Typing tool
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Typing tool
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Complete norovirus genomes
| OP162336 | GI.7 | |
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| GI.P7 |
ORF1: 1..5379
ORF2: 5363..6982
ORF3: 6982..7629
LOCUS OP162336 7629 bp RNA linear VRL 21-JUN-2023
DEFINITION Norovirus GI isolate RIVM-NOV-2016-0265_R01-06 nonstructural
polyprotein (ORF1) gene, partial cds; and VP1 (ORF2) and VP2 (ORF3)
genes, complete cds.
ACCESSION OP162336
VERSION OP162336.1
KEYWORDS .
SOURCE Norovirus GI
ORGANISM Norovirus GI
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norovirus norwalkense.
REFERENCE 1 (bases 1 to 7629)
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JOURNAL Unpublished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 7629)
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..7629
/organism="Norovirus GI"
/mol_type="genomic RNA"
/isolate="RIVM-NOV-2016-0265_R01-06"
/isolation_source="Human feces"
/host="Homo sapiens"
/db_xref="taxon:122928"
/geo_loc_name="Netherlands"
/collection_date="2016-08-16"
/note="genotype: GI.7[P7]"
gene <1..5379
/gene="ORF1"
CDS <1..5379
/gene="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="UUL90911.1"
/translation="DAIAAADVSKQNANTNNENIGSRLMAKLKERISSQRGEGTTKIK
NTEMALDLIRRSQTPSPTRSDPPPKAQRDRPPRTVSEVKQVLGWDGPADENYGARAWC
DLTAEEKKEILDNNERLFDAGGVTPSTVPSTFERCETSERVDGCHPVKWSESAGVDLG
VDSLTTVTGPVWNMCPLPPIDSRNNGPASEPRIGDMIEFYEGHIFHYAIYLGQGKTIG
VHSPQAAFSIARITIHPMAAWWRVCYEPTEQQRLSYDQLKELENEPWPYASITNNCYE
FCCRVMSLDDTWLQRKLVTSGRFNHPTQEWSKETPDFHQDSKLEIVRDAILSAINGLV
SQPFKNILSKIKPLNLLSLLSNCDWTFMGVVELVVLLAELFDIFWTPPDISNFIASLL
PDFHLQGPEDLARDLVPLILGGIGLAIGFTRDKITKVMKSAVDGLRSATQLGQYGLEV
FSIIKKYFFGGDQTEKTLKGIENAVIDMEVLSSTNVTQLVRDKKLAKTYMNILDNEEE
KARKLSVRSADPHVVTTVNNLISRISMARSALAKAQAEMTNRARPVVIMMCGPPGIGK
TKAAEHLANRLAGEIRPGGKVGLVPRESIDHWDGYHGEEVLLWDDYGMSKITEDCNKL
QAIADTAPLTLNCDRIENKGMQFVSDAIIITTNAPGPAPVDFVNLGPVCRRVDFLVYC
TAPEIEQTRRAHPGDTNAIKNLFKPDFSHLKMEIAPQGGFDNQGNTPFGKGAMKSTTL
NRLLIQAVALTMERQDEFQMQGAVYNFDEDRVTAFTSLARANGLGLLSMAALGKKLRS
VNNMEGLRNALKGYKITECDIVWNNRTYTIKGDGSNVSVIEKQVAATLQQQAISSVTL
ALSRLRAARALAYASCLQSAVTTILQMAGSAVVISRAVKRMFGTHTNQPALEGKPREH
NCRVHRAEREGHGPIGHDGIIERYGLCETDQEEEEKIEMEVPTADKEGKNKGKNKKGR
GRKNNYNAFSRRGLSDEEYEEYKKVREEKGGNYSIQEYLEDRQRYEEELAEVQAGGDG
GIGETEAEIRHRVFYKSKSGMRKQRQEERRQLGLVTGTEIRKRKPIDWTPPKNDWSED
TRQVNYDEHISFEAPPSIWSRVVKFGSGWGFWVSPTVFITTTHVVPPSAKEIFGEKLS
DIAIHRVGEFTQFRFSKKMRPDLSGMVLEEGCPEGTVCTIMVKRDSGELLPLAVRMGA
VASMKIQGKLMHGQSGMLLTGANAKGMDLGTIPGDCGAPYVHKRGNDWVVCGVHAAAT
KSGNTVVCAIQSGEGEATLEGGGQNKGHYAGHPILRYGNGPSLSTKTKFWKSTPQPLP
PGTYEPAYLGGRDPRVDGGPSLQQVLRDQLKPFAEPRGRLPEPSLLEAAVETVTNVLE
