Typing tool
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Typing tool
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Complete norovirus genomes
| OM980239 | GII.4 Sydney | |
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| GII.P31 |
ORF1: 1..5092
ORF2: 5073..6695
ORF3: 6695..7501
LOCUS OM980239 7565 bp RNA linear VRL 18-MAR-2022
DEFINITION Norovirus GII isolate Hu/ES/2019/GII.4[P31]/3973VLC nonstructural
polyprotein (ORF1) gene, partial cds; and VP1 (ORF2) and VP2 (ORF3)
genes, complete cds.
ACCESSION OM980239
VERSION OM980239.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7565)
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JOURNAL Unpublished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 7565)
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..7565
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="Hu/ES/2019/GII.4[P31]/3973VLC"
/isolation_source="stool"
/host="Homo sapiens"
/db_xref="taxon:122929"
/country="Spain: Valencia"
/collection_date="11-Nov-2019"
/note="genotype: GII.4[P31]"
gene <1..5092
/gene="ORF1"
CDS <1..5092
/gene="ORF1"
/codon_start=2
/product="nonstructural polyprotein"
/protein_id="UNB81963.1"
/translation="ASNDASAAAVANSNNDTAKSSSDGVLSNMAVTFKRALGARPKQP
PPKEPPPRPPRPPTPELVKKIPPPPPNGEDELVVSYSAKEGVSGLPELTTVIQPEETN
TAFSVPPLNQRENRDAKEPITGTIIEMWDGEIYHYGLYVERGLILGVHKPPAAISLAK
VELTPLSLFWRPVYTPQYLISPDTLRRLHGETFPYTAFDNNCYAFCCWVLDLNDSWLS
RRMIQRTTGFFRPYQEWNRKPLPTMDDSKLKKVANIFLCTLSSLFTRPIKDIIGKLKP
LNILNILATCDWTFPGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPEDLAV
ELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFPKKE
EANELAMVRSIEDAVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARKLSTKSA
SPDIVGTINALLARIAAARSLVHRAKEELSSRPRPVVVMISGRPGIGKTHLARELAKK
IAASLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTCPLT
LNCDRIENKGKVFDSDAIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEKAKR
DFPGQPDMWKNAFSSDFSHIKLALAPQGGFDKNGNTPHGKGVMKTLTTGSLIARASGL
LHERLDEYELQGPALTTFNFDRNKILAFRQLAAENKYGLMDTMRVGKQLKDVKTMPDL
KQALKNVAIKRCQIVYNGNTYTLEADGRGSVKVDKVQSATVQTNNELAGALHHLRCAR
IRYYVKCVQEALYSIIQIAGAAFVTTRIAKRMNIQNLWSKPQVEDIEETASKDGCPKP
KDDEEFVVSSDDVKIEGKKGKNKSGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKYS
IEEYLQDRDKYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGLVTGS
EIRKRNPEDFKPKGKLWADDDRSVDYNEKLNFEAPPSIWSRIVNFGSGWGFWVSPSLF
ITSTHVIPQGAKEFFGVPIKQIQIHKSGEFCRLRFPRPIRTDVTGMILEEGAPEGTVA
TLLIKRPTGELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGDCGC
PYIYKRGNDYVVIGVHTAAARGGNTVICATQGSEGEATLEGGDNKGTYCGAPILGPGS
APKLSTKTKFWRSSTTPLPPGTYEPAYLGGKDPRVKGGPSLQQIMRDQLKPFTEPRGK
PPRPNVLEAAKKTIINVLEQTIDPPQKWSFAQACASLDKTTSSGHPHHMRKNDCWNGE
SFTGKLADQASKANLMFEEGKNMTPVYTGALKDELVKTDKIYGKIKKRLLWGSDLATM
