Typing tool
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Typing tool
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Complete norovirus genomes
| OR536455 | GII.14 | |
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| GII.P7 |
ORF1: 4..5097
ORF2: 5078..6688
ORF3: 6688..7482
LOCUS OR536455 7515 bp RNA linear VRL 04-MAR-2024
DEFINITION Norovirus GII isolate Hu/NL/2020/GII.14/Rotterdam/I89S20_P18-d1156
nonstructural polyprotein (ORF1), VP1 (ORF2), and VP2 (ORF3) genes,
complete cds.
ACCESSION OR536455
VERSION OR536455.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7515)
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JOURNAL Unpublished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 7515)
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..7515
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="Hu/NL/2020/GII.14/Rotterdam/I89S20_P18-d1156"
/isolation_source="feaces"
/host="Homo sapiens"
/db_xref="taxon:122929"
/country="Netherlands: Rotterdam"
/collection_date="06-Feb-2020"
/note="genotype: GII.14"
gene 4..5097
/gene="ORF1"
CDS 4..5097
/gene="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="WMX17743.1"
/translation="MKMASNDATTAFGSQNSVNDSTNTAPSNKEEVGAFSNIKVGLKK
MLGAVPKSTKAPSSDQQCPTVKIGPRTLVVPPEPPNGEDIVQFDAKSETVSGLPDLTT
VQNEHENTPYTVPPLSEREHRPAAEPLPGTILEMWDGEFYHYSIYVSDGKTLGVHKPP
AAISLATIELTPISLYWRPVYTPNYLVCPDTLKGLAGEKFPYTAFSNNCYNFCCWVLE
LNDTWLSRRSISRTSGFFKPYQTWNRKPLPTVDDGKIKKVANAILCALGSLFSKPIKD
LLGKLKPLNLLHLLASCDWTFAGIVETVILMAELFNVFWTPPDVSNFIASLIGDFELQ
GPEDLAVELVPVVMGGIGMVLGFTAEKIGRMLSSAASTLRACKDLGNYALDILKLVMK
WFFPKKEEKAEMETLRAIEDAVLDMEAIGNNHLTTLLKDKDSLAAFMKTLDLEEEKAR
KLSTKSSSPDIVGTINAILARIAAARSLLHRAKEEMFSRIRPVVVMISGRPGIGKTHM
ARHLAKSIASTMSGDQRVGLVPRNGVDHWDAYKGERVVLWDDYGMGSPVKDALTLQEL
ADTCPVTLNCDRIENKGKMFDSDVIIITTNLVNPAPLDYVNFEACSRRVDFLVYAESP
EIEKVKRDFPGQPDMWKDYFKPDFSHIKLTLAPQGGFDKNGNTPHGKGTMRSLTQGSL
TARVAGLVHERRDEFQLQGSDLQVYNFDTNRVSAFRKLAADNKYGIVETMKVGAALKN
VKTLEDLKVALRDVKFNECEIIYRSSKYRVSSNGKGSVSVDKVEDHASQTANEVSSAL
LRLRQARARYYLSCFQDLVYTLIQVAGASFVVNRISKRFCWERWVKPTETQETFESEK
ETAQSRWEIEPKDTEPEGKKGKNKKGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKY
SIEEYLQDRDRYYEEVAVARATEEDFCEEEEAKIRQRVFRPTRKQRKEERGVLGLVTG
SDIRKRKPDDFQPKGNLWADDTRSVDYNERLDFEAPPSVWSRIVPLGTGWGFWVSSNL
LITTTHVLPRGLKELFGVEVKQIQIHKSGEFCRFRFPRPIRPDVTGLVLEEGAPEGTV
CSILVKRPTGEMIPLAVRMGTHASMRIQGRTVGGQMGMLLTGANAKNMDLGTGPGDCG
CPYIYKRGNDIVVAGVHTAAARGGNTVICATQGQDGEAVLEGNENLGTYCGAPILGPG
KAPKLSTKTKFWRSSPDALPPGTYEPAYLGGKDPRVEKGPSLQQVMRDQLKPFTEPRG
KPPRPAILEEAKKTVMNVLEQTIDPAKPWTYSQACASLDKTTSSGSPHHVRKNDHWNG
ESFTGPLADQASKANLMYEQAKHVQPVYTAALKDELVKTDKIYKKIKKRLLWGSDLGT
MVRCARAFGGLMDSMKASCIALPCRVGMNMNEDGPIIFDKHSKYRFHYDADYSRWDST
QQRSVLTAAMEVMVRFSAEPELAQVVAEDLLAPSQLDVGDFVVSVQEGLPSGVPCTSQ
