Typing tool
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Typing tool
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Complete norovirus genomes
| OM980240 | GII.4 Sydney | |
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| GII.P4 New Orleans |
ORF1: 1..5090
ORF2: 5071..6693
ORF3: 6693..7499
LOCUS OM980240 7536 bp RNA linear VRL 18-MAR-2022
DEFINITION Norovirus GII isolate Hu/ES/2019/GII.4[P4NewOrleans]/4008ALC
nonstructural polyprotein (ORF1) gene, partial cds; and VP1 (ORF2)
and VP2 (ORF3) genes, complete cds.
ACCESSION OM980240
VERSION OM980240.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norovirus norwalkense.
REFERENCE 1 (bases 1 to 7536)
AUTHORS Navarro-Lleo,N., Santiso-Bellon,C., Vila-Vicent,S.,
Carmona-Vicente,N., Gozalbo-Rovira,R., Rodriguez-Diaz,J. and
Buesa,J.
TITLE Wide Diversity of Recombinant Noroviruses Circulating in Spain,
2016 to 2020
JOURNAL Unpublished
REFERENCE 2 (bases 1 to 7536)
AUTHORS Navarro-Lleo,N., Santiso-Bellon,C., Vila-Vicent,S.,
Carmona-Vicente,N., Gozalbo-Rovira,R., Rodriguez-Diaz,J. and
Buesa,J.
TITLE Direct Submission
JOURNAL Submitted (13-MAR-2022) Microbiology and Ecology, University of
Valencia, Av. Blasco Ibanyez 15, Valencia, Valencia 46010, Spain
COMMENT ##Assembly-Data-START##
Assembly Method :: SPAdes v. 3.11.1; MEGAHIT v. 1.2.4
Sequencing Technology :: Illumina
##Assembly-Data-END##
FEATURES Location/Qualifiers
source 1..7536
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="Hu/ES/2019/GII.4[P4NewOrleans]/4008ALC"
/isolation_source="stool"
/host="Homo sapiens"
/db_xref="taxon:122929"
/geo_loc_name="Spain: Valencia"
/collection_date="19-Dec-2019"
/note="genotype: GII.4[P4 New Orleans]"
gene <1..5090
/gene="ORF1"
CDS <1..5090
/gene="ORF1"
/codon_start=3
/product="nonstructural polyprotein"
/protein_id="UNB81966.1"
/translation="SNDASAAAVANSNNDTAKSSSDGVLSSMAVTFKRALGARPKQPP
PREKPQRPPRPPTPELVKNIPPPPPNGEDEIVVTYSVKDGVSGLPDLSTVRQPEESNT
AFSVPPLNQRENRDAKEPLTGTILEMWDGEIYHYGLYVERGLVLGVHKPPAAISLAKV
ELAPLSLYWRPVYTPQYLISPDTLKKLSGETFPYTAFDNNCYAFCCWVLDLNDSWLSR
RMIQRTTGFFRPYQDWNRKPLPTMDDSKIKKVANIFLCALSSLFTRPIKDIIGKIRPL
NILNILASCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPEDLAVE
LVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFPKKEE
ANELAIVRSIEDAVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARKLSTKSAS
PDIVGTINALLARIAAARSLVHRAKEELSSRPRPVVLMISGRPGIGKTHLAREVAKRI
AASLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTCPLTL
NCDRIENKGKVFDSDVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPDVEKAKRD
FPGQPDMWKNAFSSDFSHIKLALAPQGGFDKNGNTPHGKGVMKTLTTGSLVARASGLL
HERLDEFELQGPALTTFNFDRNKVLAFRQLAAENKYGLMDTMRVGKQLKDVKTMPELK
QALKNVSIKKCQIVYSGCTYMLESDGKGNVKVDRIQSAAVQTNNELAGALHHLRCARI
