Typing tool
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Typing tool
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Complete norovirus genomes
| OR536458 | GII.14 | |
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| GII.P7 |
ORF1: 1..5085
ORF2: 5066..6676
ORF3: 6676..7470
LOCUS OR536458 7489 bp RNA linear VRL 04-MAR-2024
DEFINITION Norovirus GII isolate Hu/NL/2020/GII.14/Rotterdam/I78S28_P18-d1273
nonstructural polyprotein (ORF1) gene, partial cds; and VP1 (ORF2)
and VP2 (ORF3) genes, complete cds.
ACCESSION OR536458
VERSION OR536458.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7489)
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JOURNAL Unpublished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 7489)
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..7489
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="Hu/NL/2020/GII.14/Rotterdam/I78S28_P18-d1273"
/isolation_source="feaces"
/host="Homo sapiens"
/db_xref="taxon:122929"
/country="Netherlands: Rotterdam"
/collection_date="02-Jun-2020"
/note="genotype: GII.14"
gene <1..5085
/gene="ORF1"
CDS <1..5085
/gene="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="WMX17752.1"
/translation="ASNDATTAFGSQNSVNDSTNTAPSNKEEVGAFSNFKVGFKKMLG
AVPKSTKAPSSDQQCPTVKIGPRTLVVPPEPPNGEDIVQFDVKSETVSGLPDLTTVQN
EHENTPYTVPPLSEREHRPAAEPLPGTILEMWDGEFYHYSIYVGGGKTLGVHKPPAAI
SLATIELTPISLYWRPVYTPNYLICPDTLKGLAGERFPYTAFSNNCYNFCCWVLELND
TWLSRKSISRTTGFFKPYQTWNRKPLPTVDDGKIKKVANAILCALGSLFSKPIKDLLG
KLKPLNLLHLLASCDWTFAGIVETVILMAELFNVFWTPPDVSNFIASLIGDFELQGPE
DLAVELVPVVMGGIGMVLGFTAEKIGRMLSSAASTLRACKDLGNYALDILKLVMKWFF
PKKEEKAEMETLRAIEDAVLDMEAIGNNHLTTLLKDKDSLAAFMKTLDLEEEKARKLS
TKSSSPDIVGTINAILARIAAARSLLHRAKEEMFSRIRPVVVMISGRPGIGKTHMARH
LAKSIASTMSGDQRVGLVPRNGVDHWDAYRGERVVLWDDYGMASPVKDALTLQELADT
CPVTLNCDRIENKGKMFDSDVIIITTNLANPAPLDYVNFEACSRRVDFLVYAESPEIE
KVKRDFPGQPDMWKDHFKPDHSHIKLTLAPQGGFDKNGNTPHGKGTMRSLTQGSLTAR
VAGLVHERRDEFQLQGNDLQVYNFDTNKVSAFRKLAADNKYGIMETMKVGAALKNVKT
LEDLKVALRDVKFNECEIIYRSSKYRVSSNGKGSVSVDKVEDHASQTANEVCSALLRL
RQARARYYLSCFQDLVYTLIQVAGASFVVNRISKRFCWERWVKPTETQETFESEKETA
QSRWEIEPKDTEPEGKKGKNKKGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKYSIE
EYLQDRDRYYEEVAVARATEEDFCEEEEAKIRQRVFRPTRKQRKEERGVLGLVTGSDI
RKRKPDDFQPKGNLWADDTRSVDYNERLDFEAPPSVWSRIVPLGTGWGFWVSSNLLIT
TTHVLPRGLKELFGVEVKQIQIHKSGEFCRFRFPRPIRPDVTGLVLEEGAPEGTVCSI
LVKRPTGEMIPLAVRMGTHASMKIQGRTVGGQMGMLLTGANAKNMDLGTGPGDCGCPY
IYKRGNDIVVAGVHTAAARGGNTVICATQGQDGEAVLEGNENLGTYCGAPILGPGKAP
KLSTKTKFWRSSPDALPPGTYEPAYLGGKDPRVEKGPSLQQVMRDQLKPFTEPRGKPP
RPAILEEAKKTVMNVLEQTIDPAKPWTYSQACASLDKTTSSGSPHHVRKNDHWNGESF
TGPLADQASKANLMYEQAKHVQPVYTAALKDELVKTDKIYKKIKKRLLWGSDLGTMIR