WNSIAHWILTLSAMAEVSGLSPDVVQAHSCFSFYGDDEIVSTDINLDPAKLTQKLREY
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="WMX17744.1"
/translation="MKMASNDATPSDDGAAGLVPEINNEVMALEPVAGASIAAPVVGQ
QNVIDPWIRNNFVQAPAGEFTVSPRNSPGELLLDLELGPELNPYLSHLSRMYNGHAGG
MEVQIVLAGNAFTAGKILFAAIPPSFPYENLSPAQLTMCPHVIVDVRQLEPVLLPMPD
IRNVFYHYNQNNSPKLRLVAMLYTPLRANNSGDDVFTVSCRVLTRPSPDFQFTFLVPP
TVESKTKNFTLPVLRVSEMTNSRFPAVLDQMYTSRSENIIVQPQNGRCTTDGELLGTT
TLQSVSICNFRGTMQAKLNEQPRYQLQITNLDGSPIDPTDDMPAPLGTPDFQATLYGV
ASQRSPRDNATRAHEAQIDTAGDTFAPKIGQVRFQSGSDDFDLHDPTKFTPIGIKVDD
QHPFRQWSLPNYGGHLALNNHLAPAVTPLFPGEQILFFRSHIPSAGGFADGAMDCLLP
QEWIEHFYQEAAPAQSDIALVRFINPDTGRVLLEAKLHKQGFLTVAASGDHPIVMPAN
GYFRFEAWVNPFYTLAPVGTGSGRRRIQ"
gene 6688..7482
/gene="ORF3"
CDS 6688..7482
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="WMX17745.1"
/translation="MAGAFLAGLAGDVAASSLSSLVGAGANAINQKVEYDFNRQLQEA
SFKHDKDMLRAQVAATTGLQQAMIDIKREALTAGGFSPADAARGSVKAPMTKLLDWNG
SRHWAPNSMRTTGYSGTFTSQGIKSSPHLSNQTPSAVKPTKTLPSISSSSSVYSSPST
APSQSTQSTALSAGTGSSRPNTVSTKTSTLSRTSDWVRDQNQMIGPFMNGALQTAYVT
PPSSRASSQGTVSTVPKAVLDSWTPMFNTHRQPLFAHLRRRGESQT"
ORIGIN
1 tgaatgaaga tggcgtctaa cgacgctacc actgcctttg gcagccaaaa ctctgtcaat
61 gacagtacta acaccgcccc ttccaataaa gaagaggttg gtgcattctc caacattaaa
121 gttggactta agaaaatgct gggtgccgtg cccaagagca ccaaagcgcc cagcagtgac
181 caacaatgcc ccacagtcaa gattggaccc agaacattag tggtcccgcc tgaaccacca
241 aatggagaag atatcgtgca gtttgatgca aagtcagaaa ctgtgagtgg gttaccagat
301 ctgacaacgg tgcagaatga acatgaaaac accccataca cagtccctcc actgagtgag
361 agggaacaca gaccagccgc tgagccactc cctggcacaa tactagagat gtgggacggt
421 gagttctacc actactccat ctatgtcagt gatggtaaga ccctgggggt ccacaaaccc
481 cctgcggcta taagccttgc aacaatcgag ttaaccccca tatctctgta ctggcggcct
541 gtctacaccc ctaattactt ggtttgtcca gacacattga agggtcttgc tggtgagaag
601 ttcccctaca cggctttcag taacaactgt tacaacttct gctgctgggt gctggagctc
661 aacgacacgt ggcttagcag aaggtccata tctagaacct ctggcttctt taaaccgtac
721 cagacctgga acagaaagcc tctcccaact gtcgatgatg gaaagattaa gaaggtggcc
781 aatgcaattc tctgtgcgct tggttcgcta ttttcaaaac caatcaaaga cctattaggc
841 aagctcaaac cactgaatct gctgcacctg ctcgcttcat gtgattggac gtttgcgggt
901 atagtggaga cggtcatctt aatggcggaa ctctttaacg tcttctggac cccgcctgac
961 gtctccaatt tcatagcctc cctgataggt gactttgagt tacaggggcc tgaggacttg
1021 gctgtggaac tagtccctgt ggttatgggt ggcataggca tggttcttgg cttcacggct
1081 gagaagatag gccgcatgtt gtcatctgct gcatcaactc tccgggcgtg caaagatctg
1141 ggaaactacg ccctcgacat acttaaactg gtcatgaaat ggttcttccc taagaaagaa
1201 gaaaaagctg agatggaaac cttaagggcg attgaggatg ctgtcttgga catggaggct
1261 ataggaaaca atcacctcac aactcttctt aaagacaagg atagcctcgc agccttcatg
1321 aagaccctag atctagaaga ggaaaaagcg aggaagctgt cgaccaaatc atcgtcacct
1381 gacatcgtcg gcaccatcaa cgccatactg gctagaattg ccgctgccag gtccctccta