RYYVKCVQEALYSIIQIAGAAFVTTRIAKRMNIQDLWSKPQVENIEETTSKDGCPKPK
DDEEFVISSDDIKTEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKYSI
EEYLQDRDKYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERVSLGLVTGSE
IRKRNPDDFKPKGKLWADDDRSVDYNEKLSFEAPPSIWSRIVNFGSGWGFWVSPSLFI
TSTHVIPQGAKEFFGVPIKQIQVHKSGEFCRLRFPKPIRTDVTGMILEEGAPEGTVVT
LLIKRSTGELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGDCGCP
YIYKRGNDYVVIGVHTAAARGGNTVICATQGSEGEATLEGGDNKGTYCGAPILGPGGA
PTLSTKTKFWRSSTASLPPGTYEPAYLGGKDPRVKGGPSLQQVMREQLKPFTEPRGKP
PKPSVLEAAKKTIINVLEQTIDPPEKWSFAQACASLDKTTSSGHPHHMRKNDCWNGES
FTGKLADQASKANLMFEEGKNMTPVYTAALKDELVKTDKIYGKIKKRLLWGSDLATMV
RCARAFGGLMDELKAHCVTLPIRVGMNMNEDGPIIFERHSRYTYHYDADYSRWDSTQQ
RAVLAAALEIMVKFSPEPHLAQVVAEDLLSPSVVDVGDFTISINEGLPSGVPCTSQWN
SIAHWLLTLCALSEVTNLSPDTIQANSLFSFYGDDEIVSTDIKLDPEKLTAKLKEYGL
KPTRPDKTEGPLVISEDLNGLTFLRRTVTRDPAGWFGKLEQSSILRQMYWTRGPNHGD
PSETMIPHSQRPIQLMSLLGEAALHGPSFYSKISKLVIAELKEGGMDFYVPRQEPMFR
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="UNB81967.1"
/translation="MKMASSDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ
QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
FEVQVILAGNAFTAGKVIFAAVPPNFPTEGLSPSQVTMFPHIVVDVRQLEPVLIPLPD
VRNNFYHYNQSNDPTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT
QLSPVNICTFRGDVTHITGSRNYTMNLASQNWNNYDPTEEIPAPLGAPDFVGKIQGML
TQTTRADGSTRGHKATVYTGSADFAPKLGRVQFETDTDHDFEANQNTKFTPVGVIQDG
STTHRNEPQQWVLPSYSGRNTHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD
CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV
IPPNGYFRFDSWVNQFYTLAPMGNGAGRRRAV"
gene 6693..7499
/gene="ORF3"
CDS 6693..7499
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="UNB81968.1"
/translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA
SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQEMMKVKQAMLLEGGFSETDAARGAIN
APMTKVLDWSGTRYWAPDARTTTYNAGRFSTPQPSGALPGRANLRDVAPARGPSSKPS
NSSTTTSVYSNQTTSTRLGSTAGSGASVSSLPSTARTRSWVEDQSRNLSPFMRGAHNI
SFVTPPSSRSSSQGTVSTVPKEILDSWTGAFNTRRQPLFAHIRKRGESRV"
ORIGIN
1 cgtctaacga cgcttctgct gccgctgttg ctaacagcaa caacgacacc gcaaaatctt
61 caagtgacgg agtgctttct agcatggctg tcacttttaa acgagccctc ggggcgcggc
121 ctaaacagcc ccccccgagg gagaaaccac aaagaccccc tcgaccacct acaccagaac
181 tggttaaaaa tattcccccc cccccaccca acggagagga tgaaatagtg gttacctata
241 gtgtcaaaga tggtgtttcc ggcttgcctg acctttccac cgtcaggcag ccggaagaat
301 ccaacacggc cttcagtgtt cctccactta atcagaggga gaatagagat gctaaggaac
361 cactcactgg aacaatactg gagatgtggg acggggaaat ctatcactat ggcctgtatg
421 tggagcgagg tcttgtgcta ggcgtgcaca aaccgccagc tgctatcagc ctcgctaagg
481 tagagttagc accactctcc ttgtactgga ggcctgtgta cactcctcag tacctcatct
541 ctccagacac tctcaagaaa ttgtccggag aaacgttccc ctacacagcc tttgacaaca
