Typing tool
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Typing tool
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Complete norovirus genomes
| OR536459 | GII.14 | |
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| GII.P7 |
ORF1: 1..4922
ORF2: 4903..6513
ORF3: 6513..7307
LOCUS OR536459 7326 bp RNA linear VRL 04-MAR-2024
DEFINITION Norovirus GII isolate Hu/NL/2020/GII.14/Rotterdam/I78S23_P18-d1462
nonstructural polyprotein (ORF1) gene, partial cds; and VP1 (ORF2)
and VP2 (ORF3) genes, complete cds.
ACCESSION OR536459
VERSION OR536459.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7326)
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JOURNAL Unpublished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 7326)
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..7326
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="Hu/NL/2020/GII.14/Rotterdam/I78S23_P18-d1462"
/isolation_source="feaces"
/host="Homo sapiens"
/db_xref="taxon:122929"
/country="Netherlands: Rotterdam"
/collection_date="08-Dec-2020"
/note="genotype: GII.14"
gene <1..4922
/gene="ORF1"
CDS <1..4922
/gene="ORF1"
/codon_start=3
/product="nonstructural polyprotein"
/protein_id="WMX17755.1"
/translation="DQQCPTVKIGPRTLVVPPEPPNGEDIVQFDAKSETVSGLPDLTT
VQNEHENTPYTVPPLSEREHRPAAEPLPGTILEMWDGEFYHYSIYVGGGKTLGVHKPP
AAISLATIELTPISLYWRPVYTPNYLICPDTLKGLAGERFPYTAFSNNCYNFCCWVLE
LNDTWLSRKSISRTTGFFKPYQTWNRKPLPTFDDGKIKKVANAILCALGSLFSKPIKD
LLGKLKPLNLLHLLASCDWTFAGIVETVILMAELFNVFWTPPDVSNFIASLIGDFELQ
GPEDLAVELVPVVMGGIGMVLGFTAEKIGRMLSSAASTLRACKDLGNYALDILKLVMK
WFFPKKEEKAEMETLRAIEDAILDMEAIGNNHLTTLLKDKDSLAAFMKTLDLEEEKAR
KLSTKSSSPDIVGTINAILARIAAARSLLHRAKEEMYSRIRPVVVMISGRPGIGKTHM
ARHLAKSIANTMSGDQRVGLVPRNGVDHWDAYRGERVVLWDDYGMASPVKDALTLQEL
ADTCPVTLNCDRIENKGKMFDSDVIIITTNLANPAPLDYVNFEACSRRVDFLVYAESP
EIEKVKRDFPGQPDMWKDHFKPDHSHIKLTLAPQGGFDKNGNTPHGKGTMRSLTQGSL
TARVAGLVHERRDEFQLQGNDLQVYNFDTNKVSAFRKLAADNKYGIMETMKVGAALKN
VKTLEDLKAALRDVKFNECEIIYRSSKYRVSSNGKGSVSVDKVEDHASQTANEVCSAL
LRLRQARARYYLSCFQDLVYTLIQVAGASFVVNRISKRFCWERWVKPTETQETFESEK
ETAQSRWEIEPKDTEPEGKKGKNKKGRGKKHTAFSSKGLSDEEYDEYKRIREERDGKY
SIEEYLQDRDRYYEEVAVARATEENFCEEEEAKIRQRVFRPTRKQRKEERGVLGLVTG
SDIRKRKPDDFQPKGNLWADDTRSVDYNERLDFEAPPSVWSRIVPLGTGWGFWVSSNL
LITTTHVLPRGLKELFGVEVKQIQIHKSGEFCRFRFPRPIRPDVTGLVLEEGAPEGTV
CSILVKRPTGEMIPLAVRMGTHASMRIQGRTVGGQMGMLLTGANAKNMDLGTGPGDCG
CPYIYKRGNDIVVAGVHTAAARGGNTVICATQGQDGEAVLEGNENLGTYCGAPILGPG
KAPKLSTKTKFWRSSPDALPPGTYEPAYLGGKDPRVEKGPSLQQVMRDQLKPFTEPRG
KPPRPAILEEAKKTVMNVLEQTIDPAKPWTYSQACASLDKTTSSGSPHHVRKNDHWNG
ESFTGPLADQASKANLMYEQAKHVQPVYTAALKDELVKTDKIYKKIKKRLLWGSDLGT
