Typing tool
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Typing tool
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Complete norovirus genomes
| OP162334 | GI.3 | |
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| GI.P13 |
ORF1: 1..5402
ORF2: 5386..7020
ORF3: 7020..7667
LOCUS OP162334 7667 bp RNA linear VRL 21-JUN-2023
DEFINITION Norovirus GI isolate RIVM-NOV-2016-0220_R01-03 nonstructural
polyprotein (ORF1) gene, partial cds; and VP1 (ORF2) and VP2 (ORF3)
genes, complete cds.
ACCESSION OP162334
VERSION OP162334.1
KEYWORDS .
SOURCE Norovirus GI
ORGANISM Norovirus GI
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7667)
AUTHORS Schmitz,D., Zwagemaker,F., van der Veer,B., Vennema,H., Bosch,T.,
Laros,J.F., Koopmans,M.P., de Graaf,M. and Kroneman,A.
TITLE Shotgun whole genome sequencing for gastroenteritis surveillance
using Norovirus as a model
JOURNAL Unpublished
REFERENCE 2 (bases 1 to 7667)
AUTHORS Schmitz,D., Zwagemaker,F., van der Veer,B., Vennema,H., Bosch,T.,
Laros,J.F., Koopmans,M.P., de Graaf,M. and Kroneman,A.
TITLE Direct Submission
JOURNAL Submitted (05-AUG-2022) Center for Infectious Diseases,
Rijksinstituut voor Volksgezondheid en Milieu, Antonie van
Leeuwenhoeklaan 9, Bilthoven, Utrecht 3721 MA, Netherlands
COMMENT ##Assembly-Data-START##
Assembly Method :: SPAdes v. v3.11.0
Sequencing Technology :: Illumina
##Assembly-Data-END##
FEATURES Location/Qualifiers
source 1..7667
/organism="Norovirus GI"
/mol_type="genomic RNA"
/isolate="RIVM-NOV-2016-0220_R01-03"
/isolation_source="Human feces"
/host="Homo sapiens"
/db_xref="taxon:122928"
/country="Netherlands"
/collection_date="2016-05-12"
/note="genotype: GI.3[P13]"
gene <1..5402
/gene="ORF1"
CDS <1..5402
/gene="ORF1"
/codon_start=3
/product="nonstructural polyprotein"
/protein_id="UUL90905.1"
/translation="MASNDAIAVADVSNNNANTNNENIGSRLMAKIRGRIGPQRGETT
TKIKDANMALDLLRRSQTPSPCRQTNDSAPKAQRDRPPRTASEVKRALGWDAEPEHQE
STARAWCDLSKEEKEEIIRNNERLFDAGGVTPSTLPSTFERTDSNGVTDEQQPVTWSS
NGGVDLGINELTTVRGPFWNMCPLPPLEARNSGPAKEPLIGDMVEFYEGHIFHYAIYI
GQGKTIGVHSPQAAFSIPRITIHPLVAWWRVCYIPTSQQRLTYEQLKELENEPWPYAS
ITNNCYEFCCKVMALDDTWLQRRLVTSGKFNHPTQDWSQDTPDFHQDSKLEMVRDAVL
SAINGLVSQPFKNILSKIKPLNVLNLLSNCDWTFMGVVELVVLLAELFDVFWTPPDIS
SFIASLLPDFHLQGPEDLARDLVPLILGGIGLAIGFTRDKITKVMKSAVDGLRSATQL
GQYGLEIFSIIKKYFFGGDQTEKTLRGIEDAVIDMEVLSSTNVTQLVKDKKLAKAYMN
