Typing tool
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Typing tool
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Complete norovirus genomes
| KM198555 | GII.4 New Orleans | |
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| GII.P4 New Orleans |
ORF1: 82..5088
ORF2: 5069..6691
ORF3: 6691..7431
LOCUS KM198555 7431 bp RNA linear VRL 13-NOV-2014
DEFINITION Norovirus Hu/GII/C2035/2010/VNM nonstructural polyprotein and
capsid protein VP1 genes, complete cds; and capsid protein VP2
gene, partial cds.
ACCESSION KM198555
VERSION KM198555.1
KEYWORDS .
SOURCE Norovirus Hu/GII/C2035/2010/VNM
ORGANISM Norovirus Hu/GII/C2035/2010/VNM
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7431)
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 7431)
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..7431
/organism="Norovirus Hu/GII/C2035/2010/VNM"
/mol_type="genomic RNA"
/isolate="Hu/GII/C2035/2010/VNM"
/host="Homo sapiens"
/db_xref="taxon:1527006"
/country="Viet Nam"
/collection_date="28-Jun-2010"
/note="genotype: GII"
CDS 82..5088
/note="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="AII02793.1"
/translation="MAVTFKRALGARPKQPPPREKPQRPPRPPTPELVKNIPPPPPNG
EDEIVVSYSVKDGVSGLPDLSTVRQPEESNTAFSVPPLNQRENRDAKEPLTGTILEMW
DGEIYHYGLYVERGLVLGVHKPPAAISLARVELAPLSLYWRPVYTPQYLISPDTLKKL
SGETFPYTAFDNNCYAFCCWVLDLNDSWLSRRMIQRTTGFFRPYQDWNRKPLPTMDDS
KIKKVANIFLCALSSLFTRPIKDIVGKIRPLNILNILASCDWTFAGIVESLILLAELF
GVFWTPPDVSAMIAPLLGDYELQGPEDLAVELVPVVMGGIGLVLGFTKEKIGKMLSSA
ASTLRACKDLGAYGLEILKLVMKWFFPKKEEANELAIVRSIEDAVLDLEAIENNHMTT
LLKDKDSLATYMRTLDLEEEKARKLSTKSASPDIVGTINALLARIAAARSLVHRAKEE
LSSRPRPVVLMISGRPGIGKTHLAREVAKRIAASLTGDQRVGLIPRNGVDHWDAYKGE
RVVLWDDYGMSNPIHDALRLQELADTCPLTLNCDRIENKGKVFDSDVIIITTNLANPA
PLDYVNFEACSRRIDFLVYAEAPEVEKAKRDFPGQPDMWKNAFSSDFSHIKLALAPQG
GFDKNGNTPHGKGVMKTLTTGSLIARASGLLHERLDEFELQGPALTTFNFDRNKVLAF
RQLAAENKYGLMDTMRVGKQLKDVRTMPELKQALKNVSIKKCQIVYSGCTYILESDGK
GNVKVDRIQSAAVQTNNELAGALHHLRCARIRYYVKCVQEALYSIIQIAGAAFVTTRI
AKRMNIQDLWSKPQVENTEETTSKDGCPKPKDDEEFVISSDNIKTEGKKGKNKTGRGK
KHTAFSSKGLSDEEYDEYKRIREERNGKYSIEEYLQDRDKYYEEVAIARATEEDFCEE
EEAKIRQRIFRPTRKQRKEERASLGLVTGSEIRKRNPDDFKPKGKLWADDDRSVDYNE
KLSFEAPPSIWSRIVNFGSGWGFWVSPSLFITSTHVIPQGAKEFFGVPIKQIQVHKSG
EFCRLRFPKPIRTDVTGMILEEGAPEGTVVTLLIKRSTGELMPLAARMGTHATMKIQG
RTVGGQMGMLLTGSNAKSMDLGTTPGDCGCPYIYKRGNDYVVIGVHTAAARGGNTVIC
ATQGSEGEATLEGGDNKGTYCGAPILGPGNAPALSTKTKFWRSSTASLPPGTYEPAYL
GGKDPRVKGGPSLQQVMREQLKPFTEPRGKPPKPSVLEAAKKTIINVLEQTIDPPEKW
SFAQACASLDKTTSSGHPHHMRKNDCWNGESFTGKLADQASKANLMFEEGKNMTPVYT
AALKDELVKTDKIYGKIKKRLLWGSDLATMIRCARAFGGLMDELKAHCVTLPIRVGMN
