Typing tool
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Typing tool
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Complete norovirus genomes
| MW305710 | GII.7 | |
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| GII.P7 |
ORF1: 1..5027
ORF2: 5008..6630
ORF3: 6630..7403
LOCUS MW305710 7459 bp RNA linear VRL 06-JUL-2021
DEFINITION Norovirus GII isolate CMH-N105-13 nonstructural polyprotein (ORF1)
gene, partial cds; and VP1 (ORF2) and VP2 (ORF3) genes, complete
cds.
ACCESSION MW305710
VERSION MW305710.1
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JOURNAL Unpublished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-N105-13"
/isolation_source="feces"
/host="Homo sapiens"
/db_xref="taxon:122929"
/country="Thailand"
/collection_date="15-Jul-2013"
/note="genotype: GII.7[GII.P7]"
gene <1..5027
/gene="ORF1"
CDS <1..5027
/gene="ORF1"
/codon_start=3
/product="nonstructural polyprotein"
/protein_id="QPJ59466.1"
/translation="ATPSNKEEVGAFSNIKVGFKKMLGAVPKGTKAPSSVQHCPTVKI
GPKTLTIPPEPPNGEDTVQFDAKSETIIGLPDLTTVQNEHENTPYTVPPLSEREHRPA
TEPLPGTILEMWDGEFYHYSVYVSDGKALGVHKPPAAISLATIELTPISLYWRPVYTP
NYLVSPDTLKGLAGEKFPYTAFSNNCYNFCCWVLELNDTWLNRRCISRTTGFFKPYQS
WNRKPLPTVDDGKIKKVANAILCALGSLFSKPIKDLLGKLKPLNLLHLLASCDWTFAG
IVETVILMAELFNVFWTPPDVSNFVASLIGDFELQGPEDLAVELVPVVMGGIGMVLGF
TAEKIGRMLSSAASTLRACKDLGNYALDILKLVMKWFFPKKEEKAEMETLRAIEDAVL
DMEAIGNNHLTTLLKDKDSLTAFMKTLDLEEEKARKLSTKSSSPDIVGTINAILARIA
AARSLLHKAKEEMFSRIRPVVVMISGRPGIGKTHMARHLAKSIANTMSGDQRVGLVPR
NGVDHWDAYRGERVVLWDDYGMGSPVKDALTLQELADTCPVTLNCDRIENKGKMFDSD
VIIITTNLVNPAPLDYVNFEACSRRVDFLVYAESPEIEKVKRDFPGQPDMWKDHFKPD
FSHIKLTLAPQGGFDKNGNTPHGKGTMRSLTQGSLTARVAGLVHERRDEFQLQGNDLQ
TYNFDTNRVSAFRKLAADNKYGIMETMRVGAALKNVKTLEDLKIALRDVKFNECEIIY
KNSKYRVSSNGKGSVSVDKVENNASQTVNEVQTALLRLRQARARYYISCFQDLVYTLI
QVAGASFVVNRISRRFCWERWVKPTETQEVNESEKEVAQGRWEIEPKDTEPEGKKGKN
KKGRGKKHTAFSSKGLSDEEYDEFKRIREERNGKYSIEEYLQDRDRYYEEVAVARATE
EDFCEEEEAKIRQRIFRPTKKQRKEERGVLGLVTGSDIRKRRPDDFQPKGNLWADDTR
SVDYNERLDFEAPPSVWSRIVPLGTGWGFWVSSNLLITTTHVLPKGVKELFGVEIKQI
QVHKSGEFCRFRFPRPIRPDVTGLVLEEGAPEGTVCSILIKRPTGEMIPLAVRMGTHA
SMKIQGRTVGGQMGMLLTGANAKNMDLGTGPGDCGCPYIYKRGNDIVVAGVHTAAARG
GNTVICATQGQDGEAVLEGNEDLGTYCGAPILGPGKAPKLSTKTKFWRSSPDALPPGT
YEPAYLGGKDPRVEKGPSLQQVMRDQLRPFTEPRGKPPRPAVLEEAKKTVMNVLEQTI
DPAKPWSYSQACASLDKTTSSGSPHHVKKNDHWNGESFTGPLADQASKANLMYEQAKH
VQPVYTAALKDELVKTDKIYKKIKKRLLWGSDLGTMIRCARAFGGLMDSMKASCIALP