1441 cacagggcca aagaagagat gttcagcaga atcagaccag tggttgttat gatctcaggc
1501 aggcctggca ttggcaagac ccacatggca agacacctgg ccaagagcat cgctagcacc
1561 atgagtggtg accagagagt cgggctcgtt ccgcggaacg gagtagacca ctgggacgca
1621 tacaaagggg agagagtggt cttgtgggat gactatggca tgggcagtcc tgtcaaagat
1681 gctctaaccc tgcaagaatt ggccgacacc tgcccagtca ccttaaattg tgacaggatt
1741 gaaaacaaag ggaagatgtt tgacagtgat gtcatcataa tcacaactaa cttggtcaac
1801 cccgcacccc tcgactacgt gaactttgag gcgtgctcca gaagagttga tttcctagtc
1861 tatgcagaat caccagaaat tgaaaaggtc aagagggatt tccctggtca acctgacatg
1921 tggaaagact acttcaagcc agacttctcc catataaaac tgaccctagc cccccagggt
1981 gggtttgata agaatggtaa cactccgcat ggcaagggca ccatgcgatc tctaactcaa
2041 ggttctttaa ctgcaagagt tgcagggtta gtccatgaga ggagagatga gttccagctc
2101 caaggaagtg acctccaagt atacaatttt gacaccaaca gggtctctgc gtttaggaaa
2161 ctggctgcag acaacaagta tggaatcgtg gagacaatga aagtgggcgc tgcactcaag
2221 aatgtcaaaa ccttggaaga tctaaaggtt gctttgaggg atgtgaaatt caatgagtgt
2281 gagatcattt acaggagttc taaatataga gtctcttcca atggcaaggg ttcagtttct
2341 gttgacaagg ttgaggacca cgcatcccag accgcaaatg aagtgagttc agcactcctg
2401 aggctcaggc aagcaagggc cagatattat ctcagctgct tccaggacct tgtctacacg
2461 ctcatacaag tcgccggggc gtcatttgtt gtcaacagaa tctccaagag gttttgctgg
2521 gaaagatggg ttaaaccaac cgagactcag gagacatttg agtccgagaa ggagaccgct
2581 caaagcaggt gggagattga acccaaagac acagaaccag aaggcaagaa gggtaaaaac
2641 aagaagggaa gaggcaagaa gcacacagcc ttctccagca agggtctgag tgatgaagaa
2701 tatgatgagt acaagagaat cagggaggaa agaaatggaa agtactccat tgaggagtac
2761 ctacaagacc gggaccgata ctacgaagaa gtggcagtcg cccgagcaac agaggaagat
2821 ttctgtgaag aggaggaggc caagatcaga cagagggttt tccgcccaac gaggaaacaa
2881 aggaaagagg agagaggagt gctcggcctg gtcaccggct cagacattag aaagagaaaa
2941 ccagatgact ttcaaccaaa aggcaacttg tgggcagatg acaccagaag tgtggactat
3001 aatgagagac ttgactttga agctccccca agtgtttggt ctaggatagt cccattggga
3061 actggttggg gattctgggt ctcatccaat ctcctgatca ctacaacaca cgtcctgccc
3121 aggggactca aagaactctt cggagttgag gttaaacaaa ttcagatcca caaatctggc
3181 gagttttgta gattcagatt cccaagacca atcaggccag atgtcacagg gttggtgcta
3241 gaagagggtg ctccagaagg cactgtttgc tccatacttg tgaagagacc cacaggagag
3301 atgatcccct tggcggtgag gatgggcact catgcatcca tgagaatcca gggcaggacc
3361 gtcggcggcc aaatgggaat gcttctcaca ggagcgaatg ccaagaacat ggaccttggc
3421 accggccctg gtgattgcgg ttgtccctac atctacaaac gcggcaatga catagttgtt
3481 gcaggcgtcc ataccgcagc agcccgggga ggtaacactg tcatctgtgc tacccaagga
3541 caagatgggg aggcagtgct tgaagggaac gaaaatcttg gcacttactg tggtgccccg
3601 atcctaggtc ctggcaaggc acccaagctc agcacaaaaa ccaaattctg gcgctcatca
3661 ccagacgcct taccacctgg cacatatgaa cctgcttacc taggaggcaa ggaccctaga
3721 gtggagaaag ggccctccct gcagcaggtc atgagagacc agctaaaacc cttcacagag
