Typing tool
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Typing tool
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Complete norovirus genomes
| MK789436 | GII.4 Sydney | |
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| GII.P4 New Orleans |
ORF1: 1..5090
ORF2: 5071..6693
ORF3: 6693..7499
LOCUS MK789436 7536 bp RNA linear VRL 20-APR-2019
DEFINITION Norovirus GII isolate 3552 nonstructural polyprotein (ORF1) gene,
partial cds; and VP1 (ORF2) and VP2 (ORF3) genes, complete cds.
ACCESSION MK789436
VERSION MK789436.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7536)
AUTHORS Santiso-Bellon,C., Fuentes-Trillo,A., Vila-Vicent,S., Monzo,C., da
Silva Ribeiro de Andrade,J., Gozalbo Rovira,R., Buesa,J.,
Chaves,F.J. and Rodriguez-Diaz,J.
TITLE Nearly Complete Genome Sequences of Human Norovirus from Valencia
(Spain)
JOURNAL Unpublished
REFERENCE 2 (bases 1 to 7536)
AUTHORS Santiso-Bellon,C., Fuentes-Trillo,A., Vila-Vicent,S., Monzo,C., da
Silva Ribeiro de Andrade,J., Gozalbo Rovira,R., Buesa,J.,
Chaves,F.J. and Rodriguez-Diaz,J.
TITLE Direct Submission
JOURNAL Submitted (12-APR-2019) Microbiology and Ecology, University of
Valencia, Avenida Blasco Ibanez 17, Valencia, Valencia 46010, Spain
COMMENT ##Assembly-Data-START##
Assembly Method :: SPAdes v. v3.11.1; MEGAHIT with CD-HIT v.
v1.1.3
Sequencing Technology :: Illumina
##Assembly-Data-END##
FEATURES Location/Qualifiers
source 1..7536
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="3552"
/isolation_source="stool sample"
/host="Homo sapiens"
/db_xref="taxon:122929"
/country="Spain: Valencia"
/collection_date="Oct-2016"
/note="genotype: GII.P4.NewOrleans2009_GII.4.Sydney2012"
gene <1..5090
/gene="ORF1"
CDS <1..5090
/gene="ORF1"
/codon_start=3
/product="nonstructural polyprotein"
/protein_id="QCA41776.1"
/translation="SNDASAAAVANSNNDTAKSSSDGVLSSMAVTFKRALGARPKQPP
PREKSQRPPRPPTPELVKNIPPPPPNGEDEIVVSYSVKDGVSGLPDLSTVRQPEESNT
AFSVPPLNQRENRDAKEPLTGTILEMWDGEIYHYGLYVERGLVLGVHKPPAAISLAKV
ELAPLSLYWRPVYTPQYLISPDTLKKLSGETFPYTAFDNNCYAFCCWVLDLNDSWLSR
RMIQRTTGFFRPYQDWNRKPLPTMDDSKIKKVANIFLCALSSLFTRPIKDIIGKIRPL
NILNILASCDWTFAGIVESLILLAELLGVFWTPPDVSAMIAPLLGDYELQGPEDLAVE
LVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFPKKEE
ANELAIVRSIEDAVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARKLSTKSAS
PDIVGTINALLARIAAARSLVHRAKEELSSRPRPVVLMISGRPGIGKTHLAREVAKRI
AASLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTCPLTL
NCDRIENKGKVFDSDVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPDVEKAKRD
FPGQPDMWKNAFSSDFSHIKLALAPQGGFDKNGNTPHGKGVMKTLTTGSLIARASGLL
HERLDEFELQGPALTTFNFDRNKVLAFRQLAAENKYGLMDTMRVGKQLRDVKTMPELK
QALKNVSIKKCQIVYSGCTYMLESDGKGNVKVDRIQSAAVQTNNELAGALHHLRCARI
RYYVKCVQEALYSIIQIAGAAFVTTRIAKRMNIQDLWSKPQVENTEETISKDGCPKPK
DDEEFVISSDDIKTEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKYSI
EEYLQDRDKYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERVSLGLVTGSE
IRKRNPDDFKPKGKLWADDDRSVDYNEKLSFEAPPSIWSRIVNFGSGWGFWVSPSLFI
TSTHVIPQGAKEFFGVPIKQIQVHKSGEFCRLRFPKPIRTDVTGMILEEGAPEGTVVT
LLIKRSTGELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGDCGCP
YIYKRGNDYVVIGVHTAAARGGNTVICATQGSEGEATLEGGDNKGTYCGAPILGPGSA
PTLSTKTKFWRSSTASLPPGTYEPAYLGGKDPRVKGGPSLQQVMREQLKPFTEPRGKP
PKPSVLESAKKTIINVLEQTIDPPEKWSFAQACASLDKTTSSGHPHHMRKNDCWNGES
FTGKLADQASKANLMFEEGKNMTPVYTAALKDELVKTDKIYGKIKKRLLWGSDLATMI
RCARAFGGLMDELKAHCVTLPIRVGMNMNEDGPIIFERHSRYTYHYDADYSRWDSTQQ
RAVLAAALEIMVKFSPEPHLAQVVAEDLLSPSVVDVGDFTISINEGLPSGVPCTSQWN
SIAHWLLTLCALSEVTNLSPDTIQANSLFSFYGDDEIVSTDIKLDPEKLTAKLKEYGL
KPTRPDKTEGPLVISEDLDGLTFLRRTVTRDPAGWFGKLEQSSILRQMYWTRGPNHGD
PSETMIPHSQRPIQLMSLLGEAALHGPAFYSKISKLVIAELKEGGMDFYVPRQEPMFR
WMRFSDLSTWEGDRNLAPSFVNEDGVE"
mat_peptide <1..980
/gene="ORF1"
/product="p48"
mat_peptide 981..2078
/gene="ORF1"
/product="NTPase"
mat_peptide 2079..2615
/gene="ORF1"
/product="p22"
mat_peptide 2616..3014
/gene="ORF1"
/product="VPg"
mat_peptide 3015..3557
/gene="ORF1"
/product="Pro"
mat_peptide 3558..5087
/gene="ORF1"
/product="RdRp"
gene 5071..6693
/gene="ORF2"
CDS 5071..6693
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="QCA41777.1"
/translation="MKMASSDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ
QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
FEVQVILAGNAFTAGKVIFAAVPPNFPTEGLSPSQVTMFPHIVVDVRQLEPVLIPLPD
VRNNFYHYNQLNDPTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT
QLSPVNICTFRGDVTHITGSRNYTMNLASQNWNNYDPTEEIPAPLGAPDFVGKIQGML
TQTTRADGSTRGHKATVYTGSADFAPKLGRVQFETDTDHDFEASQNTKFTPVGVIQDG
STTHRNEPQQWVLPSYSGRNTHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD
CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV
IPPNGYFRFDSWVNQFYTLAPMGNGAGRRRVV"
gene 6693..7499
/gene="ORF3"
CDS 6693..7499
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="QCA41778.1"
/translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA
SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQEMMKVKQAMLLEGGFSETDAARGAIN
APMTKALDWSGTRYWAPDARTTTYNAGRFSTPQPSGALPGRTDLRDTVPARGSSSKSF
NSSTVTSVHSNQTTSTRLGSTAGSGTSVSSLPSTARTRSWVEDQSRNLSPFMRGAHNI
SFVTPPSSRSSSQGTVSTVPKEVLDSWTGAFNTRRQPLFAHIRKRGESRV"
ORIGIN
1 cgtctaacga cgcttccgct gccgctgttg ctaacagcaa caacgacacc gcaaaatctt
61 caagtgacgg agtgctttct agcatggctg tcacttttaa acgagccctc ggggcgcggc
121 ctaaacagcc tcccccgagg gaaaaatcac aaagaccccc acgaccaccc acaccagaac
181 tggttaaaaa tattcccccc cccccaccca atggagagga cgaaatagtg gtttcttata
241 gtgttaaaga tggtgtttcc ggcttgcctg acctttccac cgtcaggcag ccggaagaat
301 ccaacacggc cttcagtgtc cctccactca atcagaggga gaatagagat gctaaggaac
361 cactcactgg aacaattctg gaaatgtggg acggggagat ctaccattat ggcctgtatg
421 tggagcgagg tcttgtacta ggcgtgcaca aacccccagc tgccatcagc ctcgctaagg
