Typing tool
|
|
|
|
|
|
Typing tool
|
Complete norovirus genomes
| OR536493 | GII.3 | |
|
|---|---|---|---|
| GII.P21 |
ORF1: 5..5104
ORF2: 5085..6731
ORF3: 6731..7485
LOCUS OR536493 7485 bp RNA linear VRL 04-MAR-2024
DEFINITION Norovirus GII isolate
Hu/NL/2022/GII.3[P21]/Rotterdam/I129S38_P19-d2288 nonstructural
polyprotein (ORF1) and VP1 (ORF2) genes, complete cds; and VP2
(ORF3) gene, partial cds.
ACCESSION OR536493
VERSION OR536493.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7485)
AUTHORS Izquierdo Lara,R.W., Villabruna,N., Hesselink,D.A.,
Schapendonk,C.M.E., Ribo Pons,S., Meier,J.I.J., Goodfellow,I.,
Dalm,V.A.S.H., Fraaij,P.L.A., van Kampen,J.A., Koopmans,M.P.G. and
de Graaf,M.
TITLE Intra-host multi-lineage evolution of human Norovirus in
immunocompromised individuals: Implications for treatment
JOURNAL Unpublished
REFERENCE 2 (bases 1 to 7485)
AUTHORS Izquierdo Lara,R.W., Villabruna,N., Hesselink,D.A.,
Schapendonk,C.M.E., Ribo Pons,S., Meier,J.I.J., Goodfellow,I.,
Dalm,V.A.S.H., Fraaij,P.L.A., van Kampen,J.A., Koopmans,M.P.G. and
de Graaf,M.
TITLE Direct Submission
JOURNAL Submitted (11-SEP-2023) Viroscience, Erasmus Medical Center, Dr.
Molewaterplein 40, Rotterdam, Zuid-Holland 3015 GD, Netherlands
COMMENT ##Assembly-Data-START##
Assembly Method :: Spades v. 3.15.4; BWA-MEM v. 0.7.17
Sequencing Technology :: Illumina
##Assembly-Data-END##
FEATURES Location/Qualifiers
source 1..7485
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="Hu/NL/2022/GII.3[P21]/Rotterdam/I129S38_P19-
d2288"
/isolation_source="feaces"
/host="Homo sapiens"
/db_xref="taxon:122929"
/country="Netherlands: Rotterdam"
/collection_date="23-Feb-2022"
/note="genotype: GII.3[P21]"
gene 5..5104
/gene="ORF1"
CDS 5..5104
/gene="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="WMX17857.1"
/translation="MKMASNDASAAAAANSINDNAKSSSDGVLSNMAVTFKRALGARP
KQPPPRDKPPKPPRPPTPELVKSIPLPPPNGEDEPIISYNVKQGISGLPELSTVTQPE
ENSTAFSVPPLSQRENRDAKEPLTGTILEMWDGEIYHYGLYVERGLVLGVHKPPAAIS
LAKVELTPLSLYWRPVYTPQYLISPDTLRKLHGETFPYIAFDNNCYAFCCWVLDLNDS
WLSRRMIQRTTGFFRPYQDWNRKPLPTMDDSKVKKVANIILCALASLFTRPIKDIIGK
LKPLNILNILATCDWTFSGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPED
LAVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFP
KKEEKTELEMVRAIEDAVLDLEAIENNHMTTLLKDRDSLATYMKTLDIEEEKARKLST
KSASPDIVGTINSLLARIAAARSLVHRAKEELSSRPRPVVVMISGRPGIGKTHLAREV
AKKIASTLTGDQRVGLIPRNGVDHWDSYRGERIVLWDDYGMSNPIHDALRLQELADTC
PLTLNCDRIENKGKVFDSDVIMITTNLANPAPLDYVNFEACSRRIDFLVYAESPEVEK
AKRDFPGQPDMWKDAFKPDGSHIKLTLAPQGGFDKNGNTPYGKGVMKTLTASSLVARA
SGLLHERLDEYELQGPTPTTFNFDRNKVLAFRQLAAENKYGLVDTMRVGAQLKNVKTM
TELKQALKNISVKKCQLVYGGSTYTLESDGKGNVHVEKVNNTSVQTNNELSGVLHHLR
CARIRYYVKCIQEALYSILQIAGAAFITTRIARRMNIQNLWSKPQAEDLEETNNVEGC
PKPKSDEEFVISSDDIKAEGKKGKNKSGRGKKHTAFSSKGLSDEEYDEFKRIREERNG
