Typing tool
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Typing tool
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Complete norovirus genomes
| OR536457 | GII.14 | |
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| GII.P7 |
ORF1: 4..5097
ORF2: 5078..6688
ORF3: 6688..7429
LOCUS OR536457 7429 bp RNA linear VRL 04-MAR-2024
DEFINITION Norovirus GII isolate Hu/NL/2020/GII.14/Rotterdam/I78S30_P18-d1184
nonstructural polyprotein (ORF1) and VP1 (ORF2) genes, complete
cds; and VP2 (ORF3) gene, partial cds.
ACCESSION OR536457
VERSION OR536457.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norovirus norwalkense.
REFERENCE 1 (bases 1 to 7429)
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JOURNAL Unpublished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 7429)
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..7429
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="Hu/NL/2020/GII.14/Rotterdam/I78S30_P18-d1184"
/isolation_source="feaces"
/host="Homo sapiens"
/db_xref="taxon:122929"
/geo_loc_name="Netherlands: Rotterdam"
/collection_date="05-Mar-2020"
/note="genotype: GII.14"
gene 4..5097
/gene="ORF1"
CDS 4..5097
/gene="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="WMX17749.1"
/translation="MKMASNDATTAFGSQNSVNDSTNTAPSNKEEVGAFSNFKVGFKK
MLGAVPKSTKAPSSDQQCPTVKIGPRTLVVPPEPPNGEDIVQFDVKTETVSGLPDLTT
VQNEHENTPYTVPPLSEREHRPAAEPLPGTILEMWDGEFYHYSIYVGGGKTLGVHKPP
AAISLATIELTPISLYWRPVYTPNYLICPDTLKGLAGERFPYTAFSNNCYNFCCWVLE
LNDTWLSRKSISRTTGFFKPYQTWNRKPLPTVDDGKIKKVANAILCALGSLFSKPIKD
LLGKLKPLNLLHLLASCDWTFAGIVETVILMAELFNVFWTPPDVSNFIASLIGDFELQ
GPEDLAVELVPVVMGGIGMVLGFTAEKIGRMLSSAASTLRACKDLGNYALDILKLVMK
WFFPKKEEKAEMETLRAIEDAVLDMEAIGNNHLTTLLKDKDSLAAFMKTLDLEEEKAR
KLSTKSSSPDIVGTINAILARIAAARSLLHRAKEEMFSRIRPVVVMISGRPGIGKTHM
ARHLAKSIASTMSGDQRVGLVPRNGVDHWDAYRGERVVLWDDYGMASPVKDALTLQEL
ADTCPVTLNCDRIENKGKMFDSDVIIITTNLANPAPLDYVNFEACSRRVDFLVYAESP
EIEKVKRDFPGQPDMWKDHFKPDHSHIKLTLAPQGGFDKNGNTPHGKGTMRSLTQGSL
TARVAGLVHERRDEFQLQGNDLQVYNFDTNKVSAFRKLAADNKYGIMETMKVGAALKN
VKTLEDLKVALRDVKFNECEIIYRSSKYRVSSNGKGSVSVDKVEDHASQTANEVSSAL
LRLRQARARYYISCFQDLVYTLIQVAGASFVVNRISKRFCWERWVKPTETQETFEPEK
ETAQSRWEIEPKDAEPEGKKGKNKKGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKY
SIEEYLQDRDRYYEEVAVARATEEDFCEEEEAKIRQRVFRPTRKQRKEERGVLGLVTG
SDIRKRKPDDFQPKGNLWADDTRGVDYNERIDFEAPPSVWSRIVPLGTGWGFWVSSNL
LITTTHVLPRGLKELFGVEVKQIQIHKSGEFCRFRFPRPIRPDVTGLVLEEGAPEGTV
CSILVKRPTGEMIPLAVRMGTHASMKIQGRTVGGQMGMLLTGANAKNMDLGTGPGDCG
CPYIYKRGNDIVVAGVHTAAARGGNTVICATQGQDGEAVLEGNESLGTYCGAPILGPG
KAPKLSTKTKFWRSSPDALPPGTYEPAYLGGKDPRVEKGPSLQQVMRDQLKPFTEPRG
KPPRPAILEEAKKTVMNVLEQTIDPAKPWTYSQACASLDKTTSSGSPHHVRKNDHWNG