481 ttgagttagc accactttcc ttgtactgga gacctgtgta cactcctcag taccttatct
541 ctccggacac tctcaagaaa ttgtccggag aaacgttccc ctacacagcc tttgacaaca
601 actgctatgc cttttgttgc tgggtcctgg acctaaatga ctcgtggctg agcaggagaa
661 tgatccagag aacaactggt ttcttcaggc cctaccaaga ctggaatagg aaacccctcc
721 ccactatgga tgactccaaa ataaagaagg tggctaacat atttctgtgt gctctgtcct
781 cgctattcac caggcccata aaagatataa tagggaagat aaggcctctt aacatcctca
841 acatcttagc ctcatgtgat tggacctttg cgggcatagt ggagtccctg atactcttgg
901 cagaactcct tggagttttc tggacacccc cagatgtgtc tgcgatgatt gcccccttac
961 ttggtgacta cgagctacaa ggacctgagg accttgcagt ggagctcgtc cccgtggtga
1021 tggggggaat tggtttggtg ctaggattca ccaaagaaaa gattgggaaa atgttgtcat
1081 cagctgcgtc caccttaaga gcttgcaaag accttggtgc gtatgggcta gagatcctaa
1141 agttagtcat gaagtggttc ttcccgaaga aggaggaggc aaatgagctg gctatagtga
1201 ggtccatcga ggatgcagtc ctggatctcg aagcaattga aaacaatcat atgaccacct
1261 tgctcaaaga taaagacagt ctggcaacct acatgagaac acttgacctt gaagaggaga
1321 aagccaggaa actctcaacc aaatctgcct cacccgatat cgtgggcaca atcaacgccc
1381 tcctggcgag aatcgctgcc gcacgttctc tggtgcatcg agcgaaggag gagctttcca
1441 gcagaccaag acctgtggtg ttgatgatat caggcaggcc aggaataggg aagacccacc
1501 ttgctaggga agtggctaag agaatcgcag cctcccttac aggagaccaa cgtgttggtc
1561 tcatcccacg caatggcgtc gaccattggg atgcgtacaa gggggagagg gtcgtcctat
1621 gggacgatta tggaatgagc aaccctattc acgatgccct caggctgcaa gaactcgctg
1681 acacttgccc cctcactctg aactgtgaca ggattgaaaa taaaggaaag gtctttgaca
1741 gcgatgtcat cattatcacc accaatctgg ccaacccagc cccactggac tatgtcaact
1801 ttgaagcatg ctcgaggcgc attgacttcc tcgtgtatgc agaagcccct gatgttgaaa
1861 aggcgaagcg tgacttccca ggccaacctg acatgtggaa gaacgctttc agttctgatt
1921 tctcacacat aaaactagca ctggccccac agggtggttt cgacaagaac gggaacaccc
1981 cacacggaaa gggcgtcatg aagactctca ccactggctc ccttattgcc cgggcatcag
2041 ggctactcca tgagaggtta gatgaatttg aactgcaggg tccagctctc accaccttca
2101 atttcgatcg caataaagtg cttgccttta gacagcttgc tgctgaaaat aaatatggat
2161 tgatggacac aatgagggtt gggaaacagc tcagggatgt caaaaccatg ccagaactca
2221 aacaagcact caagaatgtc tcaatcaaga agtgtcaaat agtgtatagt ggttgcacct
2281 acatgcttga gtctgatggc aagggcaatg tgaaagttga caggatccaa agcgccgccg
2341 tgcagaccaa caatgagctg gctggtgccc tgcaccactt gaggtgcgcc agaatcagat
2401 actatgtcaa gtgtgtccag gaagccctgt attccatcat tcaaattgct ggggctgcat
2461 ttgtcaccac gcgcattgcc aagcgcatga acatacagga cctatggtcc aagccacaag
2521 tggaaaacac agaggagact atcagcaagg acgggtgccc aaaacctaag gatgatgagg
2581 agtttgtcat ttcatccgac gacatcaaaa ctgagggcaa gaaagggaag aacaagactg
2641 gccgtggcaa gaagcacaca gcattttcaa gcaaaggcct cagtgatgaa gagtacgatg
2701 aatacaagag gatcagggaa gaaaggaatg gcaagtactc tatagaagag taccttcagg
2761 acagggacaa atactatgaa gaggtggcca ttgccagagc gactgaggaa gacttctgtg
