/host="Homo sapiens"
/db_xref="taxon:122929"
/country="Thailand"
/collection_date="03-Feb-2016"
/note="genotype: GII.7[GII.P7]"
gene <1..5027
/gene="ORF1"
CDS <1..5027
/gene="ORF1"
/codon_start=3
/product="nonstructural polyprotein"
/protein_id="QPJ59499.1"
/translation="ATPSNKEEVGAFSNIKVGFKKMLGAVPKGTKAPSSGQHCPTVKI
GPKTLTIPPEPPNGEDTVQFDAKSETIIGLPDLTTVKNEHENTPYTVPPLSEREHRPA
TEPLPGTILEMWDGEFYHYSVYVSDGKALGVHKPPAAISLATIELTPISLYWRPVYTP
NYLVSPDTLKGLAGEKFPYTAFSNNCYNFCCWVLELNDTWLNRRCISRTTGFFKPYQS
WNRKPLPTVDDGKIKKVANAILCALGSLFSKPIKDLLGKLKPLNLLHLLASCDWTFAG
IVETVILMAELFNVFWTPPDVSNFVASLIGDFELQGPEDLAVELVPVVMGGIGMVLGF
TAEKIGRMLSSAASTLRACKDLGNYALDILKLVMKWFFPKKEEKAEMETLRAIEDAVL
DMEAIGNNHLTTLLKDKDSLTAFMKTLDLEEEKARKLSTKSSSPDIVGTINAILARIA
AARSLLHKAKEEMFSRIRPVVVMISGRPGIGKTHMARHLAKSIANTMSGDQRVGLVPR
NGVDHWDAYRGERVVLWDDYGMGSPVKDALTLQELADTCPVTLNCDRIENKGKMFDSD
VIIITTNLVNPAPLDYVNFEACSRRVDFLVYAESPEIEKVKRDFPGQPDMWKDHFKPD
FSHIKLTLAPQGGFDKNGNTPHGKGTMRSLTQGSLTARVAGLVHERRDEFQLQGNDLQ
TYNFDTNRVSAFRKLAADNKYGIMETMRVGAALKNVKTLEDLKIALRDVKFNECEIIY
KNSKYRVSSNGKGSVSVDKVEDNASQTVNEVQSAILRLRQARARYYISCFQDLVYTLI
QVAGASFVVSRISRRFCWERWVKPTETQEVNDSEKEVAQGRWEIEPKDAEPEGKKGKN
KKGRGKKHTAFSSKGLSDEEYDEFKRIREERNGKYSIEEYLQDRDRYYEEVAVARATE
EDFCEEEEAKIRQRIFRPTKKQRKEERGVLGLVTGSDIRKRRPDDFQPKGNLWADDTR
SVDYNERLDFEAPPSVWSRIVPLGTGWGFWVSSNLLITTTHVLPKGVKELFGVEIKQI
QVHKSGEFCRFRFPRPIRPDVTGLVLEEGAPEGTVCSILIKRPTGEMIPLAVRMGTHA
SMKIQGRTVGGQMGMLLTGANAKNMDLGTGPGDCGCPYIYKRGNDIVVAGVHTAAARG
GNTVICATQGQDGEAVLEGNEDLGTYCGAPILGPGKAPKLSTKTKFWRSSPDALPPGT
YEPAYLGGKDPRVEKGPSLQQVMRDQLRPFTEPRGKPPRPAVLEEAKKTVMNVLEQTI
DPAKPWSYLQACASLDKTTSSGSPHHVKKNDHWNGESFTGPLADQASKANLMYEQAKH
VQPVYTAALKDELVRTDKIYKKIKKRLLWGSDLGTMIRCARAFGGLMDSMKASCIALP
CRVGMNMNEDGPIIFDKHSKYKYHYDADYSRWDSTQQRSILSAAMEVMVRFSAEPELA
QVVAEDLLAPSQLDVGDFVISVQEGLPSGVPCTSQWNSIAHWILTLSAMAEVSGLSPD
VVQAHSCFSFYGDDEIVSTDINLDPMKLTQKLREYGLVPTRPDKTEGPLVITEDLTGL
TFLRRSIARDPAGWFGKLDQDSILRQLYWTRGPNHENPYESMVPHSQRATQLMALLGE
ASLHGPQFYKKVSKMVINEIKSGGLEFYVPRQEAMFRWMRFSDLSTWEGDRNLAPEGV
NEDGVE"
mat_peptide <1..935
/gene="ORF1"
/product="p48"
mat_peptide 936..2033
/gene="ORF1"
/product="NTPase"
mat_peptide 2034..2552
/gene="ORF1"
/product="p22"
mat_peptide 2553..2951
/gene="ORF1"
/product="VPg"
mat_peptide 2952..3494
/gene="ORF1"
/product="Pro"
mat_peptide 3495..5024
/gene="ORF1"
/product="RdRp"
gene 5008..6630
/gene="ORF2"
CDS 5008..6630
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="QPJ59500.1"
/translation="MKMASNDAAPSNDGAAGLVPEINNEVMPLEPVAGASLATPVVGQ
