Typing tool
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Typing tool
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Complete norovirus genomes
| OM980238 | GII.4 Sydney | |
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| GII.P31 |
ORF1: 1..5095
ORF2: 5076..6698
ORF3: 6698..7504
LOCUS OM980238 7561 bp RNA linear VRL 18-MAR-2022
DEFINITION Norovirus GII isolate Hu/ES/2019/GII.4[P31]/3915VLC nonstructural
polyprotein (ORF1) gene, partial cds; and VP1 (ORF2) and VP2 (ORF3)
genes, complete cds.
ACCESSION OM980238
VERSION OM980238.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7561)
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JOURNAL Unpublished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 7561)
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..7561
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="Hu/ES/2019/GII.4[P31]/3915VLC"
/isolation_source="stool"
/host="Homo sapiens"
/db_xref="taxon:122929"
/country="Spain: Valencia"
/collection_date="04-Oct-2019"
/note="genotype: GII.4[P31]"
gene <1..5095
/gene="ORF1"
CDS <1..5095
/gene="ORF1"
/codon_start=2
/product="nonstructural polyprotein"
/protein_id="UNB81960.1"
/translation="MASNDASAAAVANSNNDTAKSSSDGVLSNMAVTFKRALGARPKQ
PPPKEPPPRPPRPPTPELVKKIPPPPPNGEDELVVSYSAKEGVSGLPELTTVIQPEET
NTAFSVPPLNQRENRDAKEPITGTIIEMWDGEIYHYGLYVERGLILGVHKPPAAISLA
KVELTPLSLFWRPVYTPQYLISPDTLRRLHGETFPYTAFDNNCYAFCCWVLDLNDSWL
SRRMIQRTTGFFRPYQEWNRKPLPTMDDSKLKKVANIFLCTLSSLFTRPIKDIIGKLK
PLNILNILATCDWTFPGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPEDLA
VELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFPKK
EEANELAMVRSIEDAVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARKLSTKS
ASPDIVGTINALLARIAAARSLVHRAKEELSSRPRPVVVMISGRPGIGKTHLARELAK
KIAASLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTCPL
TLNCDRIENKGKVFDSDAIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEKAK
RDFPGQPDMWKNAFSSDFSHIKLALAPQGGFDKNGNTPHGKGVMKTLTTGSLIARASG
LLHERLDEYELQGPALTTFNFDRNKILAFRQLAAENKYGLMDTMRVGKQLKDVKTMPD
LKQALKNVAIKRCQIVYNGNTYTLEADGKGSVKVDKVQSATVQTNNELAGALHHLRCA
RIRYYVKCVQEALYSIIQIAGAAFVTTRIAKRMNIQNLWSKPQVEDIEETASKDGCPK
PKDDEEFVVSSDDVKIEGKKGKNKSGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKY
SIEEYLQDRDKYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGLVTG
SEIRKRNPEDFKPKGKLWADDDRSVDYNEKLNFEAPPSIWSRIVNFGSGWGFWVSPSL
FITSTHVIPQGAKEFFGVPIKQIQIHKSGEFCRLRFPRPIRTDVTGMILEEGAPEGTV
ATLLIKRPTGELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGDCG
CPYIYKRGNDYVVIGVHTAAARGGNTVICATQGSEGEATLEGGDNKGTYCGAPILGPG
SAPKLSTKTKFWRSSTTPLPPGTYEPAYLGGKDPRVKGGPSLQQIMRDQLKPFTEPRG
KPPRPNVLEAAKKTIINVLEQTIDPPQKWSFAQACASLDKTTSSGHPHHMRKNDCWNG
ESFTGKLADQASKANLMFEEGKNMTPVYTGALKDELVKTDKIYGKIKKRLLWGSDLAT
