Typing tool
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Typing tool
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Complete norovirus genomes
| KM198534 | GII.6 | |
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| GII.P7 |
ORF1: 1..5094
ORF2: 5075..6727
ORF3: 6727..7440
LOCUS KM198534 7440 bp RNA linear VRL 13-NOV-2014
DEFINITION Norovirus Hu/GII/30443/2010/VNM nonstructural polyprotein and
capsid protein VP1 genes, complete cds; and capsid protein VP2
gene, partial cds.
ACCESSION KM198534
VERSION KM198534.1
KEYWORDS .
SOURCE Norovirus Hu/GII/30443/2010/VNM
ORGANISM Norovirus Hu/GII/30443/2010/VNM
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7440)
AUTHORS Cotten,M., Petrova,V., Phan,M.V., Rabaa,M.A., Watson,S.J.,
Ong,S.H., Kellam,P. and Baker,S.
TITLE Deep sequencing of norovirus genomes defines evolutionary patterns
in an urban tropical setting
JOURNAL J. Virol. 88 (19), 11056-11069 (2014)
PUBMED 25056894
REFERENCE 2 (bases 1 to 7440)
AUTHORS Cotten,M.L., Petrova,V., Phan,M.V.T., Rabaa,M.A., Watson,S.J.,
Kellam,P. and Baker,S.
TITLE Direct Submission
JOURNAL Submitted (13-JUL-2014) Virus Genomics, The Wellcome Trust Sanger
Institute, Hinxton CB10 1SA, United Kingdom
COMMENT ##Assembly-Data-START##
Assembly Method :: SPAdes v. 2.4.0
Sequencing Technology :: Illumina
##Assembly-Data-END##
FEATURES Location/Qualifiers
source 1..7440
/organism="Norovirus Hu/GII/30443/2010/VNM"
/mol_type="genomic RNA"
/isolate="Hu/GII/30443/2010/VNM"
/host="Homo sapiens"
/db_xref="taxon:1527000"
/country="Viet Nam"
/collection_date="28-Jan-2010"
/note="genotype: GII"
CDS 1..5094
/note="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="AII02730.1"
/translation="MKMASNDATAALGSQNSVNDSINTTPSNKEEVGAFSNIKVGFKK
MLGAVPKGTKAPSSDQHCPIVKIGPKTLTVPPEPPNGEDTVQFDAKSETVIGLPDLTT
VQNEHENTPYTVPPLSEREHRPATEPLPGTILEMWDGEFYHYSVYVSGGKALGVHKPP
AAISLATIELTPISLYWRPVYTPNYLVCPDTLKGLAGEKFPYTAFSNNCYNFCCWVLE
LNDTWLSRRSISRTTGFFKPYQSWNRKPLPTVDDGKIKKVANAILCALGSLFSKPIKD
LLGKLKPLNLLHLLASCDWTFAGIVETVILMAELFNVFWTPPDVSNFIASLIGDFELQ
GPEDLAVELVPVVMGGIGMVLGFTAEKIGRMLSSAASTLRACKDLGNYALDILKLVMK
WFFPKKEEKAEMETLRAIEDAVLDMEAIGNNHLTTLLKDKDSLTAFMKTLDLEEEKAR
KLSTKSSSPDIVGTINAILARIAAARSLLHKAKEEMFSRIRPVVVMISGKPGIGKTHM
ARHLAKNIANTMSGDQRVGLVPRNGVDHWDAYRGERVVLWDDYGMGNPVKDALTLQEL
ADTCPVTLNCDRIENKGKMFDSDVIIITTNLVNPAPLDYVNFEACSRRIDFLVYAESP
EIEKVKRDFPGQPDMWKDYFKQDFSHIKLTLAPQGGFDKNGNTPHGKGTMRSLTQGSL
TARVAGLVHERKDEFQLQGNDLQTYNFDTNRVSAFRKLAADNKYGIMETMKVGAALKN
VKTLEDLKVALRDVKFNECEIIYRNSKYRVSSNGKGSVSVDKVEDHTSQTANEVGSAL
LRLRQARARYYVSCFQDLVYTLIQVAGASFVVNRISKRFCWERWVKPTETQEASEPEK
EVAQGRWEIEPKDTEPEGKKGKNKKGRGKKHTAFSSKGLSDEEYDEFKRIREERNGKY