601 actgctatgc cttttgttgc tgggtcctgg acctaaatga ctcgtggctg agcaggagaa
661 tgatccagag aacaactggt ttcttcaggc cctaccaaga ctggaatagg aaaccccttc
721 ccactatgga tgactccaaa ataaagaagg tggctaacat atttctgtgt gctctgtcct
781 cgctattcac caggcccata aaagatataa tagggaagat aaggcctctt aacatcctca
841 acatcttagc ctcatgtgat tggacctttg cgggcatagt ggagtccctg atactcttgg
901 cagaactctt tggagtcttc tggacacccc cagatgtgtc tgcgatgatt gcccccttac
961 ttggtgacta cgagctacaa ggacctgagg accttgcagt ggagctcgtc cccgtggtaa
1021 tggggggaat tggtttggtg ctaggattca ccaaagagaa gattgggaaa atgttgtcat
1081 cagctgcgtc caccttaaga gcttgcaaag accttggtgc atatgggcta gagatcctaa
1141 agttagttat gaagtggttc ttcccgaaga aagaggaggc aaatgagctg gctatagtga
1201 ggtccatcga ggatgcagtc ctggatctcg aagcaattga aaacaatcat atgaccacct
1261 tgcttaaaga taaagacagt ctggcaacct acatgagaac acttgacctt gaagaggaga
1321 aagccaggaa actctcaacc aagtctgcct cacctgatat cgtgggcaca atcaacgccc
1381 tcctggcgag aatcgctgcc gcacgctctc tggtgcaccg agcgaaggag gagctttcca
1441 gcagaccaag acctgtggtg ttgatgatat caggcaggcc aggaataggg aagacccacc
1501 tcgctaggga agtggctaag agaattgcag cctccctcac aggagaccag cgtgttggtc
1561 tcatcccacg caatggcgtc gaccattggg atgcatataa gggggagagg gtcgtcctat
1621 gggacgatta tggaatgagc aaccctattc acgacgccct caggctgcaa gaactcgctg
1681 acacttgccc ccttactctg aactgtgaca ggattgaaaa taaaggaaag gtctttgaca
1741 gcgatgtcat catcatcacc actaatctgg ccaacccagc cccactggac tacgtcaact
1801 ttgaagcatg ctcgaggcgc attgacttcc ttgtatatgc agaagcccct gatgtcgaaa
1861 aggcgaagcg tgacttccca ggccagcctg acatgtggaa gaacgctttc agctctgatt
1921 tctcacacat aaaactagca ctggccccac agggtggttt cgacaagaac gggaacaccc
1981 cacacgggaa gggcgtcatg aagactctca ccactggctc ccttgttgcc cgggcatcag
2041 ggctactcca tgagaggtta gatgaatttg aactgcaggg cccagctctc accaccttca
2101 attttgatcg caacaaagtg cttgccttta gacagcttgc tgctgaaaat aaatatggac
2161 tgatggacac aatgagggtt gggaaacagc tcaaggatgt 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 gaggccctgt attccatcat tcaaattgct ggggctgcat
2461 ttgtcaccac gcgcatagcc aagcgcatga acatacaaga cctatggtcc aagccacaag
2521 tggaaaacat agaggagact accagcaagg acgggtgccc aaaacctaag gatgatgagg
2581 agtttgtcat ttcatccgat gacatcaaaa ctgagggcaa gaaagggaag aacaagactg
2641 gccgtggcaa gaagcacaca gcattttcaa gcaaaggcct cagtgatgaa gagtacgacg
2701 aatacaagag gatcagggaa gaaaggaatg gcaagtactc tatagaagag tacctccagg
2761 acagggataa atattatgag gaggtggcca ttgccagagc gactgaggaa gacttctgtg
2821 aagaggagga agccaagatc cgacaaagga tctttaggcc aacaaggaaa caacgcaagg
2881 aggaaagagt ctctctcggc ttagtcacag gttctgaaat taggaaaaga aacccagatg
2941 acttcaagcc caaggggaaa ttgtgggctg acgacgacag gagtgtggac tacaatgaga