MIRCARAFGGLMDELKAHCVTLPVRVGMNMNEDGPIIFEKHSRYRYHYDADYSRWDST
QQRDVLAAALEIMVKFSPEPHLAQIVAEDLLSPSVMDVGDFQISISEGLPSGVPCTSQ
WNSIAHWLLTLCALSEVTDLSPDIIQANSLFSFYGDDEIVSTDIKLDPEKLTAKLKEY
GLKPTRPDKTEGPLVISEDLDGLTFLRRTVTRDPAGWFGKLEQSSILRQMYWTRGPNH
EDPFETMIPHSQRPIQLMSLLGEAALHGPAFYSKISKLVIAELKEGGMDFYVPRQEPM
FRWMRFSDLSTWEGDRNLAPSFVNEDGVE"
mat_peptide <1..985
/gene="ORF1"
/product="p48"
mat_peptide 986..2083
/gene="ORF1"
/product="NTPase"
mat_peptide 2084..2620
/gene="ORF1"
/product="p22"
mat_peptide 2621..3019
/gene="ORF1"
/product="VPg"
mat_peptide 3020..3562
/gene="ORF1"
/product="Pro"
mat_peptide 3563..5092
/gene="ORF1"
/product="RdRp"
gene 5076..6698
/gene="ORF2"
CDS 5076..6698
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="UNB81961.1"
/translation="MKMASSDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ
QNIIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
FEVQVILAGNAFTAGKVIFAAVPPNFPTEGLSPSQVTMFPHIVVDVRQLEPVLIPLPD
VRNNFYHYNQSNDPTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT
QLSPVNICTFRGDVTHITGSRNFRMNLASQNWNNYDPTEEIPAPLGTPDFVGKIQGML
TQTTRADGSTRGHKATVYTGSADFAPKLGTVQFETDTDHDFEANQNTKFTPVGVIQDG
STTHRNEPQQWVLPSYSGRNTHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD
CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV
IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRVL"
gene 6698..7504
/gene="ORF3"
CDS 6698..7504
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="UNB81962.1"
/translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA
SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQEMMKVKQAVLLEGGFSETDAARGAIN
APMTKTLDWSGTRYWAPDARTTTYNAGRFSTPQPSVALPGRANLRDAAPARGSSSKSS
NYSTATSVYSNQTTSTRLGSTAGSGTSVSSFPSTARTRSWVEDQSRNLSPFMRGAHNI
SFVTPPSSRSSSQGTVSTVPKEILDSWTGAFNTRRQPLFAHIRRRGESRV"
ORIGIN
1 gatggcgtct aacgacgctt ccgctgccgc tgttgccaac agcaacaacg acaccgcaaa
61 atcttcaagt gacggcgtgc tttctaacat ggctgtcact tttaaacggg ccctcggggc
121 gcggcctaaa cagccgcccc cgaaggagcc accacccaga cccccacgac cacccacacc
181 agaactggtt aaaaagatcc ctcctccccc acccaacggg gaggatgaac tagtggtttc
241 ttacagcgcc aaagaaggcg tttctggatt gcctgagctc accactgtca tccaaccgga
301 agaaaccaat acggcgttca gtgttccccc gctcaaccaa agggagaaca gggacgccaa
361 ggaaccaata actggaacaa ttattgaaat gtgggatgga gaaatctacc attatggcct
421 gtacgtggaa cggggtctta tacttggtgt gcataagcca ccggcagcca tcagccttgc
481 caaggtcgag ctaacaccac tctctttgtt ctggagacct gtgtacaccc cccagtacct
541 tatctctcca gacactctta ggagactaca tggagagaca ttcccctaca ccgcatttga
601 caacaactgc tacgccttct gctgttgggt gttagatcta aacgactcat ggctaagtag
661 gagaatgatt cagagaacaa caggtttctt cagaccatac caggaatgga acaggaaacc
721 cctccccact atggatgact ccaaattgaa gaaggtagct aacatattct tgtgcacctt