CRVGMNMNEDGPIIFDKHSKYRYHYDADYSRWDSTQQRSILSAAMEVMVRFSAEPELA
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="QPJ59467.1"
/translation="MKMASNDAAPSNDGAAGLVPEINNEVMPLEPVAGASLATPVVGQ
QNIIDPWIRNNFVQAPAGEFTVSPRNSPGEILLDLELGPELNPYLAHLARMYNGHAGG
MEVQIVLAGNAFTAGKIIFAAIPPGFPYENLSPSQITMCPHVIIDVRQLEPVLLPMPD
IRNNFFHYNQGNDPKLRLVAMLYTPLRANNSGDDVFTVSCRVLTKPSPDFEFTFLVPP
TVESKTKQFTLPILKISEMTNSRFPVPVEMMYTARSENQVVQPQNGRVTLDGELLGTT
PLLAVNICKFKGEVIAKNGDVRSYRMDMEITNTDGTPIDPTEDTPGPIGSPDFQGILF
GVASQRNKNEQNPATRAHEANINTGGDQYAPKLAQVKFFSESQDFEVHQPTVFTPVGV
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="QPJ59468.1"
/translation="MASAFLANLAGGVASNGISSLINAGANAINQKVEFDYNKQLQNA
SFSHDKEMLQAQIEATKRLQQEMIGIKQGVLTAAGFSPTDAARGSVGAPMTKLVDWSG
TRYWAPGAMRTTGYSGTFTHLPPVQSASYVNDQNRQFLKVDPSPPSSSGSSVSSVKTQ
STTLSGTSRVGSASQSTLSTRPSTRTSDWVRSQNERLGPFMDGALQTTYVTPPSSRAS
NVSTVSTVPKEVLDSWTPMFNTYRQPLFAHLRRRGESQI"
ORIGIN
1 acgccacccc ttctaacaaa gaagaggttg gtgcattctc caacatcaaa gttggattta
61 agaaaatgct gggtgccgta cccaagggta ccaaagcacc cagcagtgtt caacattgcc
121 ccacagttaa gatcgggcct aaaacattaa caatcccccc tgagccccca aatggtgaag
181 acactgtaca gtttgatgca aagtcagaaa ctataattgg gttgccagac ttaacaacgg
241 tgcaaaatga acatgaaaac accccataca ctgtccctcc attaagtgag agggagcaca
301 gaccggccac tgaaccactt cctggcacaa tattggagat gtgggatggt gagttttacc
361 attactccgt gtacgttagc gacggcaaag ctctgggggt ccataaacca ccggcggcta
421 taagcctcgc gacgatagag ctcaccccca tatcacttta ctggaggccc gtttataccc
481 ctaattactt ggtctccccg gacacattaa agggcctcgc tggtgagaag ttcccctaca
541 cggccttcag taacaactgt tataacttct gttgctgggt gctagagctc aacgacacgt
601 ggcttaacag aagatgcatt tccagaacca ccggcttctt caaaccatac cagtcttgga
661 acaggaaacc tctcccaacc gttgatgatg ggaagatcaa aaaggtggcc aacgcgatcc
721 tctgcgctct cggctcgctg ttctcaaaac caattaaaga cctattaggc aaactcaagc
781 cattgaacct actgcacttg ctcgcgtctt gtgattggac gtttgcgggt atagtggaga
841 cagtcatctt gatggcagag ctttttaatg tcttctggac cccgccagat gtctctaatt
901 ttgtagcctc cctaataggt gattttgaat tgcaagggcc tgaggacctg gctgtggagc
961 tcgtccccgt ggtcatgggt ggcataggga tggttctcgg tttcaccgct gagaagatag
1021 gccgcatgct gtcgtccgct gcatcaacac tgcgggcgtg caaagaccta gggaactatg
1081 cccttgacat actcaaattg gtcatgaagt ggttcttccc aaagaaggaa gagaaagctg
1141 agatggaaac cttgagggca atcgaagatg ccgtcctgga tatggaagct atagggaata
1201 accacctcac aacccttctc aaggacaaag acagcctcac ggctttcatg aagaccctgg