QNIIDPWIRNNFVQAPAGEFTVSPRNSPGEILLDLELGPELNPYLAHLARMYNGHAGG
MEVQIVLAGNAFTAGKIIFAAIPPGFPYENLSPSQITMCPHVIIDVRQLEPVLLPMPD
IRNNFFHYNQGNDPKLRLVAMLYTPLRANNSGDDVFTVSCRVLTKPSPDFEFTFLVPP
TVESKTKQFTLPILKISEMTNSRFPVPVEMMYTARNENQVVQPQNGRVTLDGELLGTT
PLLSVNICKFKGEVIAKNGDVRSYRMDMEITNTDGTPIDPTEDTPGPIGSPDFQGILF
GVASQRNKSEQNPATRAHEANINTGGDQYAPKLAQVKFFSESQDFEVHQPTVFTPVGV
AGDTSHPFRQWVLPRYGGHLTNNTHLAPAVAPLFPGEQILFFRSQIPSSGGHELGYMD
CLVPQEWVQHFYQEAATAQSEVALIRFINPDTGRVLFEAKLHKQGFITVAHTGDNPIV
MPPNGYFRFEAWVNQFYSLAPVGTGNGRRRIQ"
gene 6630..7403
/gene="ORF3"
CDS 6630..7403
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="QPJ59501.1"
/translation="MASAFLANLAGGVASNGISSLINAGANAINQKVEFDYNKQLQNA
SFSHDKEMLQAQIEATKRLQQEMIDIKQGVLTAAGFSPTDAARGSVGAPMTRLVDWSG
TRYWAPGAMRTTGYSGTFTHLPPVQPASYVNNQNRQSLKVDSSPPSSSGSSVSSVKTQ
STTLSGTSRVGSSSQSTLSTRPSTRTSDWVRSQNERLSPFMDGALQTTYVTPPSSRAS
SVSTVSTVPKEVLDSWTPMFNTHRQPLFAHLRKRGESQI"
ORIGIN
1 acgccacccc ttctaataag gaagaggttg gtgcattctc caacataaaa gttggattca
61 agaaaatgct gggtgccgtt cccaagggca ccaaagcacc cagcagtggt caacattgcc
121 ccacagtcaa gatcgggcct aaaacattaa caatcccccc tgagccccca aatggtgaag
181 acaccgtaca gtttgatgca aagtcagaaa ctataattgg gttgccggac ttgacaacag
241 tgaaaaatga acatgaaaac accccataca ctgtccctcc attaagtgag agggaacaca
301 gaccggctac cgaaccactt cctggcacaa tattggaaat gtgggacggt gagttttacc
361 attattctgt gtacgtcagc gacggcaaag ctctgggggt ccacaaacca ccggcagcta
421 taagcctcgc gacgatagag ctcaccccca tatcacttta ctggaggccc gtttataccc
481 ctaattactt ggtctccccg gacacattaa agggtctcgc tggtgagaag tttccctata
541 cggccttcag taacaactgt tataactttt gttgttgggt gcttgagctc aacgacacgt
601 ggcttaacag aagatgcatt tccagaacta ccggcttctt caagccatac cagtcttgga
661 acagaaaacc tctcccaact gtcgatgatg ggaagattaa aaaggtggcc aacgcaatcc
721 tctgtgcact cggttcactg ttctcaaaac caatcaaaga cctgttaggt aaactcaagc
781 cactgaatct gctgcacttg cttgcgtctt gtgattggac gtttgcgggt atagtggaga
841 cagtcatctt gatggcggag cttttcaatg tcttttggac ccccccagat gtctctaatt
901 ttgtagcctc ccttataggt gattttgaat tacaagggcc tgaggacctg gctgtggagc
961 tcgtccccgt ggttatgggc ggcataggga tggttcttgg tttcaccgcc gagaagatag
1021 gccgcatgct gtcgtccgct gcatcaacac tgcgggcgtg caaagaccta gggaactacg
1081 cccttgacat actcaaattg gtcatgaagt ggttcttccc gaagaaggaa gagaaagctg
1141 agatggaaac cttgagggcg attgaagatg ccgtcctaga tatggaagcc atagggaaca
1201 accacctcac aacccttctc aaggacaaag atagcctcac ggctttcatg aagaccctgg
1261 atctggaaga ggagaaggcg aggaaactgt ccactaaatc atcttcaccg gacatagttg