781 gtcttcacta tttaccagac ccattaagga tataatagga aaattaaaac ctcttaacat
841 cctcaacatt ctggctacat gtgattggac cttcccaggc atagtagaat ccctaatact
901 cttggcagaa ctctttggag ttttctggac acccccagat gtgtctgcga tgatcgcccc
961 cttactaggt gattatgaac tgcaaggacc tgaggacctt gcagtagaac tggtcccagt
1021 ggtgatgggg gggataggtt tggtgctagg atttaccaaa gagaaaattg gaaagatgct
1081 gtcgtccgct gcatccactt tgagagcttg taaagacctt ggtgcatacg gactggaaat
1141 tttgaaattg gtcatgaaat ggttcttccc aaagaaagag gaagcaaatg aactggctat
1201 ggtgagatcc atcgaggacg cagtgctaga cctcgaggca attgaaaaca accacatgac
1261 caccctgctc aaggacaaag acagcttggc gacctatatg agaacccttg accttgagga
1321 ggagaaagct agaaaactct caaccaagtc tgcgtcacct gatattgtgg gcacaatcaa
1381 cgctcttctg gctcgaatcg ccgctgcacg ctccctagtg caccgggcga aagaggagct
1441 ctccagcagg ccgagacctg tcgttgtgat gatatcgggg agaccaggga taggaaaaac
1501 ccaccttgcc agggagttgg ccaaaaagat cgcagcctcc ctcacagggg atcagcgtgt
1561 aggcctgatc ccacgcaatg gcgttgacca ctgggacgca tacaagggtg aaagagttgt
1621 cctatgggac gactatggga tgagcaaccc catacacgat gccctcaggt tgcaggaact
1681 tgctgacact tgccccctca cgctaaactg tgacaggatt gagaacaaag gaaaagtctt
1741 tgacagtgat gccataatca tcaccaccaa tctggccaac ccagcaccac tggattacgt
1801 caattttgaa gcgtgctcga ggcgcattga tttcctcgtg tacgcggagg ctcctgaagt
1861 agagaaggca aaacgcgact tcccaggcca acctgacatg tggaagaacg cttttagttc
1921 cgacttctca cacataaaac tggcactggc cccacagggt ggttttgata agaacggcaa
1981 caccccgcat ggaaaaggtg tcatgaagac cctcaccact ggctctctta tcgctcgagc
2041 gtcagggctg ctccatgaga ggctagatga atatgagcta caaggcccag ccctcactac
2101 tttcaacttt gaccgcaaca agatacttgc ttttagacag cttgctgctg aaaacaagta
2161 tgggctgatg gacacaatga gagttggaaa acagctcaag gatgttaaga ccatgccaga
2221 cctcaaacaa gcactcaaga atgtcgcgat caagagatgc cagatagtgt acaatggtaa
2281 cacctacaca ctcgaggccg acggcaaggg tagtgtgaaa gttgacaaag tgcagagtgc
2341 cactgtgcaa accaacaatg agctagccgg cgccctacac catctaaggt gcgccagaat
2401 cagatactat gttaagtgtg tccaggaggc actgtattcc atcatccaaa tcgctggggc
2461 tgcgtttgtc accacgcgca tcgccaagcg catgaacata caaaatctct ggtccaagcc
2521 acaggtggaa gacatagaag agacggccag taaagatggt tgcccaaaac ccaaagatga
2581 tgaagagttc gttgtttcat ccgacgacgt caaaatcgag ggtaagaagg ggaagaacaa
2641 gtccggccgt ggcaaaaagc acacagcctt ctcaagtaaa gggctcagtg atgaggagta
2701 cgatgagtac aagagaatca gggaagaaag gaacggtaag tactccatag aagagtacct
2761 ccaggacaga gacaagtact atgaggaggt ggccattgcc agggcaactg aggaggactt
2821 ctgtgaagaa gaagaggcca aaatccggca gagaattttc agaccaacaa ggaaacaacg
2881 caaagaagaa agggcctctc taggcttggt cacgggctca gaaatcagga agagaaaccc
2941 agaagacttc aagcccaagg gaaagctgtg ggctgatgat gacagaagtg ttgactacaa
3001 cgagaaactc aactttgagg ccccgccaag catctggtcg aggatagtca actttggttc