VLDNEEEKARKLSVRSADPHIVTSVNNLISRISMARSALAKAQAELTSRPRPVVIMMC
GPPGIGKTKAAEHLAGRLAAEIRPGGKVGLVPRESIDHWDGYHGEDVLLWDDYGMSKI
TEDCNKLQAIADTAPLSLNCDRIENKGMQFSSDAIIITTNAPGPAPVDFVNLGPVCRR
VDFLVYCSAPEIEQTRRAHPGDTNAIKDLFKKDFSHLKMELAPQGGFDSQGNTPFGKG
VMKTTTLNRLLIQATALAMERQDEFQLQGAVYNFDEDRVAAFTSLARANGLGLISMAT
LGKKLRSVKSMEGLRNALLGYKIGECDIIWNTRVYSVKSDGSNVTIKEKQAPSSPQHQ
AISTATLALSRLRAARALAYASCLQSAVLSILQVAGSALVVSRAVKRMFGTRTEQPIL
EGKHKEHNCRVHRAEAAGHGPIGHDGIIERYGLCESEQEGEDDQTVELPTADKEGKNK
GKTKKGRGRKSNFNAFSRRGLSDEEYEEYKKVREEKGGNYSIQEYLEDRQRYEEELAE
VQAGGDGGIGETEAEIRHRVFYKSKSGLRKQRQEERRQLGLVSGTEIRKRKPIDWTPP
KNDWSEDTRTVNYDEHISFEAPPSIWSRVVKFGSGWGFWVSSTVFITTTHVIPPGAKE
IFGENISNIAIHRVGEFTQFRFSKKMRPDLSGMVLEEGCPEGTVCTIMIKRDSGELLP
LAVRMGAVASMKIQGKLMHGQSGMLLTGANAKGMDLGTIPGDCGAPYIHKRGNDWVVC
GVHAAATKSGNTVVCAIQGGEGEATLEGGDQSKGHYAGHPILRYGSGPSLSTKTKFWK
SNPQPLPPGTYEPAYLGGRDPRVEGGPSLQQVLRDQLKPFAEPRGRLPEAGLLEAAVE
TVTNAIEQVMDTPVAWSYGDACMSLDKTTSSGYPHHKRKNDDWNGSSFVRELGDQAAH
ANSMYELGKSMKPVYTAALKDELVKPDKVYNKIKKRLLWGADLGTVIRAARAFGPFCE
AIKPHVIKLPIKVGMNAIEDGPLIYAEHSKYKYHFDADYTAWDSTQNREIMMESFNIM
CKLTANPSLAAVVAQDLLSPSEMDVGDYVISVKDGLPSGFPCTSQVNSINHWIYTLCA
LSEVTGLAPDVIQSQSYFSFYGDDEIVSTDIEFDSNRLTQVLKEYGLKPTRPDKTDGP
IIVRQQVDGLVFLRRTISKDAIGYQGRLDRNSIERQLWWTRGPNHDDPFETLVPHTQR
KVQLISLLGEAALHGEKFYRKIASRVIQEVKEGGLEIYIPGWQAMFRWMRFHDLSLWT
GDRDLLPDYVNDDGV"
mat_peptide <1..1217
/gene="ORF1"
/product="p48"
mat_peptide 1218..2306
/gene="ORF1"
/product="NTPase"
mat_peptide 2307..2906
/gene="ORF1"
/product="p22"
mat_peptide 2907..3326
/gene="ORF1"
/product="VPg"
mat_peptide 3327..3869
/gene="ORF1"
/product="Pro"
mat_peptide 3870..5399
/gene="ORF1"
/product="RdRp"
gene 5386..7020
/gene="ORF2"
CDS 5386..7020
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="UUL90906.1"
/translation="MMMASKDAPTNMDGTSGAGQLVPEANTAEPISMEPVAGAATAAA
TAGQVNMIDPWIMNNYVQAPQGEFTISPNNTPGDILFDLQLGPHLNPFLSHLAQMYNG
WVGNMKVKVLLAGNAFTAGKIIISCIPPGFVSQNISIAQATMFPHVIADVRVLEPIEV
PLEDVRNVLFHNNDNTPTMRLVCMLYTPLRASGSSSGTDPFVIAGRVLTCPSPDFSFL
FLVPPNVEQKTKPFSVPDLPLNVLSNSRVPSLIKFMMVSQDHGQMVQFQNGRVTLDGQ
LQGTTPTSASQLCKMRGTVYHASGGQGLNLTEIDGTPYHAFESPAPIGFPDIGDSDWH
INASPATAFDSGESVKRLDMEQGSSFAPHLGTVHYTNASYEANADLICSLEWLSPPSG
GTPNKVNPWAIPRYGSTLTEAAQLAPPIYPPGFGEAIVFFMSDFPIANGQDGLRVPCT
IPQEFVTHFVNEQAPTRGEAALLHYVDPDTHRNLGEFKLYPEGFMTCVPNSSGSGPQT
LPINGVFTFVSWVSRFYQLKPVGTTGPVRRLGIRRS"
gene 7020..7667
/gene="ORF3"
CDS 7020..7667