1261 atctggagga ggagaaggcg aggaagctgt ccactaaatc atcttcaccg gacatagtcg
1321 gcaccatcaa tgccatactg gctaggatag ctgctgccag atcccttcta cataaggcca
1381 aagaggagat gttcagcagg atcaggccag tggtcgtgat gatctcaggc agacctggca
1441 ttggaaagac ccacatggcg agacatttgg ccaagagcat cgccaacacc atgagcggtg
1501 accagagagt cgggctcgtt ccgcgcaacg gtgtcgacca ctgggatgcc tacaggggag
1561 agagggtggt cttgtgggat gactacggta tggggagccc tgttaaagac gccctaacac
1621 tacaagagct ggccgataca tgtccagtca ctttgaattg tgataggatt gagaataagg
1681 ggaagatgtt tgacagtgat gtcatcataa tcacgaccaa cctagtcaac cccgcacccc
1741 tcgattatgt gaacttcgag gcgtgttcta ggagagttga cttcctggtt tatgcagagt
1801 caccagaaat tgaaaaggtc aagagagact tccctggcca gcctgacatg tggaaagacc
1861 attttaaacc agacttctcc cacatcaagc tgaccctagc cccccagggc gggtttgaca
1921 aaaatggcaa caccccacac ggcaagggta ccatgcggtc cctaacccag gggtccctga
1981 ctgcgagagt tgcaggcctt gtccatgaga ggagagacga attccaactc caaggaaatg
2041 acctccaaac atacaacttt gacactaaca gagtctctgc attcaggaaa ttggctgcag
2101 ataacaagta tgggatcatg gagacgatga gagtgggtgc ggcactcaag aatgtgaaga
2161 ccctggaaga ccttaaaatt gcattgaggg atgtaaaatt caatgagtgt gaaataattt
2221 acaagaactc taagtatcgt gtctcttcca acggtaaagg ttcagtctct gttgacaaag
2281 ttgagaacaa tgcatcccag actgtgaatg aggtacaaac agcacttctc aggctcaggc
2341 aagcgagggc cagatattac atcagctgct tccaagacct cgtctacact ctcatacagg
2401 ttgccggagc gtcattcgtt gtcaacagga tctccagaag gttctgctgg gaaaggtggg
2461 tcaaaccgac cgagacccag gaggtgaatg agtccgaaaa ggaagtggca caaggcagat
2521 gggaaattga gcccaaggac acagaaccag aaggcaagaa gggtaagaac aagaaaggaa
2581 ggggtaagaa acacacagct ttctctagca aaggcctgag tgatgaagag tatgacgaat
2641 tcaagagaat cagggaggaa aggaacggaa agtactccat tgaggaatat ctgcaagacc
2701 gggaccgcta ttatgaagaa gtggcagttg cccgggcgac agaggaggac ttctgtgaag
2761 aggaagaggc caagataaga caaagaattt tccgcccgac aaagaaacag aggaaggagg
2821 aaaggggtgt gcttggctta gtcaccggct cagacatcag aaagaggaga ccagatgact
2881 tccaaccaaa aggcaaccta tgggcagatg acaccaggag tgtggactac aatgagaggc
2941 ttgactttga agcgcccccg agtgtctggt caagaatagt cccattaggc actggttggg
3001 gattctgggt ttcatccaac cttctgatca caacaacaca cgtcctgcct aaaggggtta
3061 aggagctctt tggagtagaa atcaaacaaa tccaagttca caaatctgga gagttttgca
3121 ggtttagatt cccaagacct attaggccag atgtcacagg actcgtactg gaggagggcg
3181 ccccagaagg cactgtttgt tctatactca taaaaagacc cacaggtgag atgatcccct
3241 tggcagtgag gatgggcaca catgcatcca tgaaaataca gggcaggact gttggtggcc