CARAFGGLMDSMKASCIALPCRVGMNMNEDGPIIFDKHSKYRYHYDADYSRWDSTQQR
SVLTAAMEVMVRFSAEPELAQVVAEDLLAPSQLDVGDFVVSVQEGLPSGVPCTSQWNS
IAHWILTLSAMAEVTGLSPDVVQAHSCFSFYGDDEIVSTDINLDPAKLTQKLREYGLV
PTRPDKTEGPLVITENLAGLTFLRRSIARDPAGWFGKLDQDSILRQLYWTRGPNHENP
YESMVPHSQRATQLMALLGEASLHGPQFYKKVSKMVINEIKSGGLEFYVPRQEAMFRW
MRFSDLSTWEGDRNLAPEGVNEDGVE"
mat_peptide <1..993
/gene="ORF1"
/product="p48"
mat_peptide 994..2091
/gene="ORF1"
/product="NTPase"
mat_peptide 2092..2610
/gene="ORF1"
/product="p22"
mat_peptide 2611..3009
/gene="ORF1"
/product="VPg"
mat_peptide 3010..3552
/gene="ORF1"
/product="Pro"
mat_peptide 3553..5082
/gene="ORF1"
/product="RdRp"
gene 5066..6676
/gene="ORF2"
CDS 5066..6676
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="WMX17753.1"
/translation="MKMASNDATPSDDGAAGLVPEINNEVMALEPVAGASIAAPVTGQ
QNIIDPWIRNNFVQAPAGEFTVSPRNSPGELLLDLELGPELNPYLSHLSRMYNGHAGG
MEVQIVLAGNAFTAGKILFAAIPPSFPYENLSPAQLTMCPHVIVDVRQLEPVLLPMPD
IRNVFYHYNQNNSPKLRLVAMLYTPLRANNSGDDVFTVSCRVLTRPSPDFQFTFLVPP
TVESKTKNFTLPVLRVSEMTNSRFPVVLDQMYTSRSENIIVQPQNGRCTTDGELLGTT
TLQSVSICNFRGTMQAKLNGQPRYQLQITNLDGSPIDPTDDMPAPLGTPDFQAMLYGI
ASQRSPRNNATRAHEAQIDTAGDTFAPKIGQVRFESGSDDFDLHDPTKFTPIGIKVDD
EHPFRQWSLPNYGGHLALNNHLAPAVTPLFPGEQILFFRSHIPSAGGFADGAMDCLLP
QEWIEHFYQEAAPAQSDIALVRFINPDTGRVLLEAKLHKQGFLTVAASGDHPIVMPAN
GYFRFEAWVNPFYTLAPVGTGSGRRRIQ"
gene 6676..7470
/gene="ORF3"
CDS 6676..7470
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="WMX17754.1"
/translation="MAGAFLAGLAGDVAASSLSSLVGAGANAINQKVEYDFNRQLQEA
SFKHDKDMLRAQVAATTGLQQAMIDIKREALTAGGFSPADAARGSVKAPMTTLLDWNG
SRHWAPNSMRTTGYSGTFTSQGIKSSPHLSNQTPSAVKPTKTLPSISSSSSVYSSPST
APSQSTQSTALSAGTGSSRPNTVSTKTSTLSRTSDWVRDQNQMIGPFMNGALQTAYVT
PPSSRASSQGTVSTVPKAVLDSWTPMFNTHRQPLFAHLRRRGESQT"
ORIGIN
1 gcgtctaacg acgctaccac tgcctttggc agccaaaact ctgtcaatga cagtactaac
61 accgcccctt ccaataaaga agaggttggt gcattctcca actttaaagt tggatttaag
121 aaaatgctgg gtgccgtgcc caagagcacc aaagcgccca gcagtgacca acaatgcccc
181 acagtcaaga ttggacccag aacattagtg gtcccgcctg aaccaccaaa tggagaagat
241 atcgtgcagt ttgatgtaaa gtcagaaact gtgagtgggc taccagacct gacaacggtg
301 caaaatgaac atgaaaacac cccatataca gtccctccac tgagtgagag ggaacacaga
361 ccagccgctg agccactccc tggcacaata ttagagatgt gggacggtga gttctaccac
421 tactccatct atgtcggtgg tggtaagacc ctgggggtcc acaaaccccc tgcggctata
481 agccttgcaa caatcgagtt aacccccata tctctgtact ggcggcctgt ctacacccct
541 aattacttga tttgtccaga cacattgaag ggtcttgctg gtgagaggtt cccctacacg
601 gctttcagta acaactgtta caacttctgc tgctgggtgc tggagctcaa cgacacgtgg
661 cttagcagaa agtccatatc tagaactact ggcttcttta aaccgtacca gacttggaac
721 agaaagcctc tcccaactgt cgatgatgga aagattaaga aagtggccaa tgcaattctc