QTMDTPVPWSYSDACMSLDKTTSSGFPHHKRKNDDWNGSAFVRELGEQAAHANNMYEL
GKSVKPVYTAALKDELVKPEKVYTKIKKRLLWGADLGTVIRAARAFGPFCEAIKPHVI
KLPIKVGMNAIEDGPLIYAEHAKYKYHFDADYTAWDSTQNREIMLESFNIMCKLTANP
SLAAVVAQDLLSPSEMDVGDYVISVKDGLPSGFPCTSQVNSINHWIYTLCALSEVTGL
APDVLQAQSYFSFYGDDEIVSTDVEFDPIKLTQVLKEYGLKPTRPDKSEGPIIVKQQV
DGLVFLRRTISKDAVGYQGRLDRNSIERQLWWTRGPNHDDPFETLIPHQQRKIQLISL
LGEAALHGEKFYRKIANRVIQEVKEGGLELYIPGWQAMFRWMRFHDLSMWTGDRNLLP
DYVNDDGV"
mat_peptide <1..1194
/gene="ORF1"
/product="p48"
mat_peptide 1195..2283
/gene="ORF1"
/product="NTPase"
mat_peptide 2284..2883
/gene="ORF1"
/product="p22"
mat_peptide 2884..3303
/gene="ORF1"
/product="VPg"
mat_peptide 3304..3846
/gene="ORF1"
/product="Pro"
mat_peptide 3847..5376
/gene="ORF1"
/product="RdRp"
gene 5363..6982
/gene="ORF2"
CDS 5363..6982
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="UUL90912.1"
/translation="MMMASKDAPSNMDGTSGAGQLVPEVNAAEPLPLEPVVGAATAVA
TAGQVNLIDPWIMNNFVQAPEGEFTISPNNTPGDILFDLHLGPHLNPFLQHLSQMYNG
WVGNMRVRVMLAGNAFTAGKIIICCVPPGFASQNISIGQATMFPHVIADVRVLEPIEI
PLDDVRNVLFHTNENRPTMRLLCMLYTPLRAGGASSGTDPFVIAGRVLTCPAPDFNFL
FLVPPSVEQKTRQLTVPNIPLNNMANSRVPAMINKMTVSADQNQVVQFQNGRCTLEGQ
LLGTTPVSASQVARIRGKVFSTASGKGLNLTELDGTPYHAFESPAPLGFPDIGACDWH
VSTFKVDQNLSGDPMSRLDIKQNAPFAPHLGSIEFTSDQDPTGDQLGTLAWVSPSTSG
TRVDPWKIPSYGSTVTESTHLAPPIFPPGFGEAIVYFMSDFPIVSGNTAQVPCTLPQE
FVSHFVEQQAPIRGEAALLHYVDPDTHRNLGEFKLYPDGFITCVPNTGGGPQNLPING
VFIFSSWVSRYYQLKPVGTAGPARRLGVRRV"
gene 6982..7629
/gene="ORF3"
CDS 6982..7629
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="UUL90913.1"
/translation="MAQAIIGAIAATAAGSAVGAGIQAGTEAALQYQRFQQDLTLQEN
SFKHDERMLGLQIEGSNALLQKNLSTRYNLLVGAGLSSADAARSIVGAPVTKIVDWNG
VRIAAPTSTATTLRSGNFMNIPVTLKKEPQNLPLRSTGLSNPNYDSSTMISRTTQWVE
SQNSIRNLSPFHNSALRTTWVTPPGSTSTSTFSTVSSAPRFFNTERLPLFANNRK"
ORIGIN
1 gacgctattg ccgctgctga tgtcagcaaa caaaatgcta acaccaacaa cgaaaacatc
61 ggttctcgcc ttatggcgaa gctgaaagag cgtataagct ctcaacgtgg tgaaggaacc
121 acgaaaatca agaatactga aatggcactg gatctaatac gcaggtctca aacaccatcg
181 ccaacgcgct cggacccccc tcctaaggcg cagcgcgatc gccctccgag gactgtgtca
241 gaagttaagc aggttttagg ttgggatggc cctgctgatg agaattatgg ggcccgagca
301 tggtgtgact taacagctga agaaaagaag gaaatcctgg acaacaacga gcgcctcttt
361 gacgctggcg gtgtgactcc ttcgacagtg ccaagtacct ttgagagatg tgaaacatct
421 gagcgagtcg acggctgtca ccctgtcaaa tggagcgagt ctgcgggagt ggatttaggc
481 gtggattctc tgaccactgt cacaggccca gtgtggaata tgtgccccct tccaccgatt
541 gactcacgta acaacggccc tgcaagtgag ccacgcattg gagatatgat agaattttat
601 gaagggcaca tatttcatta tgccatttat cttggtcagg ggaagaccat aggagtccac
661 tcccctcagg cagccttctc catagctcgt ataaccatac accctatggc agcatggtgg
721 cgcgtctgct atgaaccaac agaacagcaa cgcctcagct atgaccaatt aaaagaactt
781 gagaatgaac cgtggcccta cgcatccata acgaataact gttatgaatt ctgctgccgt