1321 gcaccatcaa tgccatactg gctaggatag ctgctgctag atcccttcta cacaaggcca
1381 aagaggagat gttcagcagg attaggccag tggttgttat gatctcaggc aggcctggca
1441 ttggaaaaac ccacatggcg aggcatttgg ctaagagcat tgccaacacc atgagtggtg
1501 accagagagt cggactcgtt ccgcgcaacg gcgtcgacca ctgggatgcc tacagaggag
1561 agagggtggt cttgtgggat gactacggca tggggagccc cgttaaggat gctctaacac
1621 tacaagagct ggccgacaca tgcccagtca ctttaaattg tgacaggatt gagaacaagg
1681 ggaagatgtt tgacagtgat gtcatcataa tcacgaccaa cctagtcaac cccgcgcccc
1741 tcgactatgt aaacttcgag gcgtgttcta ggagagttga cttcctggtc tatgcagagt
1801 caccagaaat tgagaaggtc aagagagact tccctggcca gcctgacatg tggaaagacc
1861 attttaaacc agacttctcc cacatcaagc tgactctagc cccccagggt gggtttgaca
1921 aaaatggcaa caccccacac ggtaagggaa ccatgcggtc cctaacacag gggtccctga
1981 ctgcgagagt tgcaggcctt gtccatgaga ggagagatga attccagctc caaggaaatg
2041 acctccaaac atacaatttt gacaccaaca gagtctccgc attcagaaaa ttggctgcag
2101 ataacaagta tgggatcatg gagacaatga gagtgggtgc ggcactcaag aatgtgaaga
2161 ccctggaaga tcttaaaatt gcattgaggg atgtaaaatt caatgagtgt gaaataatct
2221 ataagaactc taagtatcgg gtctcttcca acggtaaagg ctcagtttct gttgataaag
2281 ttgaggacaa tgcatcccag actgtaaacg aggtgcagtc agcaattctc aggctcaggc
2341 aagcgagggc cagatattac atcagctgct tccaagacct cgtctacact ctcatacagg
2401 ttgccggagc atcattcgtt gtcagcagga tctccagaag gttctgctgg gaaaggtggg
2461 tcaaaccgac cgagacccag gaggtgaatg attccgaaaa ggaagtggca caaggcagat
2521 gggaaattga gcccaaggat gcagaaccag aaggcaagaa gggtaagaat aagaaaggaa
2581 ggggtaagaa acacacagct ttctctagca aaggcctgag tgatgaagag tatgacgagt
2641 tcaagagaat cagggaagag agaaacggaa agtactccat tgaggaatac ctgcaagacc
2701 gggaccgcta ttatgaagaa gtggcagttg cccgggcgac agaggaggac ttttgtgaag
2761 aggaagaggc caagataaga caaagaattt tccgcccgac aaagaaacag aggaaggagg
2821 agaggggtgt gcttggctta gtcaccggct cagacatcag gaagaggaga ccagatgact
2881 tccaaccaaa aggcaaccta tgggcagatg acaccagaag cgtggactac aatgagagac
2941 ttgattttga agcgcccccg agtgtttggt caagaatagt cccattaggc actggttggg
3001 gattctgggt ttcatccaac cttctgatca caacaacaca cgtcctgcct aaaggggtta
3061 aggagctctt tggagttgaa attaagcaaa tccaagttca taagtctgga gagttttgca
3121 ggttcagatt cccaagacct atcaggccag atgtcacagg actcgtgttg gaggaaggcg
3181 ccccagaagg cactgtctgt tctatactca taaaaagacc cacaggtgag atgatccccc
3241 tagcagtgag gatgggcaca catgcatcca tgaaaataca gggcaggact gttggtggcc
3301 agatgggaat gcttcttaca ggagcaaacg cgaagaacat ggacctcggc accggtcctg