781 tgtgcgcttg gttcgctatt ttcaaaacca atcaaagacc tattaggcaa gctcaaacca
841 ctgaatctgc tgcacctgct cgcttcgtgt gattggacgt ttgcgggtat agtggagacg
901 gtcatcttaa tggcggaact ctttaacgtc ttctggaccc cgcctgacgt ctccaatttc
961 atagcctccc tgataggtga ctttgagtta caagggcctg aggacttggc tgtggaacta
1021 gtccctgtgg ttatgggtgg cataggcatg gttcttggct tcacggctga gaagataggc
1081 cgcatgttgt catctgctgc atcaactctc cgggcgtgca aagatctggg aaactacgcc
1141 cttgacatac ttaaactggt catgaaatgg ttcttcccca agaaagagga aaaagctgag
1201 atggaaacct taagggcgat tgaggatgct gtcttggaca tggaggctat agggaacaat
1261 cacctcacaa ctcttcttaa agacaaggac agcctcgcag ccttcatgaa gaccctagat
1321 ctagaagagg aaaaagcgag gaagctgtcg accaaatcat cgtcacctga catcgtcggc
1381 accatcaacg ccatactggc tagaattgcc gctgccaggt ccctcctaca cagggccaaa
1441 gaggagatgt tcagcagaat cagaccagtg gttgttatga tctcaggcag gcctggcatt
1501 ggcaagaccc acatggcaag acacctggcc aagagcatcg ctagcaccat gagtggtgac
1561 cagagagtcg gactcgttcc gcggaacgga gtagaccact gggatgcata cagaggggag
1621 agagtggtct tgtgggatga ctatggcatg gccagtcctg tcaaagatgc tttaaccctg
1681 caagaattgg ccgacacttg cccagtcacc ttaaattgtg acaggattga aaacaaaggg
1741 aaaatgtttg acagtgatgt catcataatc acaaccaact tggccaaccc cgcacccctc
1801 gactatgtga actttgaggc gtgctccaga agagttgatt tcctggtcta tgcagaatca
1861 ccagaaattg aaaaggtcaa gagggatttc cctggccaac ctgacatgtg gaaagaccac
1921 ttcaagccag accactccca cataaaactg accctagccc cccagggtgg gtttgacaag
1981 aatggtaaca ctccgcatgg caagggcacc atgcgatctc taacccaagg ttctttaact
2041 gcaagggttg cagggttagt ccatgagagg agagatgagt tccagctcca aggaaatgac
2101 ctccaagtat acaattttga caccaacaag gtctctgcgt ttaggaaact ggctgcagac
2161 aacaaatatg gaatcatgga gacaatgaag gtgggcgctg cgctcaagaa tgtcaaaacc
2221 ttggaagatc taaaggttgc tttgagggat gtgaaattca atgagtgtga gatcatttac
2281 aggagttcta aatatagagt ctcttccaat ggcaagggtt cagtttctgt tgacaaggtt
2341 gaggaccacg catcccagac cgcaaatgaa gtgtgttcag cactcctgag gctcaggcaa
2401 gcaagggcca gatattatct cagctgcttc caggaccttg tctacacgct catacaagtc
2461 gccggggcgt catttgttgt caacagaatc tccaagaggt tttgctggga aagatgggtt
2521 aaaccaaccg agactcagga gacatttgag tccgagaagg agaccgctca aagcaggtgg
2581 gagattgaac ccaaagacac agaaccagaa ggcaagaagg gtaaaaacaa gaagggaaga
2641 ggcaagaagc acacagcctt ctccagcaag ggtctgagtg atgaagagta tgatgagtac
2701 aagagaatca gggaggaaag aaatggaaag tactccattg aggagtacct acaagaccgg
2761 gaccgatact acgaagaagt ggcagtcgcc cgagcaacag aggaagactt ctgtgaagag
2821 gaggaggcca agatcaggca gagggttttc cgcccaacga ggaaacaaag gaaagaggag
2881 agaggagtgc tcggcctggt caccggctca gacattagaa agagaaaacc agatgacttt
2941 caaccaaaag gcaacttgtg ggcagatgac accagaagtg tggactataa tgagagactt
3001 gattttgaag ctcccccaag tgtttggtct aggatagtcc cattgggaac tggttggggg