KYSIEEYLQDRDKYYEEVAIARATEEDFCEEEEAKIRQRIFRPTKKQRKEERASLGLV
TGAEIRKRNPDDFKPKGKLWADDDRNVDYNEKLSFEAPPSIWSRIVNFGSGWGFWVSP
SLFITSTHVIPQGAQEFFGVSIKQIQIHKSGEFCRLRFPKPIRTDVTGMILEEGAPEG
TVATLLIKRPTGELMPLAARMGTHATMRIQGRTVGGQMGMLLTGSNAKSMDLGTTPGD
CGCPYIYKRGNDYVVIGVHTAAARGGNTVICATQGSEGEAVLEGGDNKGTYCGAPILG
PGNAPKLSTKTKFWRSSTTPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKPFTEP
RGKPPNPSVLEAAKKTIINVLEQTIDPPQKWTYAQACASLDKTTSSGHPHHMRKNDCW
NGETFTGKLADQASKANLMFEEGKNMTPVYTGALKDELVKTDKIYGTIKKRLLWGSDL
STMIRCARAFGGLMDELKAHCVTLPVRVGMNMNEDGPIIFEKHSRYKYHYDADYSRWD
STQQRAVLAAALEIMVKFSPEPHLAQVVAEDLLSPSVMDVGDFKISINEGLPSGVPCT
SQWNSIAHWLLTLCALSEVTDLSPDIIQANSLFSFYGDDEIVSTDIKLDPEKLTTKLK
EYGLKPTRPDKTEGPLIISEDLNGLTFLRRTVTRDPAGWFGKLDQSSILRQMYWTRGP
NHEDPFETMIPHSQRPIQLMSLLGEAALHGPSFYSKISKLVISELKEGGMDFYVPRQE
PMFRWMRFSDLSTWEGDRNLAPNFVNEDGVE"
mat_peptide 5..994
/gene="ORF1"
/product="p48"
mat_peptide 995..2092
/gene="ORF1"
/product="NTPase"
mat_peptide 2093..2629
/gene="ORF1"
/product="p22"
mat_peptide 2630..3028
/gene="ORF1"
/product="VPg"
mat_peptide 3029..3571
/gene="ORF1"
/product="Pro"
mat_peptide 3572..5101
/gene="ORF1"
/product="RdRp"
gene 5085..6731
/gene="ORF2"
CDS 5085..6731
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="WMX17858.1"
/translation="MKMASNDAAPSNDGAAGLVPEINNEAMALEPVAGAALAAPLTGQ
QNIIDPWIMNNFVQAPGGEFTVSPRNSPGEVLLNLELGPEINPFLAHLSRMYNGYAGG
FEVQVILAGNAFTAGKIIFAAIPPHFPIDNLSAAQITMCPHVIVDVRQLEPVNLPLPD
IRNNFFHYNQRSTSRMRLIAMLYTPLRANNSGDDVFTVSCRVLTRPSPDFAFNFLVPP
TVESKTKPFSLPVLTISEMSNSRFPVPIDSLHTSPTDNIVVQCQNGRVTLDGELMGTT
QLQPSQICAFRGVLARPVNRDSDQTDTATPRSFNNHWYIQLDNLNGTPYDPSEDIPGP
LGTPDFRGKIFGVASQRNPDATTRAHEAKINTAAPRFTPKLGSLLISTESGDFDQNQP
TRFTPVGIGVDQEEDFQQWTLPNYAGPLTHNMNLAPAVAPNFPGEQLLFFRSQLPSSG
GRSDGILDCLVPQEWVQHFYQESAPSQSQVALVRYVNPDTGRVLFEAKLHKLGFMTIA
KNGDSPITVPPNGYFRFESWVNPFYTLAPMGTGNGRRRIQ"
gene 6731..>7485
/gene="ORF3"
CDS 6731..>7485
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="WMX17859.1"
/translation="MAGAFVAGLAGDMLTNTVGSLVNAGANVINQTVDFENNKQLQNA
SFNHDKEMLKAQIEATKNLQASMISIKQGVLTAGGFSPTDAARGAINAPMTKVLDWNG
TRHWAPGATSTTSLSGGFTNQTVHRSTPNFKVNQAPKSAPSGGSSVRSNSTQITSLSS
HSSGSSRSSGSTVVSSIPSSNRTRDWVTQQNFNLEPHMPGSLRTAFVTPPSSTASSSG
TVSTVPKNVLDSWTSAFNTRRQPLFAHLRGRGES"
ORIGIN
1 gtgaatgaag atggcgtcta acgacgcttc cgctgccgct gctgcaaaca gcatcaacga
61 caacgcaaaa tcttcaagtg acggagtatt atctaatatg gccgtcacct tcaagcgagc
121 cctcggggcg cggcctaaac agccgccccc gagggacaaa ccaccaaagc ccccaagacc
181 tcccacacca gaattggtta aatcaatccc ccttccccca cccaacggag aggacgaacc
241 aatcatttct tacaacgtca aacagggtat ttctggtttg cctgagctct caactgtcac
301 ccagccggaa gagaactcca cagcatttag cgttccccct ctcagtcaga gggagaacag
361 agatgcaaag gaaccattga ctggaactat cctggagatg tgggatgggg agatctacca
421 ttatggctta tatgtggaac gagggttagt actaggcgtg cacaaaccac cagcagccat