MIRCARAFGGLMDSMKASCIALPCRVGMNMNEDGPIIFDKHSKYKYHYDADYSRWDST
QQRSVLTAAMEVMVRFSAEPELAQVVAEDLLAPSQLDVGDFVVSVQEGLPSGVPCTSQ
WNSIAHWILTLSAMAEVSGLSPDVVQAHSCFSFYGDDEIVSTDINIDPAKLTQKLREY
GLVPTRPDKTEGPLVITENLAGLTFLRRSIARDPAGWFGKLDQDSILRQLYWTRGPNH
ENPYESMVPHSQRATQLMALLGEASLHGPQFYKKVSKMVINEIKSGGLEFYVPRQEAM
FRWMRFSDLSTWEGDRNLAPEGVNEDGVE"
mat_peptide <1..830
/gene="ORF1"
/product="p48"
mat_peptide 831..1928
/gene="ORF1"
/product="NTPase"
mat_peptide 1929..2447
/gene="ORF1"
/product="p22"
mat_peptide 2448..2846
/gene="ORF1"
/product="VPg"
mat_peptide 2847..3389
/gene="ORF1"
/product="Pro"
mat_peptide 3390..4919
/gene="ORF1"
/product="RdRp"
gene 4903..6513
/gene="ORF2"
CDS 4903..6513
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="WMX17756.1"
/translation="MKMASNDATPSDDGAAGLVPEINNEVMALEPVAGASIAAPVTGQ
QNIIDPWIRNNFVQAPAGEFTVSPRNSPGELLLDLELGPELNPYLAHLSRMYNGHAGG
MEVQIVLAGNAFTAGKILFAAIPPSFPYENLSPAQLTMCPHVIVDVRQLEPVLLPMPD
IRNVFYHYNQNTSPKLKLVAMLYTPLRANNSGDDVFTVSCRVLTRPSPDFQFTFLVPP
TVESKTKNFTLPVLRVSEMTNSRFPVVLDQMYTSRSENIIVQPQNGRCTIDGELLGTT
TLQSVSICNFRGTMQAKLNGQPRYQLQITNLDGSPIDPTDDMPAPLGTPDFQAMLFGV
ASQRSPRNNATRAHEAQIDTAGDTFAPKIGQVRFESGSDDFDLHDPTKFTPIGIKVDD
EHPFRQWSLPNYGGHLALNNHLAPAVTPLFPGEQILFFRSHIPSAGGFVDGAMDCLLP
QEWIEHFYQEAAPAQSDIALVRFINPDTGRVLLEAKLHKQGFLTVAASGDHPIVMPAN
GYFRFEAWVNPFYTLAPVGTGSGRRRIQ"
gene 6513..7307
/gene="ORF3"
CDS 6513..7307
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="WMX17757.1"
/translation="MAGAFLAGLAGDVAASSLSSLVGAGANAINQKVEYDFNRQLQEA
SFKHDKDMLRAQVAATTGLQQAMIDIKREALTAGGFSPADAARGSVKAPMTTLLDWNG
SRHWAPNSMRTTGYSGTFTSQGIRSSPHLSNQTPSAVKPTKTLPSISSSSSVYSSPST
APSQSTQSTALSAGTGSSRPNTVSTKTSTLSRTSDWVRDQNQMIGPFMNGALQTAYVT
PPSSRASSQGTVSTVPKAVLDSWTPMFNTHRQPLFAHLRRRGESQT"
ORIGIN
1 gtgaccaaca atgccccaca gtcaagattg gacccagaac attagtggtc ccgcctgaac
61 caccaaatgg agaagatatc gtgcagtttg atgcaaagtc agaaactgtg agtgggctac
121 cagacctgac aacggtgcaa aatgaacatg aaaacacccc atatacagtc cctccactga
181 gtgagaggga acacagacca gccgctgagc cactccctgg cacaatatta gagatgtggg
241 acggtgagtt ctaccactac tccatctatg tcggtggtgg taagaccctg ggggtccaca
301 aaccccctgc ggctataagc cttgcaacaa tcgagttaac ccccatatct ctgtactggc
361 ggcctgtcta cacccctaat tacttgatct gtccagacac attgaagggt cttgctggtg
421 agaggttccc ctacacggct ttcagcaaca actgttacaa cttctgctgc tgggtgttgg
481 aactcaacga cacgtggctt agcaggaagt ccatatctag aactactggc ttctttaaac
541 cgtaccagac ttggaacaga aagcctctcc caactttcga tgatggaaag attaagaaag
601 tggccaatgc aattctctgt gcgcttggtt cgctattctc aaaaccaatc aaagacctat
661 taggcaagct caaaccactg aacctgctgc acctgctcgc ttcgtgtgat tggacgtttg
721 cgggtatagt ggagacggtc atcttaatgg cggaactctt taacgtcttc tggaccccgc