841 gtcatgtccc tggacgacac ctggttacaa cgaaagttgg tgacatctgg caggtttaat
901 caccccaccc aggagtggtc caaggaaaca cctgattttc accaagattc aaaattggaa
961 atagtgaggg acgcaatact atccgccata aacggcttgg tctctcaacc ttttaagaat
1021 atcctctcaa aaattaagcc attgaatttg ttgtctttgc tatcaaattg tgactggact
1081 ttcatggggg ttgtcgagct agtggtgcta ttggctgagt tgttcgacat cttctggacc
1141 ccacctgata tctctaactt catagcatct ctcctgcctg actttcacct gcaagggcca
1201 gaggatctgg caagagacct ggtcccattg atattggggg gtattggcct ggccattggc
1261 tttactagag ataaaattac aaaagtcatg aagagtgccg ttgacggcct gcgctcagcc
1321 acgcagcttg gacaatatgg ccttgaggtg ttctcgatca taaagaagta tttctttggt
1381 ggagaccaaa ctgagaaaac cctcaagggc atagagaatg cagtcataga tatggaggtc
1441 ctgtcgagca ccaatgttac acaactggtg cgcgacaaga aattggccaa aacatacatg
1501 aatatcctgg acaatgagga ggaaaaggca aggaaacttt cagtgcgcag tgcagaccca
1561 catgttgtaa caacagtcaa caatctcatt tcgcgcatat ctatggcgcg atcagcactc
1621 gccaaggctc aggctgagat gactaatcgg gcacgacccg tggtcataat gatgtgtggg
1681 ccaccaggta taggaaaaac caaagctgct gaacacctgg ccaatcgcct agctggtgag
1741 ataagacctg ggggaaaagt gggcttagtg cctagggaat ccattgacca ttgggatggc
1801 taccatgggg aagaagtcct gttgtgggat gactatggca tgtccaagat aacagaggac
1861 tgcaataaat tacaagctat agctgacact gccccactca cactcaactg tgacaggata
1921 gagaacaagg gcatgcaatt tgtgtcagat gcaataataa taacaacaaa cgcccctggg
1981 ccagctcccg tcgactttgt taaccttggt ccagtatgtc gacgtgtaga ctttttggtg
2041 tactgcaccg cccccgaaat tgaacagacc aggagagccc accctgggga cactaatgct
2101 atcaagaatt tgttcaaacc agacttttcc catttaaaaa tggagatagc accacaaggg
2161 ggatttgata atcagggaaa cactcccttt gggaagggtg ctatgaaatc aaccacactt
2221 aataggctgc tcatacaggc agtcgctttg acaatggaaa gacaagatga gttccaaatg
2281 cagggggcag tgtataactt tgatgaggat cgggtcacag ctttcactag cctggcccgg
2341 gccaacggac tgggactttt gagcatggct gcactcggta aaaagttgcg gagtgtcaac
2401 aatatggagg gacttcgcaa cgccctcaaa ggatacaaga tcactgaatg tgacattgtg
2461 tggaacaaca ggacttacac cattaaagga gatggatcaa atgtgagtgt catagaaaag
2521 caggtagctg ccactcttca gcaacaggcc atcagttcag ttactctggc actttctagg
2581 ttacgcgccg cacgagcgtt ggcatacgca tcatgcctcc agagcgcagt aaccaccatc
2641 ttgcaaatgg ctgggtctgc agtggtgatc agcagggcag tcaaacgcat gtttgggacc
2701 cataccaacc agccagcact ggagggcaaa cccagggaac acaactgcag ggttcaccgt
2761 gctgaaaggg aaggtcatgg ccccattggt catgatggca tcatagaacg gtacggtctg
2821 tgtgagactg atcaagaaga agaagaaaag attgagatgg aagtgccgac tgcagacaag
2881 gaaggtaaga ataaaggcaa gaacaagaag gggcgaggta ggaagaacaa ctacaacgcc
2941 ttctctaggc gaggcctaag tgatgaggag tatgaagaat acaagaaggt cagagaagag
3001 aagggtggta actacagcat ccaagaatac ctcgaggacc gtcaacgata tgaagaagag
3061 ttggctgagg tccaagcggg tggagatggc gggatcggtg aaacagaggc