MNEDGPIIFERHSRYSYHYDADYSRWDSTQQRAVLAAALEIMVKFSPEPHLAQVVAED
LLSPSVVDVGDFTISINEGLPSGVPCTSQWNSIAHWLLTLCALSEVTNLSPDTIQANS
LFSFYGDDEIVSTDIKLDPEKLTAKLREYGLKPTRPDKTEGPLVISEDLNGLTFLRRT
VTRDPAGWFGKLEQSSILRQMYWTRGPNHGDPSETMIPHSQRPIQLMSLLGEAALHGP
AFYSKISKLVIAELKEGGMDFYVPRQEPMFRWMRFSDLSTWEGDRNLAPSFVNEDGVE
"
CDS 5069..6691
/note="ORF2"
/codon_start=1
/product="capsid protein VP1"
/protein_id="AII02794.1"
/translation="MKMASSDANPSDGSTASLVPEVNNEVMALEPVVGAAIAAPVAGQ
QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
FEVQVVLAGNAFTAGKIIFAAVPPNFPTEGLSPSQVTMFPHIIVDVRQLEPVLIPLPD
VRNNFYHYNQSNDPTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT
QLSPVNICTFRGDVTHISGSRNYTMNLASQSWNSYDPTEEIPAPLGSPDFVGKIQGVL
TQTTRTNGSTRGHKATVYTGSADFSPKLGRVQFATDTDNDFETNQNTKFTPVGVIQDG
STTPRNEPQQWVLPSYSGRNIHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD
CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV
IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRAL"
CDS 6691..>7431
/note="ORF3"
/codon_start=1
/product="capsid protein VP2"
/protein_id="AII02795.1"
/translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA
SFQFSSSLQQASFQHDKEMLQAQIEATKKLQQEMMRVKQAMLLEGGFSETDAARGAIN
APMTKTLDWSGTRYWAPDARTTTYNAGRFSTPQPSGALPGRANLRATVPARGSSSTSS
NSSIATSVYSNQTTSTRLGSTAGSGTSVSSLPSTARTRSWVEDQNRNLSPFMRGAHNI
SFVTPPSSRSSSQGTVSTVPKEILDSWTG"
ORIGIN
1 cctaacgacg cttccgctgc cgctgttgct aacagcaaca acgacaccgc aaaatcttca
61 agtgacggag tgctttctag catggctgtc acttttaaac gagccctcgg ggcgcggcct
121 aaacagcctc ccccgaggga aaaaccacaa agacccccac gaccacctac tccagaactg
181 gttaaaaata ttccccctcc cccacccaac ggagaggatg aaatagtggt ctcttatagt
241 gtcaaagatg gtgtttccgg cttgcctgac ctttccaccg tcaggcaacc ggaagaatct
301 aacacggcct tcagtgtccc tccactcaac cagagggaga atagagatgc taaggaacca
361 cttactggaa caattctgga aatgtgggac ggggaaatct accattatgg cctgtatgtg
421 gagcgaggtc ttgtactggg tgtgcacaaa ccaccagctg ccatcagcct cgctagggtt
481 gagctagcac cactctcctt gtactggaga cctgtgtaca ctcctcagta cctcatctct
541 ccagatactc tcaagaaatt atccggagaa acgttcccct acacagcctt tgacaacaac
601 tgttatgcct tttgttgctg ggtcctggac ctaaatgact cgtggctgag caggagaatg
661 atccagagaa caactggttt cttcaggccc taccaagact ggaataggaa accccttccc
721 actatggatg actccaaaat aaagaaggta gctaacatat tcctgtgtgc tctgtcctcg
781 ctgttcacca gacccataaa agatatagta gggaagataa ggcctcttaa catcctcaac
841 atcttagcct catgtgattg gacttttgca ggtatagtgg agtccctgat actcttggca
901 gaactctttg gagttttctg gacaccccca gatgtgtctg cgatgattgc ccccttactc
961 ggtgactacg agctacaagg acctgaggac cttgcagttg agctcgtccc cgtggtgatg
