Typing tool
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Typing tool
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Complete norovirus genomes
| MW305718 | GII.7 | |
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| GII.P7 |
ORF1: 1..5027
ORF2: 5008..6630
ORF3: 6630..7403
LOCUS MW305718 7460 bp RNA linear VRL 06-JUL-2021
DEFINITION Norovirus GII isolate CMH-ST002-18 nonstructural polyprotein (ORF1)
gene, partial cds; and VP1 (ORF2) and VP2 (ORF3) genes, complete
cds.
ACCESSION MW305718
VERSION MW305718.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7460)
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JOURNAL Unpublished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 7460)
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..7460
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="CMH-ST002-18"
/isolation_source="feces"
/host="Homo sapiens"
/db_xref="taxon:122929"
/country="Thailand"
/collection_date="05-Jan-2018"
/note="genotype: GII.7[GII.P7]"
gene <1..5027
/gene="ORF1"
CDS <1..5027
/gene="ORF1"
/codon_start=3
/product="nonstructural polyprotein"
/protein_id="QPJ59490.1"
/translation="ATPSNKEEVGAFSNIKVGFKKMLGAVPKGTKAPSSDQHCPTVKI
GSKTLTIPPEPPNGEDIVQFDAKSETIIGLPDLTTVQNEHENTPYTVPPLSEREHRPA
TEPLPGTILEMWDGEFYHYSVYVSDGKALGVHKPPAAISLATIELTPISLYWRPVYTP
NYLVSPDTLKGLAGEKFPYTAFSNNCYNFCCWVLELNDTWLNRRCISRTTGFFKPYQS
WNRKPLPTVDDGKIKKVANAILCALGSLFSKPIKDLLGKLKPLNLLHLLASCDWTFAG
IVETVILMAELFNVFWTPPDVSNFIASLVGDFELQGPEDLAVELVPVVMGGIGMVLGF
TAEKIGRMLSSAASTLRACKDLGNYALDILKLVMKWFFPKKEEKAEMETLRAIEDAVL
DMEAIGNNHLTALLKDKDSLTAFMKTLDLEEEKARKLSTKSSSPDIVGTINAILARIA
AARSLLHKAKEEMFSRIRPVVVMISGRPGIGKTHMARHLAKSIANTMSGDQRVGLVPR
NGVDHWDAYRGERVVLWDDYGMGSPVKDALTLQELADTCPVTLNCDRIENKGKMFDSD
VIIITTNLVNPAPLDYVNFEACSRRVDFLVYAESPEIEKVKRDFPGQPDMWKDHFKPD
FSHIKLTLAPQGGFDKNGNTPHGKGTMRSLTQGSLTARVAGLVHERRDEFQLQGNDLQ
VYNFDTNRVSAFRKLAADNKYGIMETMRVGAALKSVKTLEDLKVALRDVKFNECEIIY
KNSKYRVSSNGKGSVSVDKVEDNASQTVNEVHSALLRLRQARARYYISCFQDLVYTLI
QVAGASFVVSRISRRFCWERWVKPTETQEVNESEKEVAQGRWEVEPKDTEPEGKKGKN
KKGRGKKHTAFSSKGLSDEEYDEFKRIREERNGKYSIEEYLQDRDRYYEEVAVARATE
EDFCEEEEAKIRQRIFRPTRKQRKEERGVLGLVTGSDIRKRRPDDFQPKGNLWADDTR
SVDYNERLDFEAPPSVWSRIVPLGTGWGFWVSSNLLITTTHVLPKGIKELFGVEIKQI
QVHKSGEFCRFRFPRPIRPDVTGLVLEEGAPEGTVCSVLVKRPTGEMIPLAVRMGTHA
SMKIQGRTVGGQMGMLLTGANAKNMDLGTGPGDCGCPYIYKRGNDIVVAGVHTAAARG
GNTVICATQGQDGEAVLEGNEDLGTYCGAPILGPGKAPKLSTKTKFWRSSPDALPPGT
YEPAYLGGKDPRVERGPSLQQVMRDQLRPFTEPRGKPPRPAILEEAKKTVMNVLEQTI
DPAKPWSYSQACASLDKTTSSGSPHHVRKNDHWNGESFTGPLADQASKANLMYEQAKH