3061 ttctgggtct cgtccaatct cctgatcact acaacacatg tcctgcccag gggactcaaa
3121 gaactcttcg gagttgaggt taaacaaatt cagatccaca agtctggcga gttttgtaga
3181 ttcagattcc caagaccaat caggccagat gtcacagggt tggtgctaga agagggtgct
3241 ccagaaggca ctgtttgctc catacttgtg aagagaccca caggagagat gattcccttg
3301 gcggtgagga tgggcactca tgcatccatg aaaatccagg gcaggaccgt cggcggccaa
3361 atgggaatgc ttctcacagg agcaaatgcc aagaacatgg accttggcac cggccctggt
3421 gattgcggtt gtccctacat ctataaacgc ggcaatgaca tagttgttgc aggcgtccat
3481 accgcagcag cccggggagg taacactgtc atctgtgcta cccaaggaca agatggggag
3541 gcagtgcttg aagggaacga aaatcttggc acttactgtg gtgccccgat cctaggtcct
3601 ggcaaggcac ccaagctcag cacaaaaacc aaattctggc gctcatcgcc agacgcctta
3661 ccacctggca catatgaacc tgcttaccta ggaggcaagg accctagagt ggagaaaggg
3721 ccctccctgc agcaggtcat gagagaccag ctaaaaccct tcacagagcc tagaggtaaa
3781 ccaccgagac ctgcgatcct agaagaggct aagaagacag tgatgaatgt tttggaacag
3841 accatcgacc ctgctaaacc ttggacctac tctcaagcgt gtgcatcact agataaaacc
3901 acctccagtg gcagccccca ccatgttagg aagaatgacc actggaatgg agagtctttc
3961 acaggtcccc ttgcagacca agcatctaaa gctaacctca tgtatgaaca ggccaaacat
4021 gtgcagcccg tgtacacggc cgcactcaag gatgaacttg ttaagactga taaaatctac
4081 aaaaagataa agaagagact cctttgggga tcagaccttg gcacgatgat caggtgcgcc
4141 agggcttttg gtggcctcat ggatagcatg aaggcgagct gcatagcact tccttgtagg
4201 gtggggatga acatgaatga ggatggtcca atcatctttg acaagcactc caagtacaga
4261 taccattatg atgctgacta ttcaaggtgg gactcaaccc aacaaaggag tgtcctaact
4321 gccgctatgg aggtgatggt tcggttctct gcagaaccag agctagcaca agtagtagca
4381 gaggatctct tggcacctag tcaactggat gttggtgatt ttgtcgtctc agtccaggag
4441 ggtctaccat cgggtgttcc atgcacatca caatggaact cgatagcgca ctggattcta
4501 accttaagtg caatggcaga agtgacaggc ctttcaccag atgttgtcca ggctcattcc
4561 tgtttctcct tctatggcga tgatgagatt gtcagcactg acatcaacct tgaccctgca
4621 aagctgacac agaaactcag ggaatacggc cttgtcccca cccggcctga caagactgag
4681 ggtccccttg tcataactga gaacctagcc ggtctgactt tcctccgcag gtcgatagca
4741 cgggatccag ctgggtggtt tggaaaactg gaccaagact caattctcag acaactgtac
4801 tggacaagag ggcctaacca tgaaaaccca tacgaaagca tggtccccca ctcccaacga
4861 gctacacagc ttatggccct ccttggtgag gcctcactac atgggcccca gttttacaag
4921 aaggttagca aaatggtcat caatgagatc aaaagtggtg gtctggaatt ttacgtgccc
4981 agacaagagg ccatgttcag gtggatgaga ttctctgacc tcagcacgtg ggagggcgat
5041 cgcaatcttg ctcccgaggg tgtgaatgaa gatggcgtcg aatgacgcta ctccatctga
5101 tgatggtgca gccggcctcg taccagagat caacaatgag gttatggctc ttgaacccgt
5161 tgctggggcc tccattgcag cccctgtgac cgggcaacag aatataatag atccctggat
5221 tagaaataac tttgtacaag cccctgctgg tgaattcaca gtttccccta gaaactctcc