3001 aactcagttt tgaggccccg ccaagcattt ggtcaagaat agtcaacttt ggttcaggct
3061 ggggattctg ggtctccccc agcttgttca taacatcaac ccacgttata ccccagggcg
3121 caaaggagtt ctttggagtc cccatcaaac aaatacaggt acacaagtca ggcgagttct
3181 gtcgcttgag attccctaag ccaatcagga ctgatgtgac gggcatgatc ttagaagaag
3241 gcgcacctga gggcaccgtg gttacactac tcatcaaaag gtccactggg gaacttatgc
3301 ccctagcagc taggatgggg acccacgcga ccatgaagat ccaagggcgc actgttgggg
3361 gccagatggg catgcttctg acaggatcca acgccaagag tatggacctg ggtactacac
3421 caggtgattg tggctgcccc tacatctaca agagaggtaa tgactatgtg gtcattgggg
3481 tccacacggc tgccgcacgt ggggggaaca ctgtcatatg tgccacccag gggagtgaag
3541 gagaggctac acttgagggt ggtgacaaca aggggacata ctgtggtgca ccaatcctag
3601 gcccaggggg tgccccaaca cttagcacca agaccaaatt ctggagatcg tccacagcat
3661 cactcccacc tggcacctat gaaccagcct atcttggtgg caaggaccct agagtcaagg
3721 gtggcccttc actgcagcaa gtcatgaggg aacagttgaa gccattcaca gagcccaggg
3781 gtaagccacc aaaaccaagt gtgttagaag ctgccaagaa aaccatcatc aatgtccttg
3841 agcaaacaat tgatccacct gagaaatggt cgttcgcaca agcttgcgcg tctcttgaca
3901 agaccacttc cagtggtcac ccgcaccaca tgcggaaaaa cgactgctgg aacggggagt
3961 ccttcacagg caagctggca gaccaggcat ccaaggccaa cctgatgttt gaagaaggga
4021 agaacatgac cccggtctac acagctgcgc tcaaggatga gttagttaaa actgacaaaa
4081 tctatggtaa gatcaagaag aggcttcttt ggggctcgga cttggcgacc atggtccggt
4141 gtgctcgagc attcggaggc ctgatggatg aactcaaagc gcactgcgtc acacttccca
4201 ttagagttgg catgaacatg aatgaggatg gccccatcat cttcgagagg cattccaggt
4261 acacgtacca ctatgatgct gattactctc gatgggactc aacacaacag agagccgtgt
4321 tggcagcagc tctagagatc atggtaaaat tctccccaga accacatttg gctcaagtag
4381 tcgctgaaga cctcctttct cctagtgtgg tggacgtggg cgacttcaca atatcaatca
4441 acgagggtct tccctctggg gtgccctgca cctcccaatg gaactccatc gcccactggc
4501 ttctcactct ctgtgcactc tccgaagtca caaacctgtc tcctgatact atacaggcta
4561 attctctctt ctctttttat ggtgatgatg aaattgtcag cacagacata aaactggacc
4621 cagagaaatt gacagcaaag ctcaaagaat atgggttaaa accaacccgc cctgacaaaa
4681 ctgaaggacc tcttgtcatc tctgaagacc tgaatggcct gactttcctg cggagaactg
4741 tgacccgcga cccagctggt tggtttggaa aactggagca gagctcaata ctcaggcaaa
4801 tgtactggac taggggtccc aaccatggag acccatctga aacaatgatt ccacattccc
4861 aaagacccat acaattgatg tccctactgg gggaggccgc tctccacggc ccatcatttt
4921 acagcaaaat tagcaaattg gtcattgcag agctaaaaga aggtggtatg gatttttacg
4981 tacccagaca agagccaatg ttcagatgga tgagattctc agatctgagc acgtgggagg
5041 gcgatcgcaa tctggctccc agttttgtga atgaagatgg cgtcgagtga cgccaaccca
5101 tctgatgggt ccgcagccaa cctcgtccca gaggtcaaca atgaggttat ggctctggag
5161 cccgttgttg gtgccgctat tgcggcacct gtagcgggcc aacaaaatgt aattgacccc
5221 tggattagaa ataattttgt acaagcccct ggtggagagt ttacagtgtc ccctagaaac