VQPVYTAALKDELVKTDKIYKKIKKRLLWGSDLGTMIRCARAFGGLMDSMKASCVALP
CRVGMNMNEDGPIIFDKHSKYRYHYDADYSRWDSTQQRSILSAAMEVMVRFSAEPELA
QVVAEDLLAPSQLDVGDFVISVQEGLPSGVPCTSQWNSIAHWILTLSAMAEVSGLSPD
VVQAHSCFSFYGDDEIVSTDINLDPMKLTQKLREYGLVPTRPDKTEGPLVIAEDLTGL
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="QPJ59491.1"
/translation="MKMASNDAAPSNDGAAGLVPEINNEVMPLEPVAGASLATPVVGQ
QNIIDPWIRNNFVQAPAGEFTVSPRNSPGEILLDLELGPELNPYLAHLARMYNGHAGG
MEVQIVLAGNAFTAGKIIFAAIPPGFPYENLSPSQITMCPHVIIDVRQLEPVLLPMPD
IRNNFFHYNQGNDPKLRLIAMLYTPLRANNSGDDVFTVSCRVLTKPSPDFEFTFLVPP
TVESKTKQFTLPVLKISEMTNSRFPVPVEMMYTARNENQVVQPQNGRVTLDGELLGTT
PLLAVNICKFRGEVIAKNGDVRSYRMDMEITNTDGTPIDPTEDTPGPIGSPDFQGILF
GVASQRNKNEQNPATRAHEANINTGGDQYAPKLAQVKFFSESQDFEVHQPTVFTPVGV
AGDTSHPFRQWALPRYGGHLTNNTHLAPAVAPLFPGEQILFFRSQIPSSGGHELGYMD
CLVPQEWVQHFYQEAATAQSEVALIRFINPDTGRVLFEAKLHKQGFITVAHTGDNPIV
MPPNGYFRFEAWVNQFYSLAPVGTGNGRRRVQ"
gene 6630..7403
/gene="ORF3"
CDS 6630..7403
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="QPJ59492.1"
/translation="MASAFFANLAGGVASNGISSLISAGANAINQKVEFDYNKQLQNA
SFSHDKEMLQAQIEATKRLQQEMIDIKQGVLTAAGFSPTDAARGSVGAPMTKLVDWSG
TRYWAPGAMRTTGYSGTFTHLPPVQSASYINHQAGQPLKVDPSSSSSSGSSVSSVKTQ
STTLSGTSRVGSSSQSTLSTRSGTRTSDWVRSQNERLSPYMNGALQIAYVTPPSSRAS
TVSTVSTVPKEVLDSWTPMFNTHRQPLFAHLRRRGESQI"
ORIGIN
1 acgccacccc ttctaacaaa gaagaggttg gtgcattctc caacattaaa gttggattca
61 agaaaatgct gggtgccgta cccaagggca ccaaagcacc cagcagtgat cagcattgcc
121 ccacagttaa aatcgggtct aaaacattaa caatcccccc tgagccccca aatggtgaag
181 acatcgtaca gtttgatgca aagtcagaaa ctataattgg gctaccggac ttgacgacgg
241 tgcaaaacga acacgaaaat actccataca ctgtccctcc attgagtgag agggagcaca
301 gaccggccac tgaaccactt cctggcacaa tattggagat gtgggatggt gagttttacc
361 attactccgt gtacgtcagc gacggcaaag ctctaggggt acacaaacca ccggcggcta
421 taagcctcgc gacgatagag ctcaccccca tatcactcta ctggaggccc gtttataccc
481 ctaactactt ggtctccccg gacacattaa agggcctcgc tggtgagaag tttccctaca
541 cggcctttag caacaactgt tacaacttct gttgctgggt gcttgagctc aacgatacgt
601 ggcttaatag aaggtgcatt tccagaacta ctggcttttt caaaccatat cagtcttgga
661 acaggaaacc cctcccaacc gttgatgatg gaaagatcaa gaaggtggcc aacgcaatcc
721 tttgtgcact cggctcgcta ttttcaaaac caattaaaga tctgttaggc aaactcaagc
781 cattgaatct attacacttg cttgcgtcct gtgattggac gtttgcaggt atagtagaga
841 cagtcatctt aatggcggaa ctttttaatg tcttctggac cccaccagat gtctctaatt
901 ttatagcttc cttggtaggt gattttgagt tgcaggggcc tgaagacctg gctgtggagc
961 tcgtccccgt ggttatgggt ggcataggga tggttctcgg ctttaccgct gagaagatag
1021 gccgcatgct gtcgtccgct gcgtcaacac tgcgggcgtg caaagaccta gggaattatg