IRCARAFGGLMDELKAHCVTLPVRVGMNMNEDGPIIFEKHSRYRYHYDADYSRWDSTQ
QRDVLAAALEIMVKFSPEPHLAQIVAEDLLSPSVMDVGDFQISISEGLPSGVPCTSQW
NSIAHWLLTLCALSEVTDLSPDIIQANSLFSFYGDDEIVSTDIKLDPEKLTAKLKEYG
LKPTRPDKTEGPLVISEDLDGLTFLRRTVTRDPAGWFGKLEQSSILRQMYWTRGPNHE
DPFETMIPHSQRPIQLMSLLGEAALHGPAFYSKISKLVIAELKEGGMDFYVPRQEPMF
RWMRFSDLSTWEGDRNLAPSFVNEDGVE"
mat_peptide <1..982
/gene="ORF1"
/product="p48"
mat_peptide 983..2080
/gene="ORF1"
/product="NTPase"
mat_peptide 2081..2617
/gene="ORF1"
/product="p22"
mat_peptide 2618..3016
/gene="ORF1"
/product="VPg"
mat_peptide 3017..3559
/gene="ORF1"
/product="Pro"
mat_peptide 3560..5089
/gene="ORF1"
/product="RdRp"
gene 5073..6695
/gene="ORF2"
CDS 5073..6695
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="UNB81964.1"
/translation="MKMASSDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ
QNIIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
FEVQVILAGNAFTAGKVIFAAVPPNFPTEGLSPSQVTMFPHIVVDVRQLEPVLIPLPD
VRNNFYHYNQSNDPTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT
QLSPVNICTFRGDVTHITGSRNFRMNLASQNWNNYDPTEEIPAPLGTPDFVGKIQGML
TQTTRADGSTRGHKATVYTGSADFAPKLGTVQFETDTDHDFEANQNTKFTPVGVIQDG
STTHRNEPQQWVLPSYSGRNTHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD
CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV
IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRVL"
gene 6695..7501
/gene="ORF3"
CDS 6695..7501
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="UNB81965.1"
/translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA
SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQEMMKVKQAVLLEGGFSETDAARGAIN
APMTKTLDWSGTRYWAPDARTTTYNAGRFSTPQPSVALPGRANLRDAAPARGSSSKSS
NYSTATSVYSNQTTSTRLGSTAGSGTSVSSFPSTARTRSWVEDQSRNLSPFMRGAHNI
SFVTPPSSRSSSQGTVSTVPKEILDSWTGAFNTRRQPLFAHIRRRGESRV"
ORIGIN
1 ggcgtctaac gacgcttccg ctgccgctgt tgccaacagc aacaacgaca ccgcaaaatc
61 ttcaagtgac ggcgtgcttt ctaacatggc tgtcactttt aaacgggccc tcggggcgcg
121 gcctaaacag ccgcccccga aggagccacc acccagaccc ccacgaccac ccacaccaga
181 actggttaaa aagatccctc ctcccccacc caacggggag gatgaactag tggtttctta
241 cagcgccaaa gaaggcgttt ctggattgcc tgagctcacc actgtcatcc aaccggaaga
301 aaccaatacg gcgttcagtg ttcccccgct caaccaaagg gagaacaggg acgccaagga
361 accaataact ggaacaatta ttgaaatgtg ggatggagaa atctaccatt atggcctgta
421 cgtggaacgg ggtcttatac ttggtgtgca taagccaccg gcagccatca gccttgccaa
481 ggtcgagcta acaccactct ctttgttctg gagacctgtg tacacccccc agtaccttat
541 ctctccagac actcttagga gactacatgg agagacattc ccctacaccg catttgacaa
601 caactgctac gccttctgct gttgggtgtt agatctaaac gactcatggc taagtaggag
661 aatgattcag agaacaacag gtttcttcag accataccag gaatggaaca ggaaacccct
721 ccccactatg gatgactcca aattgaagaa ggtagctaac atattcttgt gcaccttgtc