1021 gggggaattg gtttggtgct aggatttacc aaagagaaga ttgggaaaat gttgtcatct
1081 gctgcgtcca ccttgagagc ttgtaaagac cttggtgcat atggactaga gatcctaaag
1141 ttggtcatga agtggttctt cccgaagaag gaagaggcaa atgagctggc tatagtgagg
1201 tctatcgagg atgcagtcct ggatctcgag gcaattgaaa acaaccatat gaccaccttg
1261 ctcaaagaca aagacagtct ggcaacctat atgagaacac ttgaccttga ggaggagaaa
1321 gccaggaaac tctcaaccaa gtctgcctca cccgacatcg tgggcacaat caacgccctc
1381 ctggcgagaa tcgctgccgc acgttctctg gtgcaccgag cgaaggagga gctttccagc
1441 agaccaagac ctgtggtgtt gatgatatca ggcaggccag gaatagggaa gacccacctc
1501 gctagggaag tggctaagag aatcgcagcc tcccttacag gagaccagcg tgtgggcctc
1561 atcccacgca atggcgtcga ccattgggat gcgtacaagg gggagagggt cgtcctatgg
1621 gacgattatg gaatgagcaa ccctattcac gatgccctca ggctgcaaga actcgctgac
1681 acttgccccc tcactctaaa ctgtgacagg atcgaaaaca aaggaaaggt ctttgacagc
1741 gatgtcatca ttatcaccac taatctggcc aacccagcgc cactggacta tgtcaacttt
1801 gaagcatgct cgaggcgcat cgacttcctc gtgtatgcag aagcccctga agtcgaaaag
1861 gcgaagcgtg acttcccagg ccagcctgac atgtggaaga acgctttcag ttctgatttc
1921 tcacacataa aactagcact ggccccacag ggtggtttcg acaagaacgg gaacacccca
1981 cacggaaagg gcgttatgaa gactctcact actggctccc ttattgcccg ggcatcaggg
2041 ctactccatg agaggttaga tgaatttgaa ctgcagggcc cagctctcac caccttcaat
2101 ttcgatcgca ataaggtgct tgcctttaga cagcttgctg ctgaaaataa atatggattg
2161 atggacacaa tgagagttgg gaaacagctc aaggatgtca gaaccatgcc agaactcaaa
2221 caagcactca agaatgtctc aatcaagaag tgccaaatag tgtatagtgg ttgcacctac
2281 atacttgagt ctgatggcaa gggcaatgtg aaagttgaca gaatccaaag cgccgccgtg
2341 cagaccaaca atgagctggc tggtgccctg caccatttga ggtgcgccag aattagatac
2401 tatgtcaagt gtgtccagga ggccctgtac tccatcattc aaatcgctgg ggctgcattt
2461 gtcaccacgc gcattgccaa gcgcatgaac atacaagacc tatggtccaa gccacaagtg
2521 gaaaacacag aggagactac cagcaaggac gggtgcccaa aacctaagga cgatgaggag
2581 tttgtcattt catccgacaa catcaaaact gagggtaaga aagggaagaa taagactggc
2641 cgcggcaaga agcacacagc attctcaagc aaaggcctca gtgatgaaga gtacgatgag
2701 tacaagagga ttagagaaga aaggaatggc aagtactcca tagaagagta ccttcaggac
2761 agggataaat actatgagga ggtggccatt gccagggcga ctgaggaaga cttctgtgaa
2821 gaggaggagg ccaagatccg gcaaaggatc tttaggccaa caaggaaaca acgcaaggag
2881 gaaagagcct ctctcggtct ggtcacaggc tctgaaatta ggaaaagaaa cccagatgac
2941 ttcaaaccca aagggaaatt gtgggctgac gatgacagga gtgtagacta caatgagaaa
3001 ctcagttttg aggccccacc aagcatctgg tcgagaatag tcaactttgg ttcaggctgg
3061 ggattttggg tctcccccag tctgttcata acatcaaccc atgtcatacc ccagggcgca
3121 aaggagttct ttggagtccc catcaaacaa atacaggtac acaagtcggg cgagttctgt