481 cagccttgcc aaggttgagc tgaccccctt gtccttgtac tggaggccag tgtacacccc
541 acagtacctc atttcccctg atactctcag aaagttgcat ggggaaacgt tcccttatat
601 agcctttgac aacaactgtt acgccttctg ctgttgggtg cttgacctga acgattcatg
661 gctgagcaga aggatgatac agaggacaac aggcttcttc cgaccctacc aggactggaa
721 taggaagccc ctccccacaa tggatgactc caaagtgaaa aaggtggcca atattatcct
781 ctgtgctctc gcatcattgt tcacaagacc aattaaggac atcattggga agttgaagcc
841 cttaaacatc ctcaacatcc tagccacgtg tgattggact ttctcgggca tagtagagtc
901 cctgatcctc ttggctgaac tgtttggagt tttctggaca cccccagatg tgtctgcaat
961 gatcgctcct ttactgggtg attatgagct gcagggaccc gaggaccttg ctgtggagct
1021 cgtacccgta gtaatgggag ggataggttt ggtgctggga ttcaccaaag agaaaatcgg
1081 caaaatgctt tcatctgccg cttcaacctt gagggcatgc aaagacctcg gtgcatatgg
1141 gttggagatc ctcaaattgg tcatgaaatg gttcttccca aagaaagaag agaaaaccga
1201 attggaaatg gtgagagcaa tcgaggatgc agtgctagat cttgaggcca ttgagaacaa
1261 ccatatgaca actctactca aggacagaga cagccttgca acctacatga agactcttga
1321 catagaggag gagaaggcga ggaaactctc caccaagtct gcctcgccgg acattgtggg
1381 cacgataaac tccctactgg caaggattgc agctgcccgg tctttagtgc acagggctaa
1441 ggaggagctg tcaagcaggc cccgaccggt cgttgtgatg atctcaggga gaccaggcat
1501 agggaaaacc catctagcta gagaggtggc aaagaagatc gcctccacac tcacaggtga
1561 tcagagggtg ggcctaattc cacgcaacgg ggtcgaccac tgggattcat acagaggtga
1621 aagaatcgtt ctctgggacg actatggaat gagcaacccc atccacgacg ccctcagact
1681 ccaggagctc gctgacacct gtcctctcac actcaactgt gacaggattg agaacaaagg
1741 caaagttttt gacagtgacg tcataatgat aaccaccaat ttggcaaacc cagcgccact
1801 ggactacgtc aactttgaag cgtgctcaag acgcatagac ttcctcgttt atgctgaatc
1861 ccctgaagtt gagaaggcta aacgggactt cccaggccaa ccagacatgt ggaaagatgc
1921 cttcaaacct gacggctcac acataaaatt gacattggcc ccacaagggg gttttgacaa
1981 aaatggcaac actccttatg ggaagggtgt catgaagacc ctcactgcca gctccctcgt
2041 tgcccgagca tcagggctcc tccatgagag gttagacgag tatgagctgc aggggccaac
2101 tcccacgaca ttcaacttcg accgcaacaa ggttctcgct tttaggcaac ttgctgctga
2161 aaacaagtac ggccttgttg acacaatgag ggtcggagca cagctcaaga atgtcaaaac
2221 catgacagaa ctcaagcagg ctctcaagaa catctcagtc aagaaatgcc agcttgtata
2281 tggtgggagc acatacacac ttgaatctga tggtaaaggt aatgtgcatg tcgagaaggt
2341 gaacaacacc agtgtgcaaa ctaacaatga actctccggg gttttgcacc acctaaggtg
2401 tgccaggatc aggtactatg tcaagtgtat ccaggaagct ctctattcca tcctccaaat
2461 tgccggggct gcattcatta ccacgcgcat tgcaaggcgc atgaacatac aaaacctttg
2521 gtccaagcca caagcagaag atttggagga gactaacaac gtggagggtt gtccaaaacc
2581 taaaagtgat gaagaatttg tcatctcctc cgacgacatc aaagccgagg gcaagaaagg
2641 taagaacaag tctggccgtg gcaagaagca cacagccttt tccagcaaag ggcttagtga
2701 tgaggagtac gatgagttca aaagaatcag ggaagagaga aatggcaaat actccataga
2761 ggaataccta caggatagag acaaatacta tgaggaggtg gccatagcta gggcaactga