ESFTGPLADQASKANLMYEQAKHVQPVYTAALKDELVKTDKIYKKIKKRLLWGSDLGT
MIRCARAFGGLMDSMKASCIALPCRVGMNMNEDGPIIFDKHSKYRFHYDADYSRWDST
QQRSVLTAAMEVMVRFSAEPELAQVVAEDLLAPSQLDVGDFVVSVQEGLPSGVPCTSQ
WNSIAHWILTLSAMAEVSGLSPDVVQAHSCFSFYGDDEIVSTDINIDPAKLTQKLREY
GLVPTRPDKTEGPLVITENLAGLTFLRRSIARDPAGWFGKLDQDSILRQLYWTRGPNH
ENPYESMVPHSQRATQLMALLGEASLHGPQFYKKVSKMVINEIKSGGLEFYVPRQEAM
FRWMRFSDLSTWEGDRNLAPEGVNEDGVE"
mat_peptide 4..1005
/gene="ORF1"
/product="p48"
mat_peptide 1006..2103
/gene="ORF1"
/product="NTPase"
mat_peptide 2104..2622
/gene="ORF1"
/product="p22"
mat_peptide 2623..3021
/gene="ORF1"
/product="VPg"
mat_peptide 3022..3564
/gene="ORF1"
/product="Pro"
mat_peptide 3565..5094
/gene="ORF1"
/product="RdRp"
gene 5078..6688
/gene="ORF2"
CDS 5078..6688
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="WMX17750.1"
/translation="MKMASNDATPSDDGAAGLVPEINNEVMALEPVAGASIAAPVVGQ
QNIIDPWIRNNFVQAPAGEFTVSPRNSPGELLLDLELGPELNPYLAHLSRMYNGHAGG
MEVQIVLAGNAFTAGKILFAAIPPSFPYENLSPAQLTMCPHVIVDVRQLEPVLLPMPD
IRNVFYHYNQNNSPKLRLVAMLYTPLRANNSGDDVFTVSCRVLTRPSPDFQFTFLVPP
TVESKTKNFTLPVLRVSEMTNSRFPVVLDQMYTSRSENIIVQPQNGRCTTDGELLGTT
TLQSVSICNFRGTMQAKLNEQPRYQLQITNLDGTPIDPTDDMPAPLGTPDFQAMLYGV
ASQRSPRDIATRAHEAQIDTAGDTFAPKIGQVRFQSGSDDFDLHDPTKFTPIGIKVDD
QHPFRQWSLPNYGGHLALNNHLAPAVTPLFPGEQILFFRSHIPSAGGFSDGAMDCLLP
QEWIEHFYQEAAPAQSDIALVRFINPDTGRVLLEAKLHKQGFLTVAASGDHPIVMPAN
GYFRFEAWVNPFYTLAPVGTGSGRRRIQ"
gene 6688..>7429
/gene="ORF3"
CDS 6688..>7429
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="WMX17751.1"
/translation="MAGAFLAGLAGDVAASSLSSLVGAGANAINQKVEYDFNRQLQEA
SFKHDKDMLRAQVAATTGLQQAMIDIKREALTAGGFSPADAARGAVKAPMTKLLDWNG
SRHWAPNSMRTTGYSGTFTSQGIRSSPHLSNQTPSAVKPTKTLPSISSSSSVYSSPST
APSQSTQSTALSAGTGSSRPNTVSTKTSTLSRTSDWVRDQNQMIGPFMNGALQTAYVT
PPSSRASSQGTVSTVPKAVLDSWTPMFST"
ORIGIN
1 tgaatgaaga tggcgtctaa cgacgctacc actgcctttg gcagccaaaa ctctgtcaat
61 gacagtacta acaccgcccc ttccaataaa gaagaggttg gtgcattctc caactttaaa
121 gttggattta agaaaatgct gggtgccgtg cccaagagca ccaaagcgcc cagcagtgac
181 caacaatgcc ccacagtcaa gattggaccc agaacattag tggtcccgcc tgaaccacca
241 aatggagaag atatcgtgca gtttgatgta aagacagaaa ctgtgagtgg gctaccagac
301 ctgacaacgg tgcaaaatga acatgaaaac accccatata cagtccctcc actgagtgag
361 agggaacaca gaccagccgc tgagccactc cctggcacaa tattagagat gtgggacggt
421 gagttctacc actactccat ctatgtcggt ggtggtaaga ccctgggggt ccacaaaccc
481 cctgcggcta taagccttgc aacaatcgag ttaaccccca tatctctgta ctggcggcct
541 gtctacaccc ctaattactt gatttgtcca gacacattga agggtcttgc tggtgagagg
601 ttcccctaca cggctttcag taacaactgt tacaacttct gctgctgggt gctggagctc
661 aacgacacgt ggcttagcag aaagtccata tctagaacca ctggcttctt taaaccgtac
721 cagacttgga acagaaagcc tctcccaact gtcgatgatg gaaagattaa gaaggtggcc