3181 cgcttgagat tcccaaaacc aatcaggact gatgtgacgg gcatgatctt agaagaaggc
3241 gcgcctgagg gcaccgtggt cacactactc atcaaaaggt ccactgggga actcatgccc
3301 ctagcagcta ggatggggac ccatgcgacc atgaagatcc aagggcgcac tgttggaggc
3361 cagatgggca tgcttctgac aggatccaac gccaagagca tggatctggg cactacacca
3421 ggtgattgtg gctgccccta tatctacaag agaggtaatg actatgtggt cattggggtc
3481 cacacggctg ccgcacgtgg ggggaacact gtcatatgtg ccacccaggg gagtgaagga
3541 gaggctacac ttgaaggtgg tgacaacaag gggacatact gtggtgcacc aatcctaggc
3601 ccagggaatg ccccagcact tagcaccaag accaaattct ggagatcgtc cacagcatca
3661 ctcccacctg gcacctatga accagcctat cttggtggca aggaccctag ggtcaagggt
3721 ggtccttcac tgcagcaagt catgagggaa cagttgaagc cattcacaga gcccaggggc
3781 aagccaccaa aaccaagtgt attagaagct gccaagaaga ccatcatcaa tgtccttgaa
3841 caaacaattg atccacctga gaaatggtcg ttcgcacaag cttgcgcgtc ccttgacaag
3901 accacttcca gtggtcatcc gcaccacatg cggaaaaacg actgctggaa cggggagtcc
3961 ttcacaggca agctggcaga ccaggcctcc aaggccaacc tgatgtttga agaagggaag
4021 aacatgaccc cagtctacac agctgcgctc aaggatgagt tagttaaaac tgacaaaatt
4081 tatggtaaga tcaagaagag gcttctctgg ggctcggact tggcgaccat gatccggtgt
4141 gctcgagcat tcggaggcct aatggatgaa ctcaaagcac actgtgtcac acttcctatt
4201 agagttggca tgaatatgaa tgaggatggc cccatcatct tcgagaggca ttccaggtac
4261 tcatatcact atgatgctga ttactctcga tgggattcaa cacaacagag agccgtgttg
4321 gcagcagctc tagaaatcat ggttaaattc tccccagaac cacacttggc tcaggtagtc
4381 gcggaggacc ttctttctcc tagcgtggtg gacgtgggcg acttcacaat atcaatcaac
4441 gagggtcttc cctctggggt gccctgcacc tcccaatgga actccatcgc ccactggctt
4501 ctcactctct gtgcgctctc tgaagtcaca aacctgtccc ctgacaccat acaggctaac
4561 tccctcttct ctttttatgg tgatgatgaa attgttagca cagacataaa attggaccca
4621 gaaaaattga cagcaaagct cagagaatat gggttaaaac caacccgccc tgacaaaact
4681 gaaggacccc ttgtcatctc tgaagacctg aatggcctaa ctttcctgcg gagaactgtg
4741 acccgcgacc cagctggttg gtttggaaaa ctggagcaga gttcaatact caggcaaatg
4801 tactggacta ggggtcccaa ccatggagac ccatctgaaa caatgattcc acactcccaa
4861 agacccatac aattgatgtc cctactgggg gaggccgctc tccacggccc agcattttac
4921 agcaaaatca gcaaattggt cattgcagag ctaaaagaag gtggcatgga tttttacgtg
4981 cccagacaag agccaatgtt cagatggatg agattctcag atctgagcac gtgggagggc
5041 gatcgcaatc tggctcccag ctttgtgaat gaagatggcg tcgagtgacg ccaacccatc
5101 tgatgggtcc acagccagcc ttgtcccaga ggtcaacaat gaggttatgg ctttggagcc
5161 cgtagttggt gccgccattg cggcacccgt agcgggccaa caaaatgtaa ttgacccctg
5221 gattagaaac aattttgtac aagcccctgg tggagagttt acagtatccc ctagaaacgc