781 ctgacgtctc caatttcata gcctccctga taggtgactt tgagttgcaa gggcctgagg
841 acttggctgt ggaactagtc cctgtggtta tgggtggcat aggcatggtt cttggcttca
901 cggctgagaa gataggccgc atgttgtcat ctgctgcatc aactctccgg gcgtgcaaag
961 atctgggaaa ctacgccctt gacatactca aactggtcat gaaatggttc ttccccaaga
1021 aagaggaaaa agctgagatg gaaaccttaa gggcgattga ggatgctatc ttggacatgg
1081 aggctatagg gaacaatcac ctcacaactc ttcttaaaga caaggatagc ctcgcagcct
1141 tcatgaagac cctagatcta gaagaggaaa aagcgaggaa gctgtcgacc aaatcatcgt
1201 cacctgacat cgtcggcacc atcaacgcca tactggctag aattgccgct gccaggtccc
1261 tcctacacag ggccaaagag gagatgtaca gcagaatcag accagtggtt gttatgattt
1321 caggcaggcc tggcattggc aagacccaca tggcaagaca cctggccaag agcatcgcta
1381 acaccatgag tggtgaccag agagtcggac tcgttccgcg gaacggagta gaccactggg
1441 atgcatacag aggggagaga gtggtcttgt gggatgacta tggcatggcc agtcctgtca
1501 aagacgcttt aaccctgcaa gaattggccg acacttgccc agtcacctta aattgtgaca
1561 ggattgaaaa caaagggaaa atgtttgaca gtgatgttat cataatcaca accaacttgg
1621 ccaaccccgc acccctcgac tatgtgaact ttgaggcgtg ctccagaaga gttgatttcc
1681 tggtctatgc agaatcacca gaaattgaaa aagtcaagag ggatttccct ggccaacctg
1741 acatgtggaa agaccacttc aagccagacc actcccacat aaaactgacc ctagcccccc
1801 agggcgggtt tgacaagaat ggtaacactc cgcatggcaa gggcaccatg cgatctctaa
1861 cccaaggttc tttaactgca agggttgcag ggttagtcca tgagaggaga gatgagttcc
1921 agctccaagg aaatgacctc caagtgtaca attttgacac caacaaggtt tctgcgttta
1981 ggaaactggc tgcagacaac aaatatggaa tcatggagac aatgaaggtg ggcgctgcgc
2041 tcaagaatgt caaaaccttg gaagatctga aggctgcttt gagggatgtg aaattcaatg
2101 agtgtgagat catttacagg agttctaaat atagagtctc ttccaatggc aagggttcag
2161 tttctgttga caaggttgag gaccacgcat cccagactgc aaatgaagtg tgttcagcac
2221 tcctgaggct caggcaagca agggccagat attatctcag ctgcttccag gaccttgtct
2281 acacgctcat acaagtcgcc ggggcgtcat ttgttgtcaa cagaatctcc aagaggtttt
2341 gctgggaaag atgggttaaa ccaaccgaga ctcaggagac atttgagtcc gagaaggaga
2401 ccgctcaaag caggtgggag attgaaccca aagacacaga accagaaggc aagaagggta
2461 aaaacaagaa gggaagaggc aagaagcaca cagccttctc cagcaagggt ctgagtgatg
2521 aagagtatga tgagtacaag agaatcaggg aggaaagaga tggaaagtac tccattgagg
2581 agtacctaca agaccgggac cgatactacg aagaagtggc agtcgcccga gcaacagagg
2641 aaaacttctg tgaagaggag gaggccaaga tcaggcagag ggttttccgc ccaacgagga
2701 aacaaaggaa agaggagaga ggagtgctcg gcctggtcac cggctcagac attagaaaga
2761 gaaaaccaga tgacttccaa ccaaaaggca acttgtgggc agatgacacc agaagtgtgg
2821 actacaatga gagacttgat tttgaagctc ccccgagtgt ttggtctagg atagtcccat
2881 tgggaactgg ttgggggttc tgggtctcgt ccaatctcct gatcactaca acacatgtcc