781 aatgcaattc tctgtgcgct tggttcgcta ttttcaaaac caatcaaaga cctattaggc
841 aagctcaaac cactgaatct gctgcacctg ctcgcttcgt gtgattggac gtttgcgggt
901 atagtggaga cggtcatctt aatggcggaa ctctttaacg tcttctggac cccgcctgac
961 gtctccaatt tcatagcctc cctgataggt gactttgagt tacaagggcc tgaggacctg
1021 gctgtggaac tagtccctgt ggttatgggt ggcataggca tggttcttgg cttcacggct
1081 gagaagatag gccgcatgtt gtcatctgct gcatcaactc tccgggcgtg caaagatctg
1141 ggaaactacg cccttgacat acttaaactg gtcatgaaat ggttcttccc caagaaagag
1201 gaaaaagctg agatggaaac cttaagggcg attgaggatg ctgtcttgga catggaggct
1261 ataggaaaca atcacctcac aactcttctt aaagataagg atagcctcgc agccttcatg
1321 aagaccctag atctagaaga ggaaaaagcg aggaagctgt cgaccaaatc atcgtcacct
1381 gacatcgtcg gcaccatcaa cgccatactg gctagaattg ccgctgccag gtccctccta
1441 cacagggcca aagaggagat gttcagcaga atcagaccag tggttgttat gatctcaggc
1501 aggcctggca ttggcaagac ccacatggca agacacctgg ccaagagcat cgctagcacc
1561 atgagtggtg accagagagt cggactcgtt ccgcggaacg gagtagacca ctgggatgca
1621 tacagagggg agagagtggt cttgtgggat gactatggca tggccagtcc tgtcaaagat
1681 gctttaaccc tgcaagaatt ggccgacact tgcccagtca ccttaaattg tgacaggatt
1741 gaaaacaaag ggaaaatgtt tgacagtgat gtcatcataa tcacaaccaa cttggccaac
1801 cccgcacccc tcgactatgt gaactttgag gcgtgctcca gaagagttga tttcctggtc
1861 tatgcagaat caccagaaat tgaaaaggtc aagagggatt tccctggtca acctgacatg
1921 tggaaagacc acttcaagcc agaccactcc catataaaac tgaccctagc cccccagggt
1981 gggtttgata agaatggtaa cactccgcat ggcaagggca ccatgcgatc tctaacccaa
2041 ggttctttaa ctgcaagggt tgcagggtta gtccatgaga ggagagatga gttccagctc
2101 caaggaaatg acctccaagt atacaatttt gacaccaaca aggtctctgc gtttaggaaa
2161 ctggctgcag acaacaagta tggaatcatg gagacaatga aggtgggcgc tgcgctcaag
2221 aatgtcaaaa ccttggaaga tctaaaggtt gctttgaggg atgtgaaatt caatgagtgt
2281 gagatcattt acaggagctc taaatataga gtctcttcca atggcaaggg ttcagtttct
2341 gttgacaagg ttgaggacca cgcatcccag accgcaaatg aagtgagttc agcactcctg
2401 aggctcaggc aagcgagggc cagatattac atcagctgct tccaggacct tgtctacacg
2461 ctcatacaag tcgccggggc atcatttgtt gtcaacagaa tctccaagag gttttgctgg
2521 gagagatggg ttaaaccaac cgagactcag gagacatttg agcccgagaa ggagaccgct
2581 caaagcaggt gggagattga acccaaagat gcagaaccag aaggcaagaa gggtaaaaac
2641 aagaagggaa gaggcaagaa gcacacagcc ttctccagca agggtctgag tgatgaagaa
2701 tatgatgagt acaagagaat cagggaggaa aggaatggaa agtactctat tgaggagtac
2761 ctacaagacc gggaccgata ctacgaagaa gtggcagttg cccgagcaac agaggaagat
2821 ttctgtgaag aggaggaggc caagatcaga cagagggttt tccgcccaac gaggaaacaa
2881 aggaaagagg agagaggagt gctcggcctg gtcaccggct cagacattag aaagagaaaa
2941 ccagatgact ttcaaccaaa aggcaacttg tgggcagatg acaccagagg tgtggactat