781 ttcactattt accagaccca ttaaggatat aataggaaaa ttaaaacctc ttaacatcct
841 caacattctg gctacatgtg attggacctt cccaggcata gtagaatccc taatactctt
901 ggcagaactc tttggagttt tctggacacc cccagatgtg tctgcgatga tcgccccctt
961 actaggtgat tatgaactgc aaggacctga ggaccttgca gtagaactgg tcccagtggt
1021 gatggggggg ataggtttgg tgctaggatt taccaaagag aaaattggaa agatgctgtc
1081 gtccgctgca tccactttga gagcttgtaa agaccttggt gcatacggac tggaaatttt
1141 gaaattggtc atgaaatggt tcttcccaaa gaaagaggaa gcaaatgaac tggctatggt
1201 gagatccatc gaggacgcag tgttagacct cgaggcaatt gaaaacaacc acatgaccac
1261 cctgctcaag gacaaagaca gcttggcgac ctatatgaga acccttgacc ttgaggagga
1321 gaaagctaga aaactctcaa ccaagtctgc gtcacctgat attgtgggca caatcaacgc
1381 tcttctggct cgaatcgccg ctgcacgctc cctagtgcac cgggcgaaag aggagctctc
1441 cagcaggccg agacctgtcg ttgtgatgat atcggggaga ccagggatag gaaaaaccca
1501 ccttgccagg gagttggcca aaaagatcgc agcctccctc acaggggatc agcgtgtagg
1561 cctgatccca cgcaatggcg ttgaccactg ggacgcatac aagggtgaaa gagttgtcct
1621 atgggacgac tatgggatga gcaaccccat acacgatgcc ctcaggttgc aggaacttgc
1681 tgacacttgc cccctcacgc taaactgtga caggattgag aacaaaggaa aagtctttga
1741 cagtgatgcc ataatcatca ccaccaatct ggccaaccca gcaccactgg attacgtcaa
1801 ttttgaagcg tgctcgaggc gcattgattt cctcgtgtac gcggaggctc ctgaagtaga
1861 gaaggcaaaa cgcgacttcc caggccaacc tgacatgtgg aagaacgctt ttagttccga
1921 cttctcacac ataaaactgg cactggcccc acagggtggt tttgataaga acggcaacac
1981 cccgcatgga aaaggtgtca tgaagaccct caccactggc tctcttatcg ctcgagcgtc
2041 agggctgctc catgagaggc tagatgaata tgagctacaa ggcccagccc tcactacttt
2101 caactttgac cgcaacaaga tacttgcttt tagacagctt gctgctgaaa acaagtatgg
2161 gctgatggac acaatgagag ttggaaaaca gctcaaggat gttaagacca tgccagacct
2221 caaacaagca ctcaagaatg tcgcgatcaa gagatgccag atagtgtaca atggtaacac
2281 ctacacactc gaggccgacg gcaggggtag tgtgaaagtt gacaaagtgc agagtgccac
2341 tgtgcaaacc aacaatgagc tagccggcgc cctacaccat ctaaggtgcg ccagaatcag
2401 atactatgtt aagtgtgtcc aggaggcact gtattccatc atccaaatcg ctggggctgc
2461 gtttgtcacc acgcgcatcg ccaagcgcat gaacatacaa aatctctggt ccaagccaca
2521 ggtggaagac atagaagaga cggccagtaa agatggttgc ccaaaaccca aagatgatga
2581 agagttcgtt gtttcatccg acgacgtcaa aatcgagggt aagaagggga agaacaagtc
2641 cggccgtggc aaaaagcaca cagccttctc aagtaaaggg ctcagtgatg aggagtacga
2701 tgagtacaag agaatcaggg aagaaaggaa cggtaagtac tccatagaag agtacctcca
2761 ggacagagac aagtactatg aggaggtggc cattgccagg gcaactgagg aggacttttg
2821 tgaagaagaa gaggccaaaa tccggcagag aattttcaga ccaacaagga aacaacgcaa
2881 agaagaaagg gcctctctag gcttggtcac gggctcagaa atcaggaaga gaaacccaga
2941 agacttcaag cccaagggaa agctgtgggc tgatgatgac agaagtgttg actacaacga
3001 gaaactcaac tttgaggccc cgccaagcat ctggtcgagg atagtcaact ttggttcagg