5281 tggagaactc ttacttgatt tagaattggg ccctgaactg aatccctatc tttcacacct
5341 gtccaggatg tacaatgggc atgcaggggg aatggaagtg cagatagtac tggctgggaa
5401 tgcgttcaca gctggtaaga tcctatttgc cgccatccca cctagcttcc cctatgaaaa
5461 tttgtcacct gctcaattga ctatgtgtcc ccatgtaata gtggatgtga gacaactaga
5521 accagtgctt ctgccaatgc cagacataag aaatgttttc tatcactata accaaaacaa
5581 tagtcccaaa ctcaggcttg tagctatgct ttacactcct ttgagagcta acaactcagg
5641 tgatgacgtg ttcacggtgt cttgccgcgt tttgacacgt ccctctccag acttccagtt
5701 cacctttctg gtcccaccca cagttgaatc taaaactaag aactttaccc tccctgtcct
5761 tagggtctca gagatgacaa actcaaggtt ccctgttgtt ttggatcaaa tgtacacaag
5821 caggagtgaa aacatcattg tccaacccca aaacggcagg tgcacgactg acggtgagct
5881 gctcggcacc accaccttgc aatctgtgtc tatatgcaat tttagaggaa caatgcaggc
5941 aaagctgaat ggacaaccac gataccaatt acaaatcacc aatttggatg gctcacccat
6001 agacccaaca gatgacatgc ctgcccccct tggcacacca gattttcagg ccatgttgta
6061 tggcattgca agtcaacgct cccccagaaa caacgccact agggcacatg aagcacagat
6121 tgacactgcg ggtgacactt tcgccccgaa aattggccag gtccgcttcg aatcaggctc
6181 tgatgatttt gacctacatg accctacaaa gtttacaccc attggtatca aagtggatga
6241 tgagcacccc tttagacagt ggtccctgcc aaactatggt ggtcacctcg ctctgaataa
6301 tcatttagcc cctgctgtga caccactctt ccccggcgag cagattttgt tcttcaggtc
6361 acacattcca agcgccggag gctttgcaga cggtgctatg gactgcttgc tgccccaaga
6421 gtggatagag cacttctacc aggaggcagc tcctgcccag tctgacatcg cactggtgag
6481 gttcatcaac cccgatacag gaagagtgct ccttgaagct aagttgcaca aacagggctt
6541 ccttacagtt gcagcatctg gagaccaccc cattgtgatg cccgctaatg gttattttag
6601 gtttgaagct tgggtcaacc ccttctacac tctcgccccc gtgggaactg ggtctgggcg
6661 cagaaggatt caataatggc aggagctttc cttgcaggtc tggcaggtga cgttgcggct
6721 tctagtttga gctcactcgt gggcgctgga gccaacgcca tcaatcagaa ggtggagtac
6781 gacttcaaca gacaactcca ggaggcttcc ttcaaacatg ataaggatat gctcagagcc
6841 caggttgcag caacaacagg cctccaacag gccatgatag acatcaagcg ggaggcattg
6901 accgcaggcg gcttttcccc cgctgatgct gcaagaggtt cagtcaaggc gcccatgaca
6961 acactccttg attggaatgg ctctaggcat tgggcaccca actccatgag gacaactggc
7021 tattcaggca catttacttc ccagggcatc aaaagctccc cccacctgtc taatcaaact
7081 ccaagtgctg tcaaacccac taaaaccttg ccatctatat ctagttcttc tagtgtgtat
7141 agctctcctt ctactgcccc ctcgcaatca acacaatcaa ctgcgctgtc tgcaggaaca
7201 gggtcgtcca ggcctaacac cgtgtccaca aagacctcca cactgtcgag gacaagtgac
7261 tgggtcagag atcaaaatca gatgattggc ccgttcatga atggtgcact tcaaactgct
7321 tatgtcactc caccatcgag cagggcctca tcacaaggga cggtctcgac cgtacccaag
7381 gctgttttgg actcctggac tcctatgttc aacacccaca ggcagcctct cttcgcccac
7441 ttgcgtaggc gaggggagtc acagacttag tgaaaaggat gattagggc
//