3061 aggttggggc ttctgggtct cccccagttt gttcataaca tcaacccatg tcatacccca
3121 gggtgcaaaa gagttcttcg gagtccccat caaacaaatc cagatacaca aatcaggtga
3181 attctgccga ttgagattcc caagaccaat cagaactgat gtgacgggca tgattctgga
3241 agaaggtgcg ccagaaggaa ccgtggccac actgctcatc aagagaccaa ctggggagct
3301 tatgcctttg gcagccagga tgggaaccca tgcgaccatg aagattcagg ggcgcacagt
3361 tggaggacag atgggtatgc tcttgacagg atccaacgcc aagagtatgg acttgggcac
3421 aacaccaggc gattgcggtt gtccctatat ctacaaaaga gggaatgact atgtggtcat
3481 aggagtccat acagcagctg cccgtggagg taacactgtc atctgtgcca cccagggtag
3541 tgagggagaa gccacacttg aaggaggtga caacaaagga acgtactgtg gtgcaccaat
3601 cttgggccca gggagtgctc cgaaactcag caccaagact aagttttgga gatcatccac
3661 aacgccactc ccaccaggca cctacgagcc agcctacctc ggtggcaagg atcccagagt
3721 caaaggtggt ccttcattgc aacaaattat gagggaccaa ctaaagccat tcacagaacc
3781 cagaggaaaa ccaccaagac caaatgtgtt ggaagctgcc aagaaaacca tcattaatgt
3841 tcttgagcaa acaattgacc caccccaaaa atggtcattc gcgcaagctt gcgcatccct
3901 tgacaaaacc acctccagcg gccatccgca ccatatgcgg aaaaacgatt gctggaatgg
3961 ggagtccttc acgggaaaat tggcagatca ggcctccaag gccaacctaa tgtttgaaga
4021 gggaaagaac atgaccccgg tctacactgg tgcacttaaa gatgaactgg tgaagactga
4081 taaaatttat ggcaaaatca agaagaggct cctgtggggc tcagacctag cgactatgat
4141 acggtgcgcc cgggcttttg gaggccttat ggatgaactc aaggcgcact gtgtcaccct
4201 tcctgtcaga gttggtatga acatgaatga agatggcccc ataatctttg aaaagcactc
4261 cagatatagg tatcattatg atgctgatta ctccagatgg gactcaacac aacaaaggga
4321 tgtgctagca gcagcactag aaatcatggt taagttctcc ccagaaccgc acttggccca
4381 gatagttgca gaagacctcc tttcccctag tgtaatggat gtgggtgact ttcagatatc
4441 aataagtgaa ggactcccct ccggggtgcc ttgcacctcc caatggaatt ccattgccca
4501 ctggctcctc accctttgtg cactctctga agtcacagac ctgtcccctg acatcatcca
4561 ggccaactcc cttttctcct tctatggtga tgacgagatt gtgagcacag acataaagtt
4621 ggacccagaa aagctgacag caaaactcaa ggagtacgga ttaaagccaa cccgtcccga
4681 caaaactgaa ggacccctcg ttatctctga agacctggat ggcctgacgt tccttcggag
4741 gactgtgacc cgcgacccag ctggctggtt tggaaagttg gaacaaagct caatccttag
4801 gcaaatgtac tggaccaggg gtcccaacca tgaagatcca tttgaaacaa tgataccaca
4861 ctcccaaagg cccatacaat tgatgtcctt gctaggtgag gctgcgctcc acggcccggc
4921 attttacagc aaaattagca aattggtcat tgcagaattg aaggaaggtg gtatggattt
4981 ttacgtgccc agacaagagc caatgtttag atggatgaga ttctcagatc tgagcacgtg
5041 ggagggcgat cgcaatctgg ctcccagttt tgtgaatgaa gatggcgtcg agtgacgcca
5101 acccatctga tgggtccgca gccaacctcg tcccagaggt caacaatgag gttatggctc
5161 tggagcccgt tgttggtgcc gctattgcgg cacctgtagc gggccaacaa aatataattg
5221 acccctggat tagaaacaat tttgtgcaag cccctggtgg agagttcaca gtatccccta