3061 ttggggcttc tgggtctccc ccagtttgtt cataacatca acccatgtca taccccaggg
3121 tgcgaaagag ttcttcggag tccccatcaa acaaatccag atacacaaat caggtgaatt
3181 ctgccgattg agattcccaa gaccaatcag aactgatgtg acgggcatga ttctggaaga
3241 aggtgcgcca gaaggaaccg tggccacact gctcatcaag agaccaactg gggagcttat
3301 gcctttggca gccaggatgg gaacccatgc gaccatgaag attcaggggc gcacagttgg
3361 aggacagatg ggtatgctct tgacaggatc caacgccaag agtatggact tgggcacaac
3421 accaggcgat tgcggttgtc cctatatcta caaaagaggg aatgactatg tggtcatagg
3481 agtccataca gcagctgccc gtggaggtaa cactgtcatc tgtgccaccc agggtagtga
3541 gggagaagcc acacttgaag gaggtgacaa caaaggaacg tactgtggtg caccaatctt
3601 gggcccaggg agtgctccga aactcagcac caagactaag ttttggagat catccacaac
3661 gccactccca ccaggcacct acgagccagc ctacctcggt ggcaaggatc ccagagtcaa
3721 aggtggtcct tcattgcaac aaattatgag ggaccaacta aagccattca cagaacccag
3781 aggaaaacca ccaagaccaa atgtgttgga agctgccaag aaaaccatca ttaatgttct
3841 tgagcaaaca attgacccac cccaaaaatg gtcattcgcg caagcttgcg catcccttga
3901 caaaaccacc tccagcggcc atccgcacca tatgcggaaa aacgattgct ggaatgggga
3961 gtccttcacg ggaaaattgg cagatcaggc ctccaaggcc aacctaatgt ttgaagaggg
4021 aaagaacatg accccggtct acactggtgc acttaaagat gaactggtga agactgataa
4081 aatttatggc aaaatcaaga agaggctcct gtggggctca gacctagcga ctatgatacg
4141 gtgcgcccgg gcttttggag gccttatgga tgaactcaag gcgcactgtg tcacccttcc
4201 tgtcagagtt ggtatgaaca tgaatgaaga tggccccata atctttgaaa agcactccag
4261 atataggtat cattatgatg ctgattactc cagatgggac tcaacacagc aaagggatgt
4321 gctagcagca gcactagaaa tcatggttaa gttctcccca gaaccgcact tggcccagat
4381 agttgcagaa gacctccttt cccctagtgt aatggatgtg ggtgactttc agatatcaat
4441 aagtgaagga ctcccctccg gggtgccttg cacctcccaa tggaattcca ttgcccactg
4501 gctcctcacc ctttgtgcac tctctgaagt cacagacctg tcccctgaca tcatccaggc
4561 caactccctt ttctccttct atggtgatga cgagattgtg agcacagaca taaagttgga
4621 cccagaaaag ctgacagcaa aactcaagga gtacggatta aagccaaccc gtcccgacaa
4681 aactgaagga cccctcgtta tctctgaaga cctggatggc ctgacgttcc ttcggaggac
4741 tgtgacccgc gacccagctg gctggtttgg aaagttggaa caaagctcaa tccttaggca
4801 aatgtactgg accaggggtc ccaaccatga agatccattt gaaacaatga taccacactc
4861 ccaaaggccc atacaattga tgtccttgct aggtgaggct gcgctccacg gcccggcatt
4921 ttacagcaaa attagcaaat tggtcattgc agaattgaag gaaggtggta tggattttta
4981 cgtgcccaga caagagccaa tgtttagatg gatgagattc tcagatctga gcacgtggga
5041 gggcgatcgc aatctggctc ccagttttgt gaatgaagat ggcgtcgagt gacgccaacc
5101 catctgatgg gtccgcagcc aacctcgtcc cagaggtcaa caatgaggtt atggctctgg
5161 agcccgttgt tggtgccgct attgcggcac ctgtagcggg ccaacaaaat ataattgacc
5221 cctggattag aaacaatttt gtgcaagccc ctggtggaga gttcacagta tcccctagaa