3001 aatgagagaa ttgactttga agctccccca agtgtttggt ctaggatagt cccattggga
3061 actggttggg gattctgggt ctcatccaat ctcctgatca ctacaacaca tgtcctgcct
3121 aggggactca aagaactctt cggagttgag gttaaacaaa ttcagatcca caaatctggc
3181 gagttttgta gattcagatt cccaagacca atcaggccag atgtcacagg gttggtgcta
3241 gaagagggtg ctccagaagg cactgtttgc tccatacttg taaagagacc cacaggagag
3301 atgatcccct tggcggtgag gatgggcact catgcatcca tgaaaatcca gggcaggacc
3361 gtcggcggcc aaatgggaat gcttctcaca ggagcgaatg ccaagaacat ggaccttggc
3421 accggccctg gtgattgcgg ttgtccctac atctataaac gcggcaatga catagtcgtt
3481 gcaggcgtcc ataccgcagc agcccgggga ggtaacactg tcatctgtgc tacccaagga
3541 caagatgggg aggcagtgct tgaagggaac gaaagtcttg gcacttactg tggtgccccg
3601 atcctaggtc ctggcaaggc acccaagctc agcacaaaaa ccaaattctg gcgctcatcg
3661 ccagacgcct taccacctgg cacatatgaa cctgcttacc taggaggcaa ggaccctaga
3721 gtggagaaag ggccctccct gcagcaggtc atgagagacc agctaaaacc cttcacagag
3781 cctaggggta aaccaccgag acctgcaatc ctagaagagg ctaagaagac agtgatgaat
3841 gttttggaac agaccatcga ccctgctaaa ccttggacct actctcaagc atgtgcatca
3901 ctagataaaa ccacctccag tggcagcccc caccatgtca ggaagaatga ccactggaat
3961 ggagagtctt tcacaggtcc ccttgcagac caagcatcta aagctaacct catgtatgaa
4021 caggccaaac atgtgcagcc cgtgtacacg gccgcactca aggatgaact tgttaagact
4081 gataaaatct acaaaaagat aaagaagaga ctcctgtggg gatcagacct tggcacgatg
4141 atcaggtgcg ccagggcttt tggtggcctc atggacagca tgaaggcgag ctgcatagcc
4201 cttccttgta gggtggggat gaacatgaat gaggatggtc caatcatctt tgacaagcat
4261 tccaagtaca gattccatta tgatgctgac tattcaaggt gggactcaac ccaacaaagg
4321 agtgtcctaa ctgccgctat ggaggtgatg gttcggttct ctgcagaacc agagctagca
4381 caagtagtag cagaggatct cttggcacct agtcaactgg atgttggtga ttttgtcgtc
4441 tcagtccagg agggtctacc atcgggtgtt ccatgcacat cacaatggaa ctcgatagcg
4501 cactggattc taaccttaag tgcaatggca gaagtgtcag gcctttcacc agatgttgtc
4561 caggctcatt cctgtttctc cttctatggc gatgatgaga ttgtcagcac tgatatcaac
4621 attgaccctg caaaattgac acagaaactc agggaatatg gccttgtccc cacccggcct
4681 gacaagactg agggtcccct cgtcataact gagaacctag ccggcctgac tttcctccgc
4741 aggtcgatag cacgggatcc agctgggtgg tttggaaaac tggaccaaga ctcaattctc
4801 agacaactgt actggacaag agggcctaac catgaaaacc catacgaaag catggtcccc
4861 cactcccaac gagctacaca gctcatggcc ctccttggtg aggcctcact acatgggccc
4921 cagttttaca agaaggttag caaaatggtc attaatgaga tcaaaagtgg tggtctggaa
4981 ttttacgtgc ccagacaaga ggccatgttc aggtggatga gattctctga cctcagcacg
5041 tgggagggcg atcgcaatct tgctcccgag ggtgtgaatg aagatggcgt cgaatgacgc
5101 tactccatct gatgatggtg cagccggcct cgtaccagag atcaacaatg aggttatggc
5161 tcttgaaccc gtcgctgggg cctccattgc agcccctgtg gtcgggcaac agaatataat