1081 cccttgacat actaaaatta gtcatgaaat ggttcttccc aaagaaggaa gagaaagctg
1141 agatggaaac cttgagggcg attgaagatg ccgtccttga tatggaagct atagggaata
1201 accacctcac agcccttctc aaggacaaag acagcctcac ggctttcatg aagaccctag
1261 atctagaaga ggagaaggcg agaaaactgt ccaccaaatc atcttcacca gacatagttg
1321 gcaccatcaa cgccatatta gctaggatag ctgctgctag atccctcctg cataaagcca
1381 aagaggagat gttcagcagg atcagaccag tggtcgttat gatctcaggc agacctggca
1441 tcggaaaaac ccacatggcg agacacttgg ccaagagcat cgccaacacc atgagtggtg
1501 accagagagt cggtctcgtt cctcgcaacg gtgtcgatca ctgggacgcc tacaggggag
1561 aaagggtggt cttgtgggat gactacggta tggggagccc tgttaaagac gccctaacac
1621 tgcaagagtt ggccgacaca tgtccagtca ctttaaattg tgataggatt gagaataagg
1681 ggaagatgtt tgatagtgat gtcatcataa tcacaaccaa cctagtcaat cccgctcccc
1741 tcgactatgt gaactttgag gcgtgttcca ggagagttga cttcctggtc tatgcagagt
1801 caccagaaat tgaaaaggtc aagagagact tccctggcca gcctgacatg tggaaagatc
1861 attttaagcc agacttctcc catattaagc tgactctagc cccccagggt gggtttgaca
1921 aaaacggcaa caccccacac ggtaagggta ccatgcggtc cctaacccag gggtccctaa
1981 ccgcaagagt tgcaggtctt gtccatgaga ggagagacga attccagctc caaggaaatg
2041 acctacaagt atacaatttt gacaccaaca gagtctccgc atttagaaaa ttggctgcag
2101 acaacaagta tgggatcatg gagacgatga gagtcggtgc ggcgctcaag agcgtaaaga
2161 ccctggaaga tctcaaagtt gcattgaggg atgtgaaatt caacgagtgt gaaataattt
2221 acaagaactc caagtaccga gtctcctcca acggtaaggg ctcagtttct gttgacaaag
2281 ttgaagacaa tgcatcccag actgtgaacg aggtacattc agcacttctc agacttaggc
2341 aagcgagggc cagatactac atcagctgtt tccaagacct cgtttatacc ctcatacagg
2401 ttgccggggc atcattcgtt gtcagcagga tctccagaag gttctgctgg gaaaggtggg
2461 tcaaaccgac cgagacccag gaagtgaatg agtccgaaaa ggaagtagct caaggtagat
2521 gggaagttga gcccaaggac acagaaccag aaggcaagaa gggcaagaac aagaaaggaa
2581 ggggtaagaa acacacagct ttctctagta aaggcctaag tgatgaggag tacgacgagt
2641 tcaagagaat cagggaagaa agaaacggga agtactccat tgaggaatac cttcaagacc
2701 gagaccgcta ctatgaagaa gtagcagttg cccgggcgac agaggaagac ttctgtgaag
2761 aggaagaggc caagataaga caaagaattt tccgccccac aaggaaacag aggaaggagg
2821 aaaggggtgt gcttggcttg gtcaccggct cagacatcag aaagaggaga ccagacgatt
2881 tccaaccaaa aggcaaccta tgggcagatg ataccagaag tgtggactac aatgaaaggc
2941 ttgattttga agcaccccct agtgtttggt caagaatagt cccattaggc actggttggg
3001 ggttttgggt ttcatccaac cttctgatca caacaacaca cgtcctgcct aaagggatta
3061 aggaactctt tggagttgaa atcaaacaaa tccaagtcca taagtctgga gagttttgca
3121 ggtttagatt cccaagacct atcaggccag acgtcacagg actagtgctg gaggaaggcg
3181 ccccagaggg tactgtctgt tctgtgctcg tgaaaagacc cacaggtgag atgattcccc