3361 gtgactgcgg ttgtccttac atctacaaac gtggcaacga cattgttgtc gcaggtgttc
3421 ataccgcagc agcacgagga ggcaacactg ttatatgtgc cacccaaggg caagacgggg
3481 aagcagtcct tgaggggaat gaggaccttg gcacctattg tggcgcccca attttgggcc
3541 ccggcaaggc gcctaaactc agcacgaaga ccaagttttg gcgttcatca ccagatgcct
3601 taccacctgg cacatatgaa cctgcttacc tagggggcaa agatcctaga gtggaaaaag
3661 gtccttccct tcaacaagtc atgagagacc agttgagacc cttcacagaa cccaggggca
3721 aaccacctag acctgcagtc ttggaggaag ccaaaaagac agtgatgaat gttctagaac
3781 aaaccattga ccccgccaag ccatggtcct acttgcaggc atgtgcctca ctggacaaaa
3841 ccacctccag tggtagtccc catcatgtta agaaaaacga ccactggaat ggggagtcct
3901 tcaccggccc acttgcagat caggcatcta aagccaacct catgtatgag caggctaagc
3961 atgtgcagcc cgtgtatacg gccgcgctca aagatgagct tgttaggact gacaagatct
4021 acaaaaagat aaagaagagg ctcctgtggg ggtcggacct tggcacaatg atcaggtgtg
4081 ccagggcctt tggtggtctc atggacagca tgaaggcaag ttgtatagct cttccttgta
4141 gggtagggat gaacatgaat gaagatggcc ctattatatt tgacaaacat tctaagtaca
4201 agtaccacta tgatgctgac tattctaggt gggactcaac ccaacaaagg agcattcttt
4261 ctgccgctat ggaagtgatg gtgcggttct ctgctgaacc agaattggca caagtggttg
4321 cagaggacct tctagcacct agccagcttg acgttggcga ttttgtcatc tcggtccagg
4381 agggtctacc atcaggagtc ccatgcacat cacaatggaa ttcaatagca cactggatcc
4441 taactttgag tgcaatggca gaagtgtcag gtctctcacc agatgtcgtc caagctcatt
4501 cttgtttttc cttttatggg gacgatgaga tcgtcagtac tgatatcaac cttgacccca
4561 tgaaattgac acagaaactc agggagtatg gcctggtccc cacccggcct gataaaactg
4621 aaggtcccct cgtcataact gaagacctca ccggcctgac gttcctccgt aggtcgattg
4681 ctcgggaccc agctggttgg tttggaaagc tggatcaaga ctcaatcctc aggcagctgt
4741 actggacaag ggggcctaac catgagaacc catacgagag catggttccc cattctcagc
4801 gggccacaca actcatggcc cttcttggtg aggcctcact acatggtcct cagttttaca
4861 agaaagttag caagatggtc atcaatgaga ttaagagtgg tggtctggag ttttatgtgc
4921 ccagacaaga ggccatgttc aggtggatga gattctctga cctcagcaca tgggagggcg
4981 atcgcaatct tgctcccgaa ggtgtgaatg aagatggcgt cgaatgacgc agctccatct
5041 aatgatggtg cagcaggcct cgtaccagag atcaacaatg aggtcatgcc ccttgagccc
5101 gtggctggtg catcgctggc gacaccagtt gtcgggcaac aaaatataat tgatccctgg
5161 ataagaaata attttgtaca agctcctgca ggtgagttta cagtctcccc tagaaattcc
5221 cctggtgaaa ttttgcttga tttggagttg ggaccagaac tgaaccccta tctcgctcat
5281 ctggcccgta tgtacaatgg gcacgctggt ggcatggaag tgcaaattgt gttggctggg
5341 aatgcgttca cagctggcaa gatcatattt gctgccatcc ctccagggtt cccatatgag