SIEEYLQDRDRYYEEVAVARATEEDFCEEEEAKIRQRIFRPTRKQRKEERGVLGLVTG
SDIRKRRPDDFQPKGNLWADDTRSVDYNERLDFEAPPSVWSRIVPLGTGWGFWVSSNL
LITTTHVLPKGVKELFGVEVKQIQIHKSGEFCRFRFPRPIRPDVTGLVLEEGAPEGTV
CSILIKRPTGEMIPLAVRMGTHASMKIQGRTVGGQMGMLLTGANAKNMDLGTGPGDCG
CPYIYKRGNDIVVAGVHTAAARGGNTVICATQGQDGEAVLEGNENLGTYCGAPILGPG
KAPKLSTKTKFWRSSPDALPPGTYEPAYLGGKDPRVEKGPSLQQVMRDQLKPFTEPRG
KPPRPAVLEEAKKTVMNVLEQTIDPAKPWTYSQACASLDKTTSSGSPHHVRKNDHWNG
ESFTGPLADQASKANLMYEQAKHVQPVYTAALKDELVKTDKIYKTIKKRLLWGSDLGT
MIRCARAFGGLMDSMKASCIALPCRVGMNMNEDGPIIFDKHSKYRYHYDADYSRWDST
QQRSILSAAMEVMVRFSAEPELAQVVAEDLLAPSQLDVGDFIISVQEGLPSGVPCTSQ
WNSIAHWILTLSAMAEVSGLSPDVVQAHSCFSFYGDDEIVSTDINLDPIKLTQKLREY
GLVPTRPDKTEGPLVITEDLTGLTFLRRSIARDPAGWFGKLDQDSILRQLYWTRGPNH
ENPYESMVPHSQRATQLMALLGEASLHGPQFYKKVSKMVINEIKSGGLEFYVPRQEAM
FRWMRFSDLSTWEGDRNLAPEGVNEDGVE"
CDS 5075..6727
/note="ORF2"
/codon_start=1
/product="capsid protein VP1"
/protein_id="AII02731.1"
/translation="MKMASNDAAPSNDGAANLVPEANNEVMALEPVVGASIAAPVVGQ
QNIIDPWIRENFVQAPQGEFTVSPRNSPGEMLLNLELGPELNPYLSHLSRMYNGYAGG
MQVQVVLAGNAFTAGKIIFAAVPPHFPVDNISAAQITMCPHVIVDVRQLEPVLLPLPD
IRNRFFHYNQENTPRMRLVAMLYTPLRANSGEDVFTVSCRVLTRPAPDFEFTFLVPPT
VESKTKPFTLPILTLGELSNSRFPAAIDMLYTDPNESIVVQPQNGRCTLDGTLQGTTQ
LVPTQICAFRGTLISQTARAADSTDSPQRARNHPLHVQVKNLDGTQYDPTDDIPAVLG
AIDFKGTVFGVASQRDVSGTQEQGHYATRAHEAHIDTTDPKYAPKLGTILIKSESTDF
NTNQPIRFTPVGMGDNNWRQWELPDYSGSLTLNMNLAPAVSPSFPGERILFFRSIVPS
AGGYGSGYIDCLIPQEWVQHFYQEAAPSQSAVALVRYVNPDTGRNIFEAKLHREGFLT
VANSGNNPIVVPPNGYFRFEAWVNQFYTLAPMGSGQGRRRAQ"
CDS 6727..>7440
/note="ORF3"
/codon_start=1
/product="capsid protein VP2"
/protein_id="AII02732.1"
/translation="MAGAFFAGLAGDVVSNGIGSLINAGANAVNQKVEYDFNKQLQMA
SFKHDKEMLQSQVLATKQLQQEMMNIKQGMLTAGGFSPADAARGAVNAPMTKILDWNG
TRYWAPNSMKTTSYSGQFSSSPVHRSPAPLQHTAPPKSKLQSDSASVYSSPSTVSSQS
THSTVLSAGTGSSRSTPTSTATSTLSRTSDWVRGQNERLSPFMDGALQTTFVTPPSSK
ASSNGTVSTVPKAVLDSWTP"
ORIGIN
1 atgaagatgg cgtctaacga cgctaccgct gcccttggca gtcaaaactc tgtcaatgac
61 agtatcaaca ccaccccttc aaacaaagaa gaggttggtg cattctccaa catcaaagtt
121 ggatttaaga aaatgctggg tgccgtacct aagggcacca aagcacccag cagtgaccag
181 cactgtccaa tagttaagat tgggcccaaa acactaacag tcccccctga acccccaaat
241 ggtgaagaca ctgtacagtt tgatgcaaaa tcggaaactg taattgggct accggacttg
301 acaacagtgc aaaatgaaca tgaaaacacc ccatacactg tccctccact gagtgagagg
361 gaacatagac cagccactga gccacttcct ggcacaatat tggagatgtg ggatggtgaa
421 ttctaccact actccgtgta cgtcagcggc ggcaaagctc tgggggttca caaacctccg
481 gcagctataa gcctcgcgac gatagagctc acccccatat ccctatattg gaggcccgtt
541 tacaccccca actacctggt ctgcccagac acactgaaag gtctcgctgg tgaaaagttc
601 ccctacacgg ccttcagcaa caattgctac aacttctgtt gctgggtgct tgagctcaat
661 gacacgtggc ttagcagaag aagcatctcc agaaccaccg gcttcttcaa accgtaccag