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="UUL90907.1"
/translation="MAQAIFGAIAATAAGSAVGAGIQAGTEAALQHQRFQQDLTLQSN
TFKHDKEMLGLQVGASTALLQNSLNTRYNMLTNAGLSSSDAARVVVGAPATRVVDWNG
TRVSAPQSTATTLRSGGFMTIPTLYKGKQQQKAPTEIGLSNPNYSSSVSSRVADWVSS
QNSSRSSLGPYHPSALQTTWVTPPGSSSTSTISSVSTVPRYFNTDRLPLFANMRK"
ORIGIN
1 tgatggcgtc taacgacgct attgccgttg ctgatgtcag caataacaat gctaacacca
61 acaatgaaaa tataggatct cgccttatgg caaagatccg tgggcgcata ggcccacaac
121 gtggtgaaac aaccacaaag atcaaagatg ccaacatggc gctcgacctt ttacgccggt
181 cacaaacacc atctccatgt cggcaaacta atgacagcgc ccccaaggct caaagggacc
241 gtcccccgcg gaccgcttca gaggtaaaaa gggcgcttgg gtgggatgct gaaccagaac
301 accaagaaag cacggctagg gcatggtgtg acctctcaaa agaggagaag gaagagataa
361 tacgtaacaa tgagaggctt tttgatgctg gaggtgtcac tccatcgacc ctgcccagca
421 catttgagag gactgattca aacggtgtca ctgacgagca acaacctgtg acatggtctt
481 ctaatggagg ggttgacctt ggcatcaatg aattgaccac agttcgtggc ccgttttgga
541 atatgtgccc cctcccacca ctagaagccc gcaatagtgg ccctgctaag gaacccctta
601 taggtgacat ggtcgagttc tatgaaggac acatattcca ttatgccatt tacattggac
661 agggcaaaac tattggagtc cactcaccac aggctgcttt ttccataccc agaataacca
721 tccacccact ggtggcatgg tggcgtgtgt gttacatccc cactagccaa caacgcctta
781 cctacgaaca gcttaaggag ttggagaatg aaccatggcc ttatgcctca atcaccaaca
841 actgttatga gttttgctgt aaagtgatgg cacttgatga tacatggctc caaagaagac
901 tggttactag tggaaaattt aaccacccca cacaggactg gtcacaggac accccagatt
961 tccatcagga ttcgaagctt gaaatggtaa gggacgctgt cttgtcggcc atcaacggtc
1021 ttgtatcaca acccttcaag aacatcctgt ctaaaattaa accattgaat gtgcttaatc
1081 ttttatcaaa ctgtgattgg accttcatgg gcgtcgtgga actggtagtg ctcctggcag
1141 aactgtttga tgtgttctgg accccaccag acatttcaag cttcattgca tctttactac
1201 ctgattttca tctacaaggc ccagaggacc tagccaggga cttagtcccc ctcatattag
1261 gtggcatagg cttagcaatt ggttttacaa gagacaaaat aacaaaagtg atgaagagcg
1321 ccgttgatgg actgcggtca gcaacgcagc tcggacaata tggactggag atattctcaa
1381 ttatcaagaa atacttcttt ggaggggacc aaacagaaaa gaccctgcgg ggcattgaag
1441 atgcggtgat agacatggaa gtgttgtcca gtaccaatgt gacgcaactg gtcaaagata
1501 agaagttagc caaagcttac atgaatgtgc tggacaatga ggaggaaaaa gcaaggaagc
1561 tctcagtccg tagtgctgac ccacatatag tgacctctgt caacaacttg atatcacgca
1621 tctctatggc aagatcagct ctggctaaag cccaagctga gttgacgtcc cgcccacgac
1681 cagtggttat aatgatgtgt ggtcctcctg gcatcggaaa gactaaggcc gctgagcacc