2941 tgcccagggg actcaaagaa ctcttcggag ttgaggttaa acaaattcag atccacaagt
3001 ctggcgagtt ttgtagattc agattcccaa gaccaatcag gccagatgtc acagggttgg
3061 tgctagaaga gggtgctcca gaaggcactg tttgctccat acttgtgaag agacccacag
3121 gagagatgat tcccttggcg gtgaggatgg gcactcatgc atccatgaga atccagggca
3181 ggaccgtcgg cggccaaatg ggaatgcttc tcacaggagc aaatgccaag aacatggacc
3241 ttggcaccgg ccctggtgat tgcggttgtc cctacatcta taaacgcggc aatgacatag
3301 ttgttgcagg tgttcatacc gcagcagccc ggggaggtaa cactgtcatc tgtgctaccc
3361 aaggacaaga tggggaggca gtgcttgaag ggaacgaaaa tcttggcact tactgtggtg
3421 ccccgatcct aggtcctggc aaggcaccca agctcagcac aaaaaccaaa ttctggcgct
3481 catcgccaga cgccctacca cctggcacat atgagcctgc ttacctggga ggcaaggacc
3541 ctagagtgga gaaagggccc tccctgcagc aggtcatgag agaccagcta aaacccttca
3601 cagagcctag aggtaaacca ccgagacctg cgatcctaga agaggctaag aagacagtga
3661 tgaatgtttt ggaacagacc atcgaccctg ctaaaccttg gacctactct caagcatgtg
3721 catcactaga taaaaccacc tccagtggta gcccccacca tgttaggaag aatgaccact
3781 ggaatggaga gtctttcaca ggtccccttg cagaccaggc atctaaagct aacctcatgt
3841 atgaacaggc caaacacgtg cagcccgtgt acacggccgc acttaaggat gaacttgtta
3901 agactgataa aatctacaaa aagataaaga aaagactcct gtggggatca gaccttggca
3961 cgatgatcag gtgcgccagg gcttttggtg gcctcatgga tagcatgaag gcgagctgca
4021 tagcacttcc ttgtagggtg gggatgaaca tgaatgagga tggtccaatc atctttgaca
4081 agcactccaa gtacaaatat cactatgatg ctgactattc aaggtgggac tcaacccaac
4141 aaaggagtgt cctaactgcc gctatggagg tgatggttcg gttctctgca gaaccagagc
4201 tagcacaagt agtagcagag gatctcttgg cacctagtca actggatgtt ggtgattttg
4261 ttgtctcagt ccaggagggt ctgccatcgg gtgttccatg cacatcacaa tggaactcga
4321 tagcgcactg gattctaacc ttaagtgcaa tggcagaagt gtcaggcctt tcaccagatg
4381 ttgtccaggc tcattcctgt ttctccttct atggcgatga tgagattgtc agcaccgata
4441 tcaacattga ccctgcaaaa ttgacacaga aactcaggga atatggcctt gtccccaccc
4501 ggcctgacaa gactgagggt cccctcgtca taactgagaa cctagccggc ctgactttcc
4561 tccgcaggtc gatagcgcgg gatccagctg ggtggtttgg aaaactggac caagactcaa
4621 ttctcagaca actgtactgg acaagagggc ctaaccatga aaacccatac gaaagcatgg
4681 tcccccactc ccaacgagct acacagctca tggccctcct tggtgaggcc tcactacatg
4741 ggccccagtt ttacaagaag gttagcaaaa tggtcatcaa tgagatcaaa agtggtggtc
4801 tggaatttta cgtgcccaga caagaggcca tgttcaggtg gatgagattc tctgacctca
4861 gcacgtggga gggcgatcgc aatcttgctc ccgagggtgt gaatgaagat ggcgtcgaat
4921 gacgctactc catctgatga tggtgcagcc ggcctcgtac cagagatcaa caatgaggtt
4981 atggctcttg aacccgttgc tggggcctcc attgcagccc ctgtgaccgg gcaacagaat
5041 ataatagatc cctggattag aaataacttt gtacaagccc ctgctggtga attcacagtt
5101 tcccctagaa actctcctgg agaactcttg cttgatttag aattgggccc tgaactgaat