3301 agatggggat gcttctcaca ggagcaaacg cgaagaacat ggatctcggc accggtcctg
3361 gtgactgcgg ttgcccctac atctacaaac gtggcaacga cattgttgtc gcgggtgttc
3421 acaccgcagc agcccgggga ggcaacaccg tcatatgtgc cacccaaggg caagatgggg
3481 aagcagtcct cgagggaaat gaggaccttg gcacctattg tggcgcccca attctgggcc
3541 ctggcaaggc gcctaaactc agcacgaaga ccaagttttg gcgctcatca ccagatgcct
3601 tgccacctgg cacatatgaa cctgcttacc taggaggcaa agaccctaga gtggaaaaag
3661 gtccctccct gcaacaagtc atgagagacc agctgagacc cttcacagaa cccaggggca
3721 aaccacctag acctgcagtc ttggaggaag ccaaaaagac agtgatgaat gttctagaac
3781 aaaccattga ccccgccaag ccatggtcct attcgcaggc atgtgcctca ctggacaaaa
3841 ctacctctag tggtagtccc catcacgtta agaaaaatga ccactggaat ggggagtcct
3901 tcactggtcc acttgcagat caggcatcta aagccaatct catgtatgag caggctaaac
3961 atgtgcagcc tgtgtatacg gccgcactca aagatgagct tgttaagact gacaagatct
4021 acaagaagat aaagaagaga ctcctatggg ggtcggacct tggcacaatg atcaggtgcg
4081 ccagggcttt tggtggtctc atggacagca tgaaggcaag ttgtatagct ctcccttgca
4141 gggtaggaat gaacatgaat gaagatggcc ccattatatt tgacaaacat tctaagtaca
4201 ggtaccacta tgatgctgac tattctaggt gggactcaac ccaacagagg agcattcttt
4261 ccgccgctat ggaagtaatg gtgcggttct ctgctgaacc agaattggca caagtggttg
4321 cagaggacct tttggcacct agccagcttg atgttggcga ttttgtcatt tcagtccagg
4381 agggtctgcc atcaggagtc ccatgtacat cacaatggaa ttcaatagca cactggatcc
4441 taactttgag tgcaatggca gaagtgtcag ggctctcacc agatgttgtc caagctcact
4501 cctgtttttc attttatggg gatgatgaga tcgtcagtac tgatatcaac cttgacccca
4561 tgaagttgac acagaaactc agggagtacg gtctggtccc cacccggcct gacaaaactg
4621 aaggtcccct cgtcataact gaagacctca ctggcctgac gttcctccgt aggtcgattg
4681 cccgggaccc agctggttgg tttggaaagc tggaccaaga ctcaatcctt aggcagctgt
4741 actggacaag ggggcctaac catgaaaacc cgtacgagag catggttcct cattctcagc
4801 gggccacaca actcatggcc cttcttggtg aggcctcact gcatggtccc cagttttaca
4861 agaaagttag caagatggtc atcaatgaga ttaagagtgg tggtctggag ttttacgtgc
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 gtcgggcagc aaaatataat tgatccctgg
5161 ataagaaata attttgtaca agctcctgca ggtgagttta cagtttcccc tagaaattcc
5221 cctggtgaaa ttttgcttga tttggagttg ggaccagaac tgaaccccta tctcgctcat
5281 ctggcccgta tgtataatgg gcacgctggt ggcatggaag tgcaaattgt gttggctggg
5341 aacgcgttca cagctggcaa gatcatattt gctgccatcc ctccagggtt cccatatgaa
5401 aatttgtcac cttcacaaat cacaatgtgc cctcatgtta taattgatgt tagacaatta