2821 ggaagacttc tgtgaagaag aagaggcaaa aatccgacaa aggatattta gaccaacaaa
2881 gaaacagcgc aaagaagaaa gagcctctct cggtttggtc acaggtgctg agatcaggaa
2941 gagaaaccca gatgacttca agcccaaagg gaaactatgg gccgatgatg acaggaatgt
3001 tgactataat gagaaactca gtttcgaggc cccaccaagc atttggtcac gaatagtcaa
3061 ctttggctcg gggtggggtt tctgggtctc gcccagcctc ttcataacgt caacccatgt
3121 catcccccaa ggcgcacagg aattctttgg ggtatccatc aagcaaattc aaattcacaa
3181 gtcgggtgag ttctgccggc ttagattccc aaaaccaatc aggacagatg tcacaggcat
3241 gattttggag gaaggtgctc cagaaggcac cgttgccaca cttctcatca agaggccaac
3301 tggggagctc atgcccttgg cagccaggat gggcacccac gcgaccatga gaattcaggg
3361 acgcactgtt ggtggacaga tgggcatgct gctcacaggg tctaacgcta agagcatgga
3421 cttgggcaca acccccggcg attgtggttg tccctatatc tacaaaagag ggaacgacta
3481 cgttgtcatt ggggttcaca cagccgccgc tcgtggagga aacaccgtca tctgtgcaac
3541 ccaaggaagc gagggtgagg ctgtgctaga aggtggtgac aacaagggaa cttactgtgg
3601 agcaccaata ttgggacctg ggaatgcccc caaactcagc accaaaacca aattctggag
3661 gtcttccacc acccccctgc cacccgggac ctatgaacca gcttacctag gtggcaagga
3721 ccctagagtg aagggtggcc cctcactgca acaggttatg agggatcagc taaagccatt
3781 cactgaaccc agaggcaagc caccaaatcc aagtgtgcta gaagctgcta aaaagactat
3841 aatcaatgta cttgagcaaa caatagaccc acctcaaaaa tggacatacg cacaggcgtg
3901 tgcatcatta gataagacca cctccagcgg ccatcctcac cacatgcgga agaacgactg
3961 ctggaatggg gagaccttca caggaaagct ggcagaccaa gcatcaaagg ctaacctaat
4021 gtttgaggaa ggaaagaaca tgaccccagt atacacaggg gccctaaaag atgagctagt
4081 taagactgat aagatctatg ggacaatcaa gaagagactc ctgtggggtt cagacctatc
4141 aaccatgata cggtgtgcac gagccttcgg tgggttgatg gatgaactca aagcccactg
4201 tgtcacacta ccagtcagag ttggcatgaa catgaatgag gatggaccca taatatttga
4261 gaaacattcc agatataaat accattatga tgcagattac tcccgctggg actcaacaca
4321 acaaagagca gtgctggctg cagccctgga aataatggtc aaattctcac cagaacccca
4381 tctggctcaa gtggttgcag aggacctctt gtcccccagt gtgatggatg tgggtgattt
4441 caagatatca atcaacgagg gattaccctc tggtgttccc tgcacctcac aatggaactc
4501 cattgcccac tggctcctca cactatgtgc actgtctgaa gtcacagacc tgtcccctga
4561 catcattcag gcaaattccc tgttctcctt ttatggtgat gatgaaatag tgagcacaga
4621 cattaaattg gatccagaga aattaacaac aaaattgaag gaatacggac tgaaaccaac
4681 ccgccctgac aaaacagaag gacccttgat tatctctgaa gatttgaatg gcctaacatt
4741 cttgcggaga acggtaaccc gtgatccggc cgggtggttt ggcaaactgg accaaagctc
4801 aatactcagg cagatgtact ggaccagggg accaaaccat gaggatccct ttgaaacaat
4861 gataccacac tcccaaagac ccatacaact gatgtcatta ttgggtgaag ctgcgttgca
4921 tggcccgtca ttttacagta aaatcagcaa attggtcatc tcagaattga aagagggtgg
4981 gatggatttt tacgtgccca ggcaagaacc aatgttcagg tggatgagat tttcagactt
5041 gagcacgtgg gagggcgatc gcaatctggc tcccaatttt gtgaatgaag atggcgtcga
5101 atgacgccgc tccatctaac gatggtgccg ccggcctcgt cccagagatc aacaatgagg