1741 tagccggccg actagctgct gaaatcagac ctggaggcaa agttggcctt gtaccccggg
1801 agtccataga ccattgggat ggatatcatg gcgaggacgt cttgctctgg gatgactatg
1861 gcatgtcaaa gataacagag gattgtaata agttacaggc tatagctgat actgcaccac
1921 tgtcacttaa ttgtgacaga atagaaaaca aaggcatgca attctcttct gatgcaataa
1981 ttataaccac caatgcccct ggcccagccc cagttgactt tgtcaactta ggccccgtgt
2041 gcagacgagt ggacttttta gtttactgtt ctgcacccga gattgaacaa acgcgaaggg
2101 ctcatccagg tgacaccaat gccatcaagg atctgtttaa aaaggacttc tcacacttga
2161 aaatggaact ggctccacag ggcggctttg atagtcaggg caacacacct tttgggaagg
2221 gtgtcatgaa aaccacaact ctcaataggc tactgataca ggccacagca ttagccatgg
2281 agcggcaaga tgaattccaa ctccaggggg ctgtctacaa ctttgacgag gatagagtgg
2341 ccgccttcac cagtctagct cgagctaatg gcctggggct tataagtatg gcaacattag
2401 gcaagaagct gagaagtgtt aagtccatgg aaggcttgcg caatgcacta ctgggataca
2461 agattggaga gtgtgatata atctggaaca ccagggtgta ttcagttaag agtgacggga
2521 gcaatgtcac aatcaaagaa aagcaggcac cgtcctcacc ccaacatcaa gctatttcca
2581 cagccaccct ggcgctctct agactgcggg ctgccagagc ccttgcgtac gcttcctgtt
2641 tacaaagtgc agtgttgtca atacttcagg ttgccggctc tgccttagtg gtgagcaggg
2701 ctgtaaaacg catgtttggc acacgcaccg aacagcccat tttggagggt aagcataagg
2761 aacacaactg cagggtacac cgtgcggagg ccgccggtca tggccccatt ggtcatgatg
2821 gaatcattga acgttatggt ctgtgtgaga gtgagcagga aggagaagat gaccaaactg
2881 tggagttgcc cactgctgac aaagaaggca agaacaaagg caaaaccaaa aagggccgcg
2941 gacggaaatc caacttcaat gcattctcta ggcgtggact tagtgatgag gaatacgagg
3001 agtacaagaa agtaagagaa gagaagggtg gcaactacag catacaagag taccttgagg
3061 atcgccagcg ctatgaagaa gaactcgctg aggtgcaagc tggtggagat ggtggaatcg
3121 gcgaaactga agccgagatc cgccaccgtg ttttctataa atcaaagtct ggcttgagaa
3181 aacagcggca agaggaacgc cgccagttag gcctcgtgag cggtactgaa atccgcaaac
3241 gcaaacccat agactggacc ccccccaaaa atgattggtc agaggacact agaactgtta
3301 attatgatga acacatcagc tttgaagccc ctccttcaat ctggagtaga gtagttaaat
3361 ttggcagtgg ctggggtttt tgggtgagtt caacagtgtt catcaccaca acacatgtta
3421 taccacctgg tgctaaagag atctttggtg agaacattag caatattgcc atccatagag
3481 ttggcgaatt cacccaattc cgtttctcca agaaaatgag gcctgacctc tctggcatgg
3541 tcctggaaga gggatgccct gagggcacag tgtgcaccat aatgataaaa agagactctg
3601 gagagctgtt gccgctggct gttcgtatgg gagcagtggc ctcaatgaag atccaaggga
3661 agcttatgca tggacagtca gggatgttgc tcaccggtgc taacgccaag ggtatggacc