5461 gaaccagttc tgctacctat gccagatatt agaaacaatt tcttccatta caatcagggc
5521 aatgacccaa aattgagatt ggtagctatg ctctacaccc ctttaagggc taacaattct
5581 ggtgatgatg tgttcacagt ttcttgtagg gtcctcacta aaccgtcacc tgattttgaa
5641 ttcacatttt tggttccccc cacggttgaa tctaagacca aacagttcac attacccatc
5701 ctcaaaatat cagagatgac caactcaaga ttcccagtac cagtggaaat gatgtacaca
5761 gcaaggagtg agaaccaagt tgttcagcca cagaatggta gggtcacact tgatggcgag
5821 ctattaggca ccacaccctt gttggctgtc aacatctgca aattcaaggg ggaggttata
5881 gccaagaatg gagatgtgag atcctatagg atggacatgg aaattaccaa cactgatggc
5941 accccaattg accccacaga agatacacct ggtcccattg gttcacctga ctttcaaggt
6001 atactctttg gcgttgccag ccaacgcaat aagaatgagc aaaaccctgc cacgagagcc
6061 catgaagcca acattaacac tggtggggac caatatgccc ccaaattggc ccaagtgaaa
6121 ttcttctcag agtcccagga tttcgaggtg caccagccca cagttttcac cccagttggt
6181 gtggcaggcg acacttccca ccctttcaga cagtgggtcc tgcctcgata tggtggacac
6241 ctcaccaaca acacccactt ggctccagca gtggcccccc tatttccagg tgagcagatt
6301 ctattcttta gatcacaaat acccagctca ggcggccatg aattgggtta catggactgc
6361 cttgtcccac aagaatgggt ccaacacttc tatcaagaag ctgccacagc tcagtctgag
6421 gtggcactca taaggttcat caacccagac actggcagag tcctctttga ggccaagctg
6481 cacaagcaag gctttataac tgtggctcat actggtgata acccaattgt catgccacca
6541 aatgggtact ttagatttga agcctgggtt aatcagtttt actcactcgc ccccgtggga
6601 actgggaacg ggcgcaggag gatccaataa tggctagtgc ttttcttgca aatttggcag
6661 gaggcgttgc ctccaatgga attagttcac tcataaatgc tggggctaac gctattaacc
6721 aaaaggttga gtttgattat aataaacaac tccaaaatgc atccttctcc catgataagg
6781 aaatgctcca agcccaaatt gaagccacta aacgtctgca acaagagatg attggcataa
6841 agcaaggggt gctgacagct gcgggattct ctcctacaga tgccgcgagg ggttctgtcg
6901 gcgcgccaat gacaaaatta gttgattgga gtggcactag atattgggcg cctggtgcca
6961 tgaggacaac aggttattca gggactttta ctcacttgcc ccctgtgcag tccgcttcat
7021 atgttaatga tcaaaataga caatttctta aagtagatcc ttctcctcct tcttcgagtg
7081 gttcttctgt ttcttctgtc aaaacacaat caactaccct ttcaggcact tcaagggtgg
7141 gctccgcatc tcagtcaacc ctgtcgacca ggccgagcac aaggacatct gattgggtgc
7201 gcagccagaa tgaaaggttg ggtcccttca tggatggagc gttgcaaaca acgtatgtaa
7261 cgccaccatc cagtagggca tcaaatgtca gcacagtctc gaccgtgccg aaagaggttt
7321 tggactcctg gacgcctatg tttaacacct acaggcagcc actcttcgcc catttgcgta
7381 ggagagggga gtcacagatt tagtgaaaag attggttagg aaagttgatt agtttgttct
7441 tcctttctac tattccttt
//