721 tcttggaaca ggaaacctct cccaaccgtt gacgatggaa agatcaaaaa ggtggccaac
781 gcgatcctct gtgcactcgg ttcgctgttc tcaaagccaa tcaaggacct gttaggcaag
841 ctcaaaccat tgaacctact gcacctgctc gcgtcgtgtg attggacgtt cgcaggtata
901 gtggagacag tcatcttaat ggcagaactt ttcaacgtct tttggacccc gccagacgtc
961 tctaatttta tagcctccct gataggtgat tttgagttgc agggacctga ggacttggcg
1021 gtagagcttg ttcctgtggt catgggtggt ataggaatgg ttctcggctt cacagctgag
1081 aagataggtc gcatgctgtc gtccgctgcg tcaacactgc gggcgtgtaa agacttaggg
1141 aactatgccc ttgacatact taaattggtc atgaaatggt tcttcccaaa gaaagaggag
1201 aaagccgaga tggaaaccct gagggcgatt gaggatgccg tcctagatat ggaggccata
1261 ggtaacaatc acctcacgac cctcctcaag gataaagaca gtctcacggc cttcatgaag
1321 accttggatc tagaagaaga gaaggcaagg aagctatcca ccaaatcatc ctcgccggac
1381 atcgtcggca ccatcaatgc catactggct aggatagctg ccgctagatc cctcctgcac
1441 aaagccaaag aagagatgtt cagcaggatc agaccagtgg ttgttatgat ctcaggcaaa
1501 cctggcattg gcaaaaccca tatggcaaga catttggcta aaaacatcgc caacaccatg
1561 agtggtgacc aaagagtcgg gctcgttccg cgcaacgggg ttgaccactg ggacgcttac
1621 aggggagaga gagtggtctt gtgggatgat tatggaatgg ggaaccctgt caaagatgct
1681 ttaacactac aagagttagc tgacacatgc ccagtcactc taaactgtga taggatcgag
1741 aacaagggaa agatgttcga cagtgatgtc attataatca cgaccaatct agtcaaccct
1801 gcacctctcg attatgtgaa cttcgaggcg tgctctagaa gaattgattt cttggtctat
1861 gcagagtcac cagaaattga gaaggttaag agagatttcc ctggccaacc tgacatgtgg
1921 aaagactatt tcaaacaaga cttttcccat ataaagctaa ccctagcccc ccaaggcgga
1981 ttcgacaaga atggtaacac cccgcatggt aagggcacca tgcgatccct cacccagggg
2041 tccctgactg caagagttgc aggccttgtt catgagagaa aggatgagtt ccagctacaa
2101 gggaatgacc tccagacata caactttgac accaacaggg tctctgcgtt caggaaactg
2161 gctgcagaca acaagtatgg gatcatggaa acaatgaaag tgggtgcagc gctcaaaaat
2221 gtcaaaactt tggaggatct gaaggtcgcc ttgagagatg taaagttcaa tgagtgtgag
2281 ataatttaca ggaactctaa gtaccgagtc tcttccaacg gcaagggctc tgtttctgtt
2341 gacaaagttg aggatcacac gtctcagact gcaaatgaag tgggctcagc actcctcaga
2401 cttaggcaag caagggctag atactatgtc agctgcttcc aagacctcgt ctacaccctc
2461 atacaggttg ctggggcatc attcgttgtc aacagaatct ccaaaaggtt ctgctgggaa
2521 aggtgggtta aaccaaccga aacccaagaa gcgagtgagc ccgaaaagga agtagctcaa
2581 ggtagatggg agatagagcc caaggacaca gaaccagaag gcaagaaggg taagaacaag
2641 aaagggagag gcaagaaaca cacagccttc tccagcaaag gcctaagtga tgaagagtat
2701 gatgagttta agagaattag agaagagagg aacggaaaat actccattga ggaatacctg
2761 caagaccggg accgctacta tgaagaagtg gcagttgccc gagcaacaga agaggacttt
2821 tgtgaagaag aagaagccaa gataagacaa agaatcttcc gcccgacaag gaagcaaaga
2881 aaggaggaaa ggggggtact tggcttagtc actggctcag atatcaggaa gaggaggcca