3781 cctaggggta aaccaccgag acctgcgatc ctagaagagg ctaagaagac agtgatgaat
3841 gttttggaac agaccatcga ccctgctaaa ccttggacct actctcaagc atgtgcatca
3901 ctagataaaa ccacctccag tggcagcccc caccatgtta ggaagaatga ccactggaat
3961 ggagagtctt tcacaggtcc ccttgcagac caggcatcta aagctaacct catgtatgaa
4021 caggccaaac atgtgcagcc cgtgtacacg gccgcactca aggatgaact tgttaagact
4081 gataaaatct acaaaaagat aaagaagaga ctcctgtggg gatcagacct tggcacgatg
4141 gtcaggtgcg ccagggcttt tggtggcctc atggatagca tgaaggcgag ctgcatagct
4201 cttccttgta gggtggggat gaacatgaat gaggatggtc caatcatctt tgacaagcac
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 taactttaag tgcaatggca gaagtgtcag gcctttcacc agatgttgtc
4561 caggctcatt cctgtttctc cttctatggc gatgatgaga ttgtcagcac tgatatcaac
4621 cttgaccctg caaaactgac acagaaactc agggaatacg gccttgtccc cacccggcct
4681 gacaagactg agggtcccct tgtcataact gagaacctag ccggtctgac tttcctccgc
4741 aggtcgatag cacgggatcc agctgggtgg tttggaaaac tggaccaaga ctcaattctc
4801 agacaattgt actggacaag agggcctaac catgaaaacc catatgaaag catggtcccc
4861 cactcccaac gagctacaca gcttatggcc 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 gttgctgggg cctccattgc agcccctgtg gtcgggcaac agaatgtaat
5221 agatccctgg attagaaata actttgtaca agcccctgct ggtgaattca cagtttcccc
5281 tagaaactct cctggagaac tcttacttga tttagaattg ggccctgaac tgaatcccta
5341 tctttcacac 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 agaactttac
5761 ccttcctgtc cttagggtct cagagatgac aaactcaagg ttccccgctg ttttggacca
5821 aatgtacaca agcaggagtg aaaacatcat tgtccaaccc caaaacggca ggtgcacgac
5881 tgacggtgag ctgctcggca ccaccacctt gcaatctgtg tctatatgca attttagagg
5941 aacaatgcag gcaaagctga atgaacaacc acgataccaa ttacaaatca ccaatttgga
6001 tggctcaccc atagacccaa cagatgacat gcctgccccc cttggcacac cagattttca
6061 ggccacgttg tatggcgttg caagtcaacg ctcccccaga gacaacgcca 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 aggctttgca 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 ttcaataatg gcaggagctt tccttgcagg cctggcaggt
6721 gacgttgcgg cttctagttt gagctcactt gtgggcgctg gagccaacgc catcaatcag
6781 aaggtggagt atgacttcaa cagacaactc caggaggctt ccttcaaaca tgataaggat
6841 atgctcagag cccaggttgc agcaacaaca ggcctccaac aggccatgat agacatcaag
6901 cgggaggcat tgaccgcagg cggcttttcc cccgctgatg ctgcaagagg ttcagtcaag
6961 gcgcccatga caaaactcct tgattggaat ggctctaggc attgggcacc caactccatg
7021 aggacaactg gctattcagg cacatttact tcccagggca tcaaaagttc 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 agatcaaaat cagatgattg gcccgttcat gaatggtgca
7321 cttcaaactg cttatgtcac tccaccatcg agcagggcct catcacaagg gacggtctcg
7381 accgtaccca aggctgtttt ggactcctgg actcctatgt tcaacaccca caggcagcct
7441 ctcttcgccc acttgcgtag gcgaggggag tcacagactt agtgaaaagg atgattaggg
7501 cttttcttcc ctttc
//