2821 aagaggagga agccaagatc cgacaaagga tctttaggcc aacaaggaaa caacgcaagg
2881 aggaaagagt ctctctcggt ttggtcacag gttctgaaat taggaaaaga aacccagatg
2941 acttcaaacc caaggggaaa ttgtgggctg acgatgacag gagtgtggac tacaatgaga
3001 aactcagttt tgaggccccg ccaagcattt ggtcaagaat agtcaacttt ggttcaggct
3061 ggggattctg ggtctccccc agcttgttca taacatcaac ccatgttata ccccagggcg
3121 caaaggagtt ctttggagtc cccatcaaac aaatacaggt acacaagtca ggcgagttct
3181 gtcgcttgag attccctaaa ccaattagga ctgatgtgac gggcatgatc ttagaagaag
3241 gtgcacctga gggcaccgtg gttacactac tcatcaaaag gtccactggg gaacttatgc
3301 ccctagcagc taggatgggg acccatgcga ccatgaagat ccaagggcgc actgttgggg
3361 gccagatggg catgcttctg acaggatcca acgccaagag tatggacctg ggtaccacgc
3421 caggtgattg tggctgcccc tacatctata agagaggtaa cgactatgtg gtcattgggg
3481 tccacacggc tgccgcacgc ggggggaaca ctgtcatatg tgccacccag gggagtgaag
3541 gagaggctac acttgagggt ggtgacaaca aggggacata ctgtggtgca ccaatcctag
3601 gcccagggag tgccccaaca cttagcacca agaccaaatt ctggaggtcg tccacagcat
3661 cactcccacc tggcacctat gaaccagcct atcttggtgg caaggaccct agagtcaagg
3721 gtggcccttc gctgcagcaa gtcatgaggg aacagttgaa gccattcacg gagcccaggg
3781 gtaagccacc aaagccaagt gtgttagaat ctgccaagaa aaccatcatt aatgtccttg
3841 agcaaacaat tgatccacct gagaaatggt cgttcgcaca agcttgcgcg tctcttgaca
3901 agaccacttc cagtggccat ccgcaccaca tgcggaaaaa cgactgctgg aacggggagt
3961 ccttcacagg caagctggca gaccaggctt ctaaagccaa cctgatgttt gaagaaggga
4021 agaacatgac cccagtctac acagctgcgc tcaaggatga gttagttaaa actgacaaga
4081 tttatggtaa gatcaagaag aggcttcttt ggggctcgga cttggcgacc atgatccggt
4141 gtgctcgagc attcggaggc ctaatggatg aactcaaagc gcattgtgtc acacttccca
4201 ttagagttgg catgaatatg aatgaggatg gtcctatcat ctttgagagg cattccaggt
4261 acacgtacca ctatgatgct gattactctc gatgggattc aacacaacag agagccgtgt
4321 tggcagcagc tttagaaatc atggtaaaat tctccccaga accacatttg gctcaggtag
4381 ttgctgaaga ccttctttct cctagcgtgg tggacgtggg cgacttcaca atatcaatca
4441 acgagggcct cccctctggg gtgccttgca cctcccaatg gaactccatc gcccactggc
4501 ttctcactct ctgtgcgctc tccgaagtca caaacctgtc tcctgatacc atacaggcta
4561 attccctctt ctctttttat ggtgatgatg aaattgttag cacagacata aaattggacc
4621 cagagaaatt gacagcaaag ctcaaagaat atgggctaaa gccaacccgc cctgacaaaa
4681 ctgaaggacc ccttgtcatc tctgaagacc tggatggcct aactttcctg cggagaactg
4741 tgacccgcga cccagctggt tggtttggaa aactggagca gagctcaata ctcaggcaaa
4801 tgtactggac taggggtccc aaccatggag acccatctga aacaatgatt ccacactccc
4861 aaagacccat acaattgatg tccctactgg gggaggccgc tctccacggc ccagcatttt
4921 acagtaaaat tagtaaattg gtcattgcag agctaaaaga aggtggtatg gatttttacg
4981 tgcccagaca agagccaatg ttcagatgga tgagattctc agatctgagc acgtgggagg
5041 gcgatcgcaa tctggctccc agttttgtga atgaagatgg cgtcgagtga cgccaaccca
5101 tctgatgggt ccgcagccaa cctcgtccca gaggtcaaca atgaggttat ggctctggag