5281 tccaggtgaa atactatgga gcgcgccctt aggccctgat ttgaatccct acctttccca
5341 tttggccaga atgtacaatg gttatgcagg tggttttgaa gtgcaggtag tcctcgcggg
5401 gaacgcgttc accgccggga aaatcatatt tgcagcagtc ccaccaaatt tcccaactga
5461 aggtttgagc cccagccagg tcactatgtt cccccacata atagtagatg ttaggcaatt
5521 ggaacctgtg ttgattccct tacctgatgt taggaataat ttctaccatt ataatcaatc
5581 aaatgacccc accatcaaat tgatagcaat gttgtataca ccacttaggg ctaataatgc
5641 cggggacgat gtcttcacag tttcttgtcg agttctcacg agaccatccc ccgattttga
5701 tttcatattt ttggtgccac ccacagttga atcaagaact aaaccattct ctgtcccagt
5761 tttaactgtt gaggagatga ccaattcaag gttccccatt cctttggaaa agttgttcac
5821 gggccccagt agtgcctttg ttgttcaacc acaaaacggc aggtgcacga ctgatggcgt
5881 gctcctaggt actacccaac tgtctcccgt caacatctgc accttcagag gggatgtcac
5941 ccatatttca ggcagtcgta actacacaat gaatttggcc tcccaaagtt ggaacagtta
6001 cgatccaaca gaagaaatcc cagcccctct aggatctcca gatttcgtgg ggaagattca
6061 aggtgtgctc acccaaacca caaggacaaa tggctcgacc cgcggccaca aagctacagt
6121 gtacactggg agcgccgact tttctccaaa actgggtaga gttcaatttg ccactgacac
6181 agacaatgat tttgaaacta accaaaacac aaagttcacc ccagtcggtg ttatccagga
6241 tggtagtacc accccccgaa atgaacccca acaatgggtg ctcccaagtt actcaggcag
6301 aaacattcac aatgtgcacc tggcccccgc tgtagccccc actttcccgg gcgagcagct
6361 cctcttcttc agatctacta tgcccggatg cagcgggtac cccaacatgg atttggactg
6421 tctgctcccc caggaatggg tgcagtattt ctaccaggag gcagccccag cacaatctga
6481 tgtggctctg ctaagatttg tgaatccgga cacaggtagg gttttgtttg agtgtaagct
6541 tcataaatca ggctatgtta cagtggctca cactggccaa catgatttgg ttatcccccc
6601 caatggttat ttcagatttg attcctgggt caaccagttc tacacacttg cccccatggg
6661 aaatgggacg gggcgtagac gtgcattata atggctggag ctttctttgc tggattggca
6721 tctgacgtcc ttggttctgg acttggttcc ctaatcaatg ctggggctgg ggccatcaac
6781 caaaaagttg aatttgaaaa taacagaaaa ttgcaacaag cttccttcca atttagtagc
6841 agtctacaac aggcttcctt tcaacatgac aaagagatgc tccaagcaca aattgaggcc
6901 accaaaaagt tgcaacaaga gatgatgaga gttaaacaag caatgctcct agagggtgga
6961 ttctctgaga cagatgcagc ccgtggggca atcaacgccc ccatgacaaa aactttggac
7021 tggagcggga caaggtactg ggctcccgat gctaggacta caacatataa tgcaggccgc
7081 ttttccaccc cccaaccctc gggggcacta ccaggaagag ctaatcttag ggctactgtc
7141 cccgcccggg gttcctccag cacgtcctct aactcttcta ttgctacttc tgtgtattca
7201 aatcaaacca cctcaacgag acttggttct acagctggtt ctggtaccag tgtctcgagc
7261 ctcccgtcaa ctgcaaggac taggagctgg gttgaggatc aaaataggaa tttgtcacct
7321 ttcatgaggg gggcccataa catctcgttt gttaccccac catctagcag atcctctagc
7381 caaggcacag tctcaaccgt gcccaaagaa attttggact cctggactgg c
//