5161 ccctatcttg cacacctgtc caggatgtac aatgggcacg cagggggaat ggaagtgcag
5221 atagtactgg ctgggaatgc gttcacagct ggtaagatcc tatttgccgc catcccacct
5281 agctttccct atgaaaattt gtcacctgct caattgacta tgtgtcccca tgtgatagtg
5341 gatgtgagac aattagaacc agtgcttctg ccaatgccag acataagaaa tgttttctat
5401 cattataacc aaaacactag tcccaaactc aagcttgtag ctatgcttta cactcctttg
5461 agagctaaca actcaggtga tgacgtgttc acggtgtctt gccgcgttct gacacgtccc
5521 tctccagact tccagttcac ctttctggtc ccacccacag ttgaatctaa aactaagaac
5581 ttcaccctcc ctgtccttag ggtctcagag atgacaaact caaggttccc cgttgttttg
5641 gatcaaatgt acacaagcag gagtgaaaac atcattgtcc aacctcaaaa cggcaggtgc
5701 acgattgacg gtgaactgct cggcaccacc actttgcaat ctgtgtctat atgtaatttt
5761 agaggaacaa tgcaggcaaa gctgaatgga caaccacgat accaattaca aatcaccaat
5821 ttggatggct cacccataga cccaacagat gacatgcctg ccccccttgg cacaccagat
5881 tttcaggcca tgttgtttgg cgttgcaagt caacgctccc ccagaaacaa cgccactagg
5941 gcacatgaag cacagattga cacagcgggt gacactttcg ccccgaaaat tggccaggtc
6001 cgcttcgaat caggctctga tgattttgac ctacatgacc ctacaaagtt tacacccatt
6061 ggtatcaaag tggatgatga gcaccccttt agacagtggt ccctgccaaa ctatggtggt
6121 cacctcgccc tgaataatca tttagccccc gctgtgacac cactcttccc cggcgagcag
6181 attttgttct tcaggtcaca cattccaagc gccggaggct ttgtagacgg tgccatggac
6241 tgcttgctgc cccaagagtg gatagagcac ttctaccagg aggcagctcc tgcccagtct
6301 gacatcgcac tggtgaggtt catcaacccc gatacaggaa gagtgctcct tgaagccaag
6361 ttgcacaaac agggcttcct tacagttgca gcatctggag accaccccat tgtgatgccc
6421 gctaatggtt attttaggtt tgaagcttgg gtcaacccct tctacactct cgcccccgtg
6481 ggaactgggt ctgggcgcag aaggattcaa taatggcagg agctttcctt gcaggtctgg
6541 caggtgacgt tgcggcttct agtttgagct cactcgtggg cgctggagcc aacgccatca
6601 atcagaaggt ggagtacgac ttcaacagac aactccagga ggcttccttc aaacatgaca
6661 aggatatgct cagagcccag gttgcagcaa caacaggcct ccaacaggcc atgatagata
6721 tcaagcggga ggcattgacc gcaggcggct tttcccccgc tgatgctgca agaggttcag
6781 tcaaggcgcc catgacaaca ctccttgatt ggaatggctc taggcattgg gcacccaact
6841 ccatgaggac aactggctat tcaggcacat ttacttccca gggcatcaga agctcccccc
6901 acctgtctaa tcaaactcca agtgctgtca aacccactaa aaccttgcca tctatatcta
6961 gttcttctag tgtgtatagc tctccttcta ctgccccctc gcaatcaaca caatcaactg
7021 cgctgtctgc aggaacaggg tcgtccaggc ctaacaccgt gtccacaaag acctccacac
7081 tgtcgaggac aagtgactgg gtcagagatc aaaatcagat gattggcccg ttcatgaatg
7141 gtgcacttca aactgcttat gtcactccac catcgagcag ggcctcatca caagggacgg
7201 tctcgaccgt acccaaggct gttttggact cctggactcc tatgttcaac acccacaggc
7261 agcctctctt cgcccacttg cgtaggcgag gggagtcaca gacttagtga aaaggatgat
7321 tagggc
//