3241 ttgcagtgag aatgggcact catgcatcca tgaaaataca gggcaggacc gttggtggcc
3301 agatgggaat gctcctcaca ggagcaaacg cgaagaacat ggatctcgga actggccctg
3361 gcgactgcgg ttgcccttac atctacaaac gtggcaacga cattgttgtc gcgggtgtcc
3421 acaccgcagc agcccggggg ggcaacactg tcatatgtgc tacccaaggg caagatgggg
3481 aagcagtcct tgaggggaat gaggaccttg gtacctactg tggagcccca attctgggcc
3541 ctggtaaagc gcctaaactc agcacgaaga ccaagttttg gcgctcatca ccagatgcct
3601 tgccacctgg cacatatgag cctgcttact taggaggcaa agaccctaga gtggaaagag
3661 gcccctccct gcagcaagtc atgagagatc agttgagacc cttcacagaa cccagaggca
3721 aaccacctag acctgcaatc ttagaggaag ccaaaaagac agtgatgaat gtcctagaac
3781 aaactattga ccccgccaag ccatggtcct actcgcaggc atgtgcctca ctggataaaa
3841 ccacctctag tggtagtccc catcacgtta ggaaaaatga ccactggaat ggggagtcct
3901 tcactggtcc ccttgcagat caggcatcca aggccaacct catgtatgag caggctaaac
3961 atgtgcagcc cgtgtacacg gccgcactta aggatgagct tgttaagact gacaagatct
4021 acaagaagat aaagaagagg ctcctatggg ggtcggacct tggcacaatg atcaggtgcg
4081 ctagggcttt tggtggtctt atggacagca tgaaggcaag ttgtgtggct cttccttgta
4141 gggtgggaat gaatatgaat gaagatggcc ccatcatatt tgacaagcac tctaagtaca
4201 ggtaccacta tgatgctgac tattctaggt gggattcaac ccaacaaagg agcattcttt
4261 ctgccgctat ggaggtgatg gtgcggttct ctgctgaacc agaattggca caagtggttg
4321 cagaggacct tttggctcct agccagctcg atgttggcga ttttgtcatc tcagtccagg
4381 agggcttgcc atcaggagtt ccatgcacat cgcaatggaa ttcaatagca cattggatac
4441 tgactttgag tgcgatggca gaagtgtcag gtctttcacc agatgttgtc caagctcact
4501 cttgtttttc attttatggg gacgacgaaa tcgtcagcac tgacattaac cttgacccca
4561 tgaagctaac acaaaaactc agggagtacg gtctggttcc cacccggcct gataaaactg
4621 aaggtcccct cgtcatagct gaagacctta ccggcctgac gtttctacgt aggtcaattg
4681 cccgggaccc agctggttgg tttggaaaat tggaccaaga ttcaatcctc aggcaattgt
4741 actggacaag ggggcctaac catgagaacc cgtatgagag catggttcct cattcccagc
4801 gggccacaca actcatggcc cttcttggtg aggcctcact acatggcccc cagttttaca
4861 agaaagttag caaaatggtc atcaatgaaa tcaaaagtgg tggtctggag ttttatgtgc
4921 ccagacaaga ggccatgttc agatggatga gattctccga cctcagcaca tgggagggcg
4981 atcgcaatct tgctcccgaa ggtgtgaatg aagatggcgt cgaatgacgc agctccatct
5041 aatgatggtg cagcaggcct cgtaccagag atcaacaatg aggtcatgcc ccttgagccc
5101 gtggctggcg catcgctggc gacaccagtt gttgggcaac aaaatataat tgatccctgg
5161 ataagaaata attttgtgca agctcctgca ggtgagttca cagtttcccc tagaaattct
5221 cctggtgaaa ttttgcttga tttggagttg ggaccagaat tgaaccccta ccttgctcat
5281 ctggcccgta tgtacaatgg gcacgctggt ggcatggaag tgcaaattgt gttggctggg