5221 agatccctgg attagaaata attttgtaca agcccctgct ggtgaattca cagtttcccc
5281 tagaaactct cctggagaac tcttacttga tttggaattg ggccctgaac tgaatcccta
5341 tcttgcacac ctgtccagga tgtacaatgg gcacgcaggg ggaatggaag tgcagatagt
5401 actggctggg aatgcgttca cagctggtaa gatcctattt gctgccatcc cacctagctt
5461 cccctatgaa aatttgtcac ctgctcaatt gactatgtgt ccccatgtaa tagtggatgt
5521 gagacaacta gaaccagtgc ttctgccaat gccagacata agaaatgttt tctatcacta
5581 taaccaaaac aatagtccca aactcaggct tgtagctatg ctttacactc ctttgagagc
5641 taacaactca ggtgatgacg tgttcacggt gtcttgccgc gttttgacac gtccctctcc
5701 agacttccag ttcacctttc tggtcccacc cacagttgaa tctaaaacta agaacttcac
5761 cctccctgtc cttagggtct cagagatgac aaactcaagg ttccccgttg ttttggatca
5821 aatgtacaca agcaggagtg aaaacatcat tgtccaaccc caaaacggca ggtgcacgac
5881 tgacggtgag ctgctcggca ccaccacctt gcaatctgtg tctatatgca attttagagg
5941 aacaatgcag gcaaagctga atgaacaacc acgataccaa ttacaaatca ccaatttgga
6001 tggcacaccc atagacccaa cagatgacat gcctgccccc cttggcacac cagattttca
6061 ggccatgttg tatggcgttg caagtcaacg ctcccccaga gacatcgcca ctagggcaca
6121 tgaagcacag attgacactg cgggtgacac tttcgccccg aaaattggcc aggtccgctt
6181 ccaatcaggc tctgatgatt ttgacctaca tgaccctaca aagttcacac ccattggtat
6241 caaagtggat gatcagcacc cctttagaca gtggtccctg ccaaactacg gtggtcacct
6301 tgccctgaat aatcatttag cccccgctgt gacaccactc ttccccggcg agcagatttt
6361 gttcttcagg tcacacattc caagcgccgg aggcttttcg gacggtgcta tggactgctt
6421 gctgccccaa gagtggatag agcacttcta ccaggaggca gctcctgccc agtctgacat
6481 cgcactggtg aggttcatca accccgatac aggaagagtg ctccttgaag ctaagttgca
6541 caaacagggc ttcctcacag ttgcagcatc tggagaccac cccattgtga tgcccgctaa
6601 tggttatttt aggtttgaag cttgggtcaa ccccttctac actctcgccc ccgtgggaac
6661 tgggtctggg cgcagaagga ttcagtaatg gcaggagctt tccttgcagg tctggcaggt
6721 gacgttgcgg cttctagttt gagctcactc gtgggcgctg gagccaacgc catcaatcag
6781 aaggtggagt atgacttcaa cagacaactc caggaggctt ccttcaaaca tgataaggat
6841 atgctcagag cccaggttgc agcaacaaca ggcctccaac aggccatgat agacatcaag
6901 cgggaggcat tgaccgcagg cggcttttcc cccgctgatg ctgcaagagg tgcagtcaag
6961 gcgcccatga caaaactcct tgattggaat ggctctaggc attgggcacc caactccatg
7021 aggacaactg gctattcagg cacatttact tcccagggca tcagaagttc cccccacctg
7081 tctaatcaaa ctccaagtgc tgtcaaaccc actaaaacct tgccatctat atctagttct
7141 tctagtgtat atagctctcc ttctactgcc ccctcgcaat caacacaatc aacagcgctg
7201 tctgcaggaa cagggtcgtc cagacctaac accgtgtcca caaagacctc cacactgtcg
7261 aggacaagtg actgggtcag ggatcaaaat cagatgattg gcccgttcat gaatggtgca
7321 cttcaaactg cttatgtcac tccaccatcg agcagggcct catcacaagg gacggtctcg
7381 accgtaccca aggctgtttt ggactcctgg actcctatgt tcagcaccc
//