5281 gctccaggtg aaatactatg gagcgcgccc ttgggccctg atttaaatcc ctacctatcc
5341 catttggcca gaatgtataa tggttatgca ggtggttttg aagtgcaggt gattctcgcg
5401 gggaacgcgt tcaccgccgg gaaagtcatc tttgcagcag tcccaccaaa ttttccaact
5461 gaaggcttga gccccagcca ggtcactatg ttcccccata tagtagtaga tgttaggcaa
5521 ctagaacctg tgttaattcc cttacccgat gttaggaata atttctatca ttacaatcaa
5581 tcaaatgacc ccaccattaa gttgatagca atgttgtaca caccacttag ggccaacaat
5641 gctggggacg atgtcttcac agtctcttgc cgagtcctca cgagaccatc ccccgatttt
5701 gatttcatat ttctagtgcc acccacagtt gagtctagaa ctaaaccatt ctctgtccca
5761 gttttaactg ttgaggagat gaccaattca agattcccca ttcctttgga aaagttgttc
5821 acgggtccca gcagtgcctt tgtcgttcaa ccacaaaacg gtaggtgcac gactgatggc
5881 gtgctcctag gcaccaccca attgtctcct gtcaacatct gcaccttcag aggggatgtc
5941 actcacatca caggtagtcg caactacaca atgaatttgg cttctcaaaa ttggaacaat
6001 tatgacccaa cagaggaaat cccagcccct ctaggagctc cagattttgt ggggaagatt
6061 caaggtatgc tcacccaaac cacaagggca gatggctcaa cacgcggcca caaggctacg
6121 gtgtacactg ggagcgccga ctttgctcca aaactgggca gagttcaatt tgaaactgac
6181 acagaccatg attttgaagc taaccaaaac acaaagttca ccccagttgg tgtcatccaa
6241 gatggtagca ccacccaccg aaatgaaccc caacagtggg tgctcccaag ctactcaggc
6301 agaaatactc acaatgttca tctggctcct gctgtggccc ccacttttcc gggtgagcaa
6361 cttctcttct ttagatccac catgcccgga tgtagcgggt accccaacat ggatttggac
6421 tgcctgctcc cccaggaatg ggtgcagtac ttctaccaag aggcagcccc agcacagtct
6481 gatgtggctc tgctaagatt tgtgaatcca gacacaggta gggttttgtt tgagtgtaaa
6541 cttcataaat caggctatgt tacagtggct cacactggcc aacatgatct ggttatcccc
6601 cccaatggtt attttagatt tgattcctgg gtcaaccagt tctacacgct tgcccccatg
6661 ggaaatggag cggggcgtag acgtgcagta taatggctgg agctttcttt gctggattag
6721 catctgatgt ccttggctct ggacttggtt cccttatcaa tgctggggct ggggccatca
6781 accaaaaagt tgagtttgaa aataacagaa aattgcaaca agcatccttc caatttagca
6841 gcaatctaca acaggcttcc tttcaacatg acaaggaaat gctccaagca caaattgagg
6901 ccaccaaaaa gctacaacag gaaatgatga aagttaagca ggcaatgctc ctggagggtg
6961 ggttctctga aacagatgca gcccgcgggg caatcaacgc ccccatgaca aaagttttgg
7021 actggagcgg gacaaggtac tgggctcctg acgctaggac tacaacatac aatgcaggcc
7081 gcttttccac cccccaacca tcgggggcac tgccaggaag agctaatctt agggatgttg
7141 cccctgctcg gggtccctct agtaaacctt ctaattcttc tactactact tctgtgtatt
7201 caaatcaaac cacttcaacg agacttggtt ctacagctgg ttctggtgct agtgtctcga
7261 gtctcccgtc aactgcaagg actaggagct gggttgagga tcaaagtagg aatttgtctc
7321 ctttcatgag gggggcccac aacatatcgt ttgtcacccc accatctagc agatcctcta
7381 gccaaggcac agtctcaacc gtgcctaaag agattttgga ctcctggact ggcgctttca
7441 acacgcgcag gcagcctctc ttcgctcaca ttcgtaagcg aggggagtca cgagtgtaat
7501 gtgaaaaggc aaaattgatt atctttcttt ttcttt
//