5161 cccgttgttg gtgccgccat tgcggcacct gtagcgggcc aacaaaatgt aattgacccc
5221 tggattagaa ataattttgt acaagcccct ggtggagagt ttacagtgtc ccccagaaac
5281 gctccaggtg aaatactatg gagcgcgccc ttaggccctg atttaaatcc ctacctatcc
5341 catttggcta gaatgtataa tggttatgca ggtggttttg aagtgcaggt aattctcgcg
5401 gggaacgcgt tcaccgccgg gaaggtcata tttgcagcag tcccaccaaa tttcccaact
5461 gaaggcttga gccccagcca ggtcactatg ttcccccata tagtagtaga tgttaggcaa
5521 ttagaacctg tgttgattcc cttacccgat gttaggaata atttctatca ttataatcaa
5581 ttaaatgacc ccaccattaa gttgatagca atgttgtaca caccacttag ggctaataat
5641 gctggggacg atgtcttcac agtttcttgc cgagttctca cgagaccatc ccccgatttt
5701 gatttcatat ttctagtacc acctacagtt gaatctagaa ctaaaccatt ctctgtccca
5761 gttttaactg ttgaggagat gaccaattca agattcccca ttcctctgga aaagttgttc
5821 acgggtccca gcagtgcctt tgttgttcaa ccacaaaacg gtaggtgcac gactgatggc
5881 gtgctcctag gcaccaccca attgtctcct gtcaacatct gcaccttcag aggggatgtc
5941 acccacatta caggtagtcg taactacaca atgaatttgg cttctcaaaa ttggaacaat
6001 tatgacccaa cagaagaaat cccagcccct ctaggagctc cagattttgt ggggaagatt
6061 caaggcatgc tcacccaaac cacaagggca gatggctcaa cacgcggcca caaagccacg
6121 gtgtacactg ggagcgccga ctttgctcca aaactgggca gagttcaatt tgaaactgac
6181 acagaccatg attttgaagc tagccaaaac acaaagttca ccccagtcgg tgtcatccaa
6241 gacggcagca ccacccaccg aaatgaaccc caacagtggg tgctcccaag ttactcaggc
6301 agaaatactc ataatgttca tctggccccc gctgtagccc ctacttttcc gggtgagcaa
6361 ctcctcttct ttaggtccac tatgcccgga tgtagcgggt accccaacat ggatctggac
6421 tgtctgctcc cccaggaatg ggtgcagtac ttctaccaag aggcagcccc agcgcaatct
6481 gatgtggctc tgctaagatt tgtgaatcca gacacaggta gggttttgtt tgagtgtaaa
6541 ctccataaat caggctatgt tacagtggct cacactggcc aacatgattt ggttatcccc
6601 cccaatggtt attttaggtt tgattcctgg gtcaaccagt tctacacgct tgcccccatg
6661 ggaaatggag cggggcgtag acgtgtagta taatggctgg agctttcttt gctgggttag
6721 catctgatgt ccttggctct ggacttggtt cccttatcaa tgctggggct ggggccatca
6781 accaaaaagt tgagtttgaa aataacagaa aattgcaaca agcatccttc caatttagca
6841 gcaatctaca acaggcttcc tttcaacatg acaaagaaat gctccaagca caaattgagg
6901 ccaccaaaaa gctacaacag gaaatgatga aagttaagca ggcaatgctc ctagagggtg
6961 ggttctctga gacagatgca gcccgcgggg caattaacgc ccccatgaca aaagctttgg
7021 actggagcgg gacaaggtac tgggctcctg atgctaggac tacaacatac aatgcaggcc
7081 gcttttccac ccctcaacca tcgggggcac tgccaggaag aactgatctt agggatactg
7141 tccctgctcg gggttcctct agtaaatctt ttaactcttc tactgttact tctgtgcact
7201 caaatcaaac cacttcaacg agacttggtt ctacagctgg ttctggtacc agtgtctcga
7261 gtctcccgtc aactgcaagg actaggagct gggttgagga tcaaagtagg aatttgtctc
7321 ctttcatgag gggggcccac aacatatcgt ttgtcacccc accatctagc agatcctcta
7381 gccaaggcac agtctcaacc gtgcctaaag aggttttgga ctcctggact ggcgctttca
7441 acacgcgcag gcagcctctc ttcgctcaca ttcgtaaacg aggggagtca cgggtgtaat
7501 gtgaaaagac aaaattgatt atctttcttt ctcttt
//