5281 acgctccagg tgaaatactg tggagtgcgc ccttaggccc tgatttaaat ccctacctat
5341 cccatttggc cagaatgtac aatggttatg caggtggctt tgaagtgcag gtaatcctcg
5401 cggggaacgc gttcaccgcc gggaaggtca tatttgcagc agtaccacca aactttccaa
5461 ctgaaggctt gagtcccagc caggttacta tgttccccca tatagtagta gatgttaggc
5521 agcttgaacc tgtgttgatt cctttacccg atgttaggaa taatttctac cattataatc
5581 aatcaaatga tcctactatt aagctgatag caatgttgta tacaccactt agggctaata
5641 acgctgggga cgatgtcttc acagtctctt gtcgggtcct cacgagaccg tcccccgatt
5701 ttgatttcat atttctagtg ccacccacag ttgagtcaag aactaagcca ttctctgtcc
5761 cagttttaac tgttgaggag atgaccaatt caagattccc cattcctctg gagaagttgt
5821 tcacgggtcc cagcagtgcc tttgttgttc aaccacaaaa cggcaggtgc acgactgatg
5881 gcgtgctcct aggcaccacc caattgtccc ctgtcaacat ctgcaccttc agaggggatg
5941 tcacccatat cacaggtagt cgcaacttca gaatgaattt ggcctctcaa aattggaaca
6001 attatgaccc aacagaagaa atcccagccc ctctaggaac cccagatttt gtagggaaga
6061 ttcaaggtat gctcacccaa accacaaggg cagatggctc aacacgtggc cataaagcta
6121 cagtgtacac tgggagcgcc gactttgctc caaaactagg cacagttcaa tttgagactg
6181 acacagacca tgattttgaa gctaaccaaa acacaaagtt caccccagtc ggtgtcatcc
6241 aggacggtag caccacccac cgaaatgaac cccaacaatg ggtgctccca agttactcag
6301 gcaggaatac tcataatgtg cacctggccc ccgctgtggc ccccactttt ccgggtgagc
6361 aacttctctt cttcaggtcc accatgcccg gttgcagcgg gtatcccaac atggatttgg
6421 attgtctgct cccccaggaa tgggtgcagt acttctacca agaggcagcc ccagcacaat
6481 ctgatgtggc tctgttaaga tttgtgaatc cagacacagg gagggttttg tttgaatgta
6541 agctccataa atcaggctat gttacagtgg ctcacactgg ccaacatgat ttggtcattc
6601 cccctaatgg ttattttagg tttgattcct gggtcaacca gttctacacg cttgccccca
6661 tgggaaatgg aacggggcgt agacgtgtgt tataatggct ggagctttct ttgctggatt
6721 ggcttctgat gtcctcggct ccgggcttgg ttcccttatc aatgctggcg ctggggccat
6781 caaccaaaaa gttgaatttg aaaacaacag aaaactgcaa caagcatcct tccaatttag
6841 tagtaattta caacaggctt cctttcaaca tgataaagaa atgctccagg cacaaattga
6901 ggccaccaaa aagctacaac aggaaatgat gaaagttaag caggcagtgc tcctagaggg
6961 tggattctct gagacagatg cggcccgtgg ggcaatcaac gcccctatga caaaaactct
7021 agactggagc gggacaaggt actgggctcc cgatgctagg actacaacat acaatgcagg
7081 ccgcttttcc acccctcagc catcggtggc actgccagga agagctaatc ttagggatgc
7141 tgcccctgct cggggttcct ctagtaaatc ttctaattat tctactgcta cttctgtgta
7201 ctcaaatcaa accacttcaa cgagacttgg ttctacagct ggttctggca ccagtgtctc
7261 gagcttcccg tcaactgcaa ggactaggag ctgggttgag gatcaaagca ggaatttgtc
7321 accttttatg aggggggccc acaacatatc atttgtcacc ccaccatcta gcagatcctc
7381 tagccaaggc acagtctcaa ccgtgcctaa agagattttg gactcctgga ctggcgcttt
7441 caacacgcgc aggcagcctc tcttcgccca cattcgtaga cgaggggagt cacgggtgta
7501 atgtgaaaag acaaattgat tacctttctt ttctttcttt agtgtctttt aaaaaaaaaa
7561 aaaaa
//