5161 caatggcgct agaaccagtg gcgggtgcag cgctagcagc accccttact ggtcagcaaa
5221 atataattga tccctggatt atgaataatt ttgtacaagc acctggtggt gagttcacag
5281 tgtcccctag aaattcccct ggtgaagttc ttctcaattt ggaattaggt ccagaaataa
5341 atcccttttt ggcccatctt tctagaatgt ataatggtta tgcaggtgga tttgaagtgc
5401 aggtgatcct agctggaaat gcgtttacag caggaaagat aatctttgca gctatccccc
5461 cccattttcc aattgacaac ctaagtgcag cacagatcac aatgtgtcca catgtgatcg
5521 tggatgtcag acagctggaa ccagtcaacc tcccgttgcc tgacattcgc aacaacttct
5581 ttcattataa tcaaagatcc acatcaagaa tgcgcttaat tgcaatgtta tatacacctc
5641 ttagggcaaa taattctggg gatgatgttt ttactgtgtc ttgtagagtg ttaactagac
5701 ctagtcctga ctttgcattt aatttccttg tgccacccac tgtggaatca aagacaaaac
5761 ccttttccct tcctgttctg actatctctg aaatgtccaa ttcgaggttc ccagtaccaa
5821 ttgattccct gcacaccagc cctactgata atattgttgt ccagtgtcaa aatgggcgcg
5881 tcacccttga cggtgagttg atgggcacca cccagctcca acctagtcaa atctgtgctt
5941 tcaggggcgt gctcgccaga ccagtaaaca gggacagtga ccagaccgat acagcaaccc
6001 ccagatcgtt caacaaccat tggtacatac aattggataa tctaaatgga actccttatg
6061 atccttcaga agatatacca ggccccttgg gaacaccaga ttttcggggc aaaatctttg
6121 gcgtggccag ccagagaaat cctgatgcta caactagggc acatgaagca aagataaaca
6181 cagcagctcc ccgtttcacc ccgaaattag gttcattatt aatttccact gaatctggag
6241 actttgacca aaatcaacca acaagattca ccccagttgg cattggggtc gaccaggagg
6301 aagactttca acaatggact cttcccaact atgctggccc gctcacccac aacatgaact
6361 tagccccagc tgttgctccc aacttccctg gtgaacaact ccttttcttc cgctcacagt
6421 taccatcttc tggtgggcga tccgatggaa ttctggactg cctagtcccc caagaatggg
6481 tacagcactt ctaccaagaa tcagccccct cccaatctca ggtagccctg gttaggtatg
6541 tcaatcctga cactggtaga gtgttatttg aggccaaact gcacaaattg ggtttcatga
6601 ctatagccaa aaatggtgat tctccaataa cagttcctcc caatggatac tttagatttg
6661 aatcttgggt gaaccccttt tacacacttg cccccatggg aacagggaat gggcgtagaa
6721 ggattcaata atggctgggg cttttgtagc aggattggct ggtgacatgc tcacaaatac
6781 tgttggatct ttagttaatg caggggctaa tgtcattaat caaacagttg attttgaaaa
6841 taataaacaa ttgcaaaatg cttcttttaa tcatgataag gaaatgctga aagcacaaat
6901 tgaggcaaca aagaacttac aggccagcat gatttctatc aaacaagggg ttttgaccgc
6961 tggcggcttt tcccctactg atgcggcccg cggggcaatc aacgccccca tgacaaaagt
7021 cctagattgg aatggcacga gacactgggc accaggtgcc acctccacaa cctcgttgtc
7081 gggtggcttt acaaatcaaa ctgtgcacag gtctacacca aattttaaag tgaatcaggc
7141 ccccaaatcc gcacccagtg gtgggtcttc agtaaggtca aattcaaccc aaatcactag
7201 cttgagctca cactcgtccg ggtcgtctcg gtccagcggg tccacagttg tcagctcaat
7261 accatcctct aacaggacta gggattgggt cacccaacaa aactttaatt tggaaccaca
7321 catgcctggg tctcttagaa cagcttttgt cactccacca tctagtacag cctctagctc
7381 aggcacagtc tcaactgtac ctaaaaatgt tttggactcc tggacatctg cgtttaacac
7441 gcgcagacag ccgctattcg cacaccttcg cggaaggggg gagtc
//