3721 ttggtaccat acctggggat tgtggagcgc cctatatcca caagagaggg aatgactggg
3781 tggtttgtgg ggtgcatgca gcagccacga aatcaggcaa taccgtggtg tgcgccatac
3841 aaggtggtga aggtgaagcc acgctagagg gtggcgatca aagtaagggt cattatgcag
3901 gacacccaat actaagatat ggtagtggcc cttcattgtc aactaaaaca aagttttgga
3961 aatcaaaccc ccaacctcta ccccctggta catatgaacc agcctacctc ggtggcagag
4021 accccagggt tgaaggtggt ccatctttgc agcaagtatt gcgagaccag ctaaaaccat
4081 ttgctgaacc ccgtggcagg ttgcctgaag caggattgct agaagccgcg gttgaaactg
4141 tcaccaatgc aattgaacag gtcatggaca cacctgtggc atggagttac ggcgacgcct
4201 gcatgtcctt ggacaaaaca accagttctg gctaccctca tcacaaaaga aagaatgatg
4261 actggaacgg gagttcattt gtgagagaat tgggagacca ggcagcgcat gctaatagca
4321 tgtatgagct tggtaaatct atgaaaccag tgtacacagc agcactcaag gatgagcttg
4381 ttaagccaga caaggtgtac aataaaatta agaaaaggct actctggggg gcggatctcg
4441 gcaccgtcat acgtgctgct agggcttttg ggccattttg tgaagcaata aagccccatg
4501 tgattaagtt acccattaaa gtgggcatga atgccataga agatggaccc ttaatttatg
4561 cagaacactc caaatataag tatcattttg atgctgatta cacagcatgg gactcaacac
4621 aaaataggga gattatgatg gagtccttta acatcatgtg taaactcacc gctaatccct
4681 ccctggccgc agtggtggca caggacctgc tctctccttc tgagatggat gtcggtgatt
4741 atgtgatcag tgtcaaagat ggcctaccat ctggctttcc atgcacctca caagtgaaca
4801 gtatcaacca ttggatctac actttgtgcg ccttatcaga ggttactggt ctggctcctg
4861 acgtaataca gtcacagtct tacttttcat tttatggtga tgatgaaata gtttcaacag
4921 atattgaatt tgactcaaac agattaacac aggtgctaaa agagtatggc ttaaaaccca
4981 caagacctga taaaactgat ggtccgatca ttgtaaggca acaggttgat ggcttggttt
5041 tccttcggcg caccatctcg aaggatgcca tcgggtacca gggtcggctt gatcgcaatt
5101 ccattgaaag acagctctgg tggacccgag ggcccaatca tgatgatcca tttgaaacct
5161 tggtcccaca cacacagagg aaggtccaat taatatccct attaggtgag gccgcactcc
5221 atggtgagaa attctataga aagatagcca gtagggtgat ccaggaggtt aaagaaggag
5281 gattggaaat ttacatccct gggtggcagg ccatgttccg ctggatgcga ttccatgatc
5341 tgagtttgtg gacaggagac cgcgatctcc tgcccgatta tgtaaatgat gatggcgtct
5401 aaggacgccc caacaaacat ggatggcacc agtggtgccg gccagctggt accagaggca
5461 aatacagctg agcctatatc aatggagcca gtggctgggg cagcgacagc tgccgcaacc
5521 gctggccaag ttaacatgat tgacccctgg attatgaata attatgtgca agccccacaa
5581 ggtgaattca ccatatcacc aaacaacaca ccaggtgata ttctatttga tttacaatta
5641 ggccctcacc tcaacccctt tttatcccat ttggctcaaa tgtacaatgg atgggtaggt