5401 aatttgtcac cttcacaaat cacaatgtgc cctcatgtta taattgatgt tagacaatta
5461 gaaccagttc tattacctat gccagatatt aggaacaatt tcttccatta caatcagggc
5521 aatgacccaa aattgagatt ggtagccatg ctctacaccc ctttaagggc taacaattct
5581 ggtgatgatg tgttcacagt ttcttgtaga gtcctcacta aaccgtcacc tgattttgaa
5641 ttcacatttt tggtcccccc tacggttgaa tctaagacca aacagttcac attgcccatc
5701 ctcaaaatat cagagatgac caactcaaga ttcccagttc cagtggaaat gatgtacaca
5761 gccaggaatg agaaccaagt tgtccagcca cagaacggta gggtcacact tgatggcgag
5821 ctattaggca ccacaccctt gttgtctgtc aacatctgca aattcaaggg ggaggttata
5881 gctaagaatg gagatgtgag atcctatagg atggacatgg aaatcaccaa cactgatggc
5941 accccaattg accccacaga agacacacct ggtcccattg gttcacctga ttttcaaggt
6001 atactctttg gcgttgccag tcaacgcaat aagagtgaac agaaccctgc cacgagagcc
6061 catgaagcta acattaacac tggtggggac caatatgccc ccaaattggc ccaagtgaaa
6121 ttcttttcag agtcccagga tttcgaggta caccagccca cagttttcac cccggttggt
6181 gtggcaggcg acacctccca ccctttcaga cagtgggtcc tgcctcgata cggtggacat
6241 ctcaccaaca acacccattt ggctccagca gtggcccccc tgtttccagg tgagcagatt
6301 ctattcttta gatcacaaat acccagctca ggcggccatg aattgggtta catggactgc
6361 cttgtcccac aagaatgggt ccaacacttc taccaagaag ctgccacagc tcagtctgag
6421 gtggcactca taaggttcat caacccagac actggcagag tcctctttga ggccaagttg
6481 cataagcaag gctttataac tgtggctcac accggtgata acccaattgt catgccacca
6541 aatgggtact ttagatttga agcctgggtt aatcagtttt actcactcgc ccccgtggga
6601 actggaaatg ggcgtaggag gattcaataa tggccagtgc tttccttgca aatttggcag
6661 gaggcgttgc ctccaatgga attagttcac tcataaatgc tggggctaat gctattaacc
6721 aaaaggttga atttgattac aataaacaac tccaaaatgc atccttctcc catgataagg
6781 aaatgctcca agcccaaatt gaagccacca aacgtctgca acaagagatg attgacataa
6841 aacaaggggt gctgacagct gcggggttct cccctacaga tgccgcaagg ggttctgtcg
6901 gcgcgccgat gacaagatta gttgattgga gtggcactag atattgggcg cctggtgcca
6961 tgaggacaac aggttattca gggactttta ctcacttgcc ccctgtgcag cctgcttcat
7021 atgttaataa tcaaaataga caatctctta aagtagattc ttctcctcct tcttcgagtg
7081 gttcttctgt ctcttctgtc aagacacaat caactaccct ctcaggtact tcaagggtgg
7141 gctcctcatc tcagtcaacc ctctcgacta ggccgagcac aaggacatct gattgggtgc
7201 gcagccagaa tgaaaggttg agtcccttca tggatggagc gttgcaaaca acgtatgtaa
7261 cgccaccgtc cagtagggca tcaagtgtca gcacagtctc gaccgtgccg aaagaggttt
7321 tggactcctg gacgcctatg ttcaacactc acaggcagcc actcttcgcc catttgcgta
7381 agcgagggga gtcacagatt tagtgaaaag attggttagg aaagttgatt agtttgttct
7441 ccctttctac tattccttt
//