2941 gacgattttc aaccaaaagg caacctgtgg gcagatgaca ctaggagtgt ggattacaat
3001 gagagacttg actttgaggc tcccccaagc gtctggtcaa gaatagtccc attgggcact
3061 ggttggggct tctgggtttc atcaaacctc ctgatcacaa caacacacgt tctgcccaag
3121 ggggtcaagg aactcttcgg ggtcgaagtc aaacagattc aaatccacaa gtctggggag
3181 ttttgcaggt ttaggttccc aagaccaatc aggccagatg tcacaggact cgtgttggag
3241 gaaggtgctc ctgaaggtac tgtctgttct atactcataa agaggcctac aggtgagatg
3301 atccccctag cagtgaggat gggcacgcat gcatccatga aaatacaggg taggaccgtc
3361 ggtggtcaga tgggaatgct tctcacaggg gcaaatgcaa agaacatgga tcttggcacc
3421 ggtcctggtg actgcggttg cccttacatc tataagcgcg gcaacgacat agttgtcgcg
3481 ggtgtccaca ccgcagcagc ccgggggggc aacactgtta tttgtgccac tcagggacaa
3541 gacggagagg cagtccttga gggaaatgaa aaccttggca cctactgtgg tgctccaatt
3601 ctaggccctg gcaaagcgcc taaactcagc acgaaaacca aattttggcg atcatcacca
3661 gatgccctac ctcctggtac gtatgaacct gcttatctgg ggggtaagga tcccagagtg
3721 gaaaaggggc cctccctaca gcaagttatg agagaccagc tgaaaccatt cacagagccc
3781 aggggcaaac cacctagacc agcggttttg gaagaggcta aaaagacagt gatgaatgtt
3841 ctagaacaga ctattgaccc tgctaaacca tggacctact cacaagcatg tgcttcactg
3901 gacaagacca cttctagtgg aagtccccac catgttagga aaaatgacca ctggaatggg
3961 gagtctttta ctggtcctct cgcggaccaa gcatccaaag ccaacctcat gtatgaacag
4021 gcaaaacatg tgcagcccgt gtacacggcc gcgctcaaag atgaacttgt taagactgat
4081 aagatctaca agacaataaa gaagaggctt ctatgggggt cagaccttgg tacaatgatc
4141 aggtgtgcca gggcttttgg cggccttatg gacagcatga aagcaagttg tatagccctt
4201 ccatgcaggg tggggatgaa catgaatgag gatggcccta tcatatttga caaacactcc
4261 aagtataggt accactatga tgctgactac tctaggtggg actcaaccca gcaaaggagc
4321 attctttccg ccgccatgga ggtgatggtg agattctctg ctgaaccaga attagcacaa
4381 gtggtcgcag aggacctctt ggcgcctagc cagctagatg ttggcgattt tatcatctca
4441 gtccaggagg gcctgccatc aggagtccca tgtacatcac aatggaattc aatagcgcac
4501 tggattctaa ctctgagcgc aatggcagaa gtgtcaggtc tctcaccaga cgttgtccaa
4561 gcccattcct gtttttcatt ttatggcgac gatgagattg tcagcactga catcaacctt
4621 gaccccataa aattgacaca aaaactcagg gagtatggtc tggtccccac ccggcctgac
4681 aagactgaag gccccctcgt tataactgaa gacctcaccg gcctgacatt cctgcgtagg
4741 tcgattgcac gggatccagc tggatggttt ggaaaattgg accaagactc aatcctcagg
4801 caattgtact ggacaagggg gcccaatcat gaaaacccat acgagagcat ggttccccac
4861 tcccagcgag ctacccagct catggccctc cttggtgagg cttcattgca tggtccccag
4921 ttttacaaga aagtcagcaa gatggtcatc aatgagatta agagtggtgg tctggagttt
4981 tatgtgccca gacaagaggc catgtttagg tggatgagat tctctgacct cagcacatgg
5041 gagggcgatc gcaatcttgc tcccgagggt gtgaatgaag atggcgtcga atgacgccgc
5101 tccatcaaat gatggtgctg ccaacctcgt accagaggcc aacaatgagg ttatggcact
5161 tgaaccggtg gtgggagctt caatcgcagc tcctgttgtc ggtcagcaaa atataattga