5701 aacatgaaag tgaaagttct attggcaggt aatgctttca cggcagggaa aattattatt
5761 agttgtatac cccctggttt tgtctcacag aatatatcta tagctcaagc tacaatgttc
5821 ccccacgtta tagctgatgt cagggtcctg gagcccattg aggtcccatt ggaggatgtg
5881 aggaatgtgt tgttccacaa taatgataac acaccaacca tgagactggt atgcatgctc
5941 tacaccccct tgcgtgccag cggaagctca tctgggacag acccctttgt gattgctggg
6001 cgtgtgttga cttgccctag tcctgatttt agcttcttat tcttggtgcc ccccaacgta
6061 gaacaaaaga ctaaaccttt tagtgtccca gatctcccac tcaatgttct atcaaattca
6121 agggtgccgt cactgataaa attcatgatg gtgtcacagg accacggaca gatggtacaa
6181 tttcagaatg gcagggtcac actggatgga cagctccagg gcaccacacc aacatcggcc
6241 agccagctct gcaagatgcg ggggacggtt taccatgcct ccggtggtca agggcttaat
6301 ttaactgaga ttgatggcac cccctatcat gcatttgaaa gcccagctcc cattggtttc
6361 cctgacatag gagacagcga ttggcacatc aacgcttcac ccgccaccgc cttcgacagt
6421 ggcgaaagcg tcaaaagact agatatggaa cagggctctt catttgctcc acatttgggt
6481 actgtacact atactaatgc cagctatgaa gccaatgctg atctgatctg ctcattggag
6541 tggctatccc cgcctagcgg aggcactcca aacaaagtca atccttgggc cattccacgg
6601 tatggttcaa ctttgactga agctgctcag ctagccccac caatttaccc ccctggcttt
6661 ggagaagcta tagttttctt tatgtctgac tttcctatag caaatggtca agatgggtta
6721 agagtgccct gcactatacc ccaagaattt gtaacccatt ttgtcaatga acaagcacca
6781 acccgtgggg aagctgccct tcttcattat gttgatcccg acacgcaccg caatttgggt
6841 gagtttaagt tataccctga aggatttatg acttgtgtac caaattccag tggtagtggt
6901 ccccaaacgc tgcctatcaa tggagtcttc acttttgtct cttgggtttc tcgcttctat
6961 caactaaagc ctgtgggaac aaccggaccg gttcgtaggc taggaatcag gagatcataa
7021 tggcccaggc aatatttgga gcaatagctg cgacggctgc tggtagcgct gtgggtgcag
7081 gcattcaggc tggtactgag gccgcactcc aacatcagcg gttccagcag gatttaacgt
7141 tgcagagcaa cactttcaaa catgacaaag aaatgctagg gctacaggtt ggtgcttcca
7201 ctgctctttt gcaaaacagc ctcaacaccc gctacaacat gctcacaaat gctggtctct
7261 cgtcctcaga tgcagcacgc gtggtggttg gcgcgccagc cacacgtgtt gttgactgga
7321 acggcaccag ggtgtcagca ccacaatcta cagctaccac gttgaggtct ggtgggttca
7381 tgacaatccc aactctgtac aagggcaaac aacagcaaaa agctccaact gaaattggct
7441 tgtctaaccc aaattatagt tcatctgtgt cttctagggt tgctgattgg gtttcctctc
7501 aaaattcttc tcgctcatcc ttgggcccgt atcaccccag tgctttgcag actacatggg
7561 tgaccccacc cggttctagt tctacttcta ctatttcttc tgtgtctact gtacctagat
7621 atttcaatac tgataggttg cctctattcg caaatatgag gaaataa
//