5281 gaaacgctcc aggtgaaata ctgtggagtg cgcccttagg ccctgattta aatccctacc
5341 tatcccattt ggccagaatg tacaatggtt atgcaggtgg ctttgaagtg caggtaatcc
5401 tcgcggggaa cgcgttcacc gccgggaagg tcatatttgc agcagtacca ccaaactttc
5461 caactgaagg cttgagtccc agccaggtta ctatgttccc ccatatagta gtagatgtta
5521 ggcagcttga acctgtgttg attcctttac ccgatgttag gaataatttc taccattata
5581 atcaatcaaa tgatcctact attaagctga tagcaatgtt gtatacacca cttagggcta
5641 ataacgctgg ggacgatgtc ttcacagtct cttgtcgggt cctcacgaga ccgtcccccg
5701 attttgattt catatttcta gtgccaccca cagttgagtc aagaactaag ccattctctg
5761 tcccagtttt aactgttgag gagatgacca attcaagatt ccccattcct ctggagaagt
5821 tgttcacggg tcccagcagt gcctttgttg ttcaaccaca aaacggcagg tgcacgactg
5881 atggcgtgct cctaggcacc acccaattgt cccctgtcaa catctgcacc ttcagagggg
5941 atgtcaccca catcacaggt agtcgcaact tcagaatgaa tttggcctct caaaattgga
6001 acaattatga cccaacagaa gaaatcccag cccctctagg aaccccagat tttgtaggga
6061 agattcaagg tatgctcacc caaaccacaa gggcagatgg ctcaacacgt ggccataaag
6121 ctacagtgta cactgggagc gccgactttg ctccaaaact aggcacagtt caatttgaga
6181 ctgacacaga ccatgatttt gaagctaacc aaaacacaaa gttcacccca gtcggtgtca
6241 tccaggacgg tagcaccacc caccgaaatg aaccccaaca atgggtgctc ccaagttact
6301 caggcaggaa tactcataat gtgcacctgg cccccgctgt ggcccccact tttccgggtg
6361 agcaacttct cttcttcagg tccaccatgc ccggttgcag cgggtatccc aacatggatt
6421 tggattgtct gctcccccag gaatgggtgc agtacttcta ccaagaggca gccccagcac
6481 aatctgatgt ggctctgtta agatttgtga atccagacac agggagggtt ttgtttgaat
6541 gtaagctcca taaatcaggc tatgttacag tggctcacac tggccaacat gatttggtca
6601 ttccccctaa tggttatttt aggtttgatt cctgggtcaa ccagttctac acgcttgccc
6661 ccatgggaaa tggaacgggg cgtagacgtg tgttataatg gctggagctt tctttgctgg
6721 attggcttct gatgtcctcg gctccgggct tggttccctt atcaatgctg gcgctggggc
6781 catcaaccaa aaagttgaat ttgaaaacaa cagaaaattg caacaagcat ccttccaatt
6841 tagtagtaat ttacaacagg cttcctttca acatgataaa gaaatgctcc aggcacaaat
6901 tgaggccacc aaaaagctac aacaggaaat gatgaaagtt aagcaggcag tgctcctaga
6961 gggtggattc tctgagacag atgcggcccg tggggcaatc aacgccccta tgacaaaaac
7021 tctagactgg agcgggacaa ggtactgggc tcccgatgct aggactacaa catacaatgc
7081 aggccgcttt tccacccctc agccatcggt ggcactgcca ggaagagcta atcttaggga
7141 tgctgcccct gctcggggtt cctctagtaa atcttctaat tattctactg ctacttctgt
7201 gtactcaaat caaaccactt caacgagact tggttctaca gctggttctg gcaccagtgt
7261 ctcgagcttc ccgtcaactg caaggactag gagctgggtt gaggatcaaa gcaggaattt
7321 gtcacctttt atgagggggg cccacaacat atcatttgtc accccaccat ctagcagatc
7381 ctctagccaa ggcacagtct caaccgtgcc taaagagatt ttggactcct ggactggcgc
7441 tttcaacacg cgcaggcagc ctctcttcgc ccacattcgt agacgagggg agtcacgggt
7501 gtaatgtgaa aagacaaatt gattatcttt cttttctttc tttagtgtct tttaaaaaaa
7561 a
//