5221 cccctggatt agagaaaatt ttgtccaagc accacagggc gagtttactg tttcaccaag
5281 gaactcgccc ggtgagatgc ttctaaatct tgaattgggc ccagaactta acccctattt
5341 gagtcatttg tcccgcatgt acaatgggta tgctggtggc atgcaggttc aggtggtcct
5401 agctgggaat gcgttcacag ctgggaagat catctttgcc gctgtgccac cacacttccc
5461 tgtggataat attagtgcag cccagataac tatgtgtccc catgtgattg ttgatgtgag
5521 acagcttgaa ccagtgcttc tgcctctccc cgatataagg aacaggttct tccattacaa
5581 tcaggaaaac accccccgga tgagactcgt ggccatgctc tacacgcctc taagggctaa
5641 ttctggagag gacgtgttca ctgtgtcctg tagggttctg actcgccccg ctccagattt
5701 tgaatttaca tttttagttc caccaactgt tgaatcaaaa acaaaaccct tcactttacc
5761 tattctaacc cttggtgagt tgtctaattc ccgttttcct gctgccatag acatgcttta
5821 tactgatccc aatgaatcga tagttgttca gccccaaaat ggtagatgca cccttgatgg
5881 cacattgcaa ggcacaacac aattggttcc aacacagatt tgtgccttta gaggtacctt
5941 gatcagccag actgcgagag cggccgattc aacggattcc ccccagagag cccgtaatca
6001 cccgttacat gtccaggtca agaacctaga tggcacacag tatgacccaa cagatgacat
6061 ccctgcagtc ctgggggcta ttgatttcaa aggtacagtg ttcggagtgg caagtcagag
6121 ggacgtctct ggaacacaag aacagggcca ttatgccacc cgggcccatg aagcacacat
6181 tgacacaact gacccaaagt atgcacctaa attaggcaca atcctcatca aatctgaatc
6241 tactgatttc aacacaaatc agcccattag gttcactcca gtgggcatgg gtgataacaa
6301 ttggagacag tgggaactgc ctgactattc tggtagtttg actctaaata tgaaccttgc
6361 ccccgctgtt tccccatcct tccctggtga acgaatcctt ttctttaggt ctatagtacc
6421 atcagctgga ggctacgggt ctggctatat agactgtctc ataccccagg aatgggtgca
6481 acacttctac caggaggcag caccttcaca atctgctgtt gcactggtta ggtatgtcaa
6541 ccccgacact gggcgtaaca tctttgaggc caaattgcat agagaagggt tcctcaccgt
6601 ggccaattct ggaaataatc ctattgtggt tccccctaat ggttatttta gatttgaggc
6661 ttgggttaat caattttaca cacttgcccc catgggatct ggacaggggc gtagaagggc
6721 tcagtaatgg ctggagcctt cttcgcaggg ttagcaggtg atgtcgtgtc gaacggcatc
6781 ggttccctca tcaatgcagg tgctaatgca gtcaaccaaa aggttgagta tgattttaat
6841 aagcaacttc agatggcatc atttaaacat gataaggaga tgttacaatc acaggtgttg
6901 gcaaccaaac aactgcagca ggaaatgatg aacataaagc aggggatgtt gaccgctggc
6961 ggcttttccc ctgcggacgc tgctagaggg gctgttaacg ctccaatgac aaaaatactg
7021 gactggaatg gcacaagata ttgggcaccc aacagcatga aaaccacaag ctattcagga
7081 cagttctcta gtagccccgt ccacaggtct cctgctcccc tccagcacac tgccccacca
7141 aaaagtaagt tgcaaagtga ttctgctagt gtgtatagct ccccttccac tgtttcttca
7201 caatcaactc attcaacagt gttgtctgca ggaaccgggt cgtccagatc cacccccacg
7261 tccacagcaa cctccaccct gtctaggacc agcgactggg ttagaggaca aaatgagagg
7321 cttagcccgt ttatggatgg tgctctccaa actacttttg tcacaccacc atcgagcaaa
7381 gcttcatcaa atgggacagt ctcgaccgtg cccaaagctg ttttggactc ctggactcct
//