5341 aacgcgttca cagctggcaa gatcatattt gccgccatcc ctccagggtt cccatatgaa
5401 aatttgtcac cctcacaaat cacgatgtgt cctcatgtta taattgatgt tagacagtta
5461 gaaccagtcc tattgcctat gccagatatc aggaacaatt tcttccatta caatcagggt
5521 aatgatccaa aattgagatt gatagctatg ctttatactc ctttaagggc taataattct
5581 ggtgatgatg tgttcacagt ttcttgtagg gtcctcacta agccgtcacc tgattttgaa
5641 ttcacattct tagttccccc tactgttgaa tccaagacca agcagttcac attgcccgtc
5701 ctcaaaatat cagagatgac caattcaaga ttcccagtac cagtggaaat gatgtacaca
5761 gccaggaatg agaaccaagt tgtccagcca cagaatggaa gggtcacact tgatggcgag
5821 ctattgggca ccacaccctt gttggcagtt aacatctgca agttcagggg agaggtgata
5881 gctaagaacg gagatgtgag atcctacagg atggacatgg aaatcaccaa caccgatggc
5941 accccaattg accccacaga agatacacct ggccccattg gttcacctga ctttcaaggc
6001 atactctttg gcgttgcgag ccagcgcaac aagaatgaac aaaaccctgc cacgagagcc
6061 cacgaagcca acattaacac tggtggggac cagtatgccc ccaaattggc ccaagtgaaa
6121 ttcttctcag agtcccagga tttcgaggtg caccagccca cagtcttcac cccagttggt
6181 gtggcaggtg acacttccca ccccttcaga cagtgggccc tgcctcgata cggtggacat
6241 ctgaccaata acacccacct ggctccagca gtggcccctt tattcccagg tgagcagatt
6301 ctgttcttca gatcacaaat acctagctca ggcggccatg aattgggtta catggactgc
6361 ctcgtcccac aagaatgggt ccaacacttc tatcaagaag ctgccacagc tcagtctgag
6421 gtggcactca taaggttcat caacccagac actggtagag tcctctttga ggccaagctg
6481 cataagcaag gctttataac tgtggctcac actggtgata acccaattgt catgccacca
6541 aatgggtact ttagatttga agcatgggtt aatcagtttt actcactcgc ccccgtggga
6601 actgggaatg ggcgcaggag ggttcaataa tggctagtgc tttctttgca aatttggcag
6661 gaggcgttgc ctccaatgga attagttcac tcataagtgc tggagctaat gctattaatc
6721 aaaaagttga gtttgactat aacaaacaac tccaaaatgc atctttctcc catgataaag
6781 aaatgctcca agcccaaatt gaagccacta aacgtctaca acaagagatg attgacataa
6841 aacaaggggt gctgacagct gcagggttct ctcctacgga tgccgcgagg ggctctgtcg
6901 gtgcgccaat gacaaaatta gttgattgga gcggtactag atactgggca cctggtgcca
6961 tgaggacaac aggttattca gggactttca cccacttgcc ccctgtgcag tctgcttcgt
7021 atattaacca tcaagctgga caacctctta aagtagatcc ttcttcctct tcttcgagtg
7081 gttcttctgt ttcctctgtc aaaacacaat caactaccct ctcaggcact tcaagggtgg
7141 gctcttcatc tcagtcaacc ctgtcgacta ggtcgggtac aaggacttca gattgggtgc
7201 gtagccaaaa tgagaggttg agcccttaca tgaatggagc gctgcaaata gcgtatgtaa
7261 caccaccatc cagtagggca tcaactgtca gcacagtctc gaccgtgccg aaagaggttt
7321 tggactcctg gacgcctatg ttcaacactc acaggcagcc gctcttcgcc cacctccgta
7381 ggcgagggga gtcacagatt tagtgaaaag attggttagg aaagtttgat tagtttgttc
7441 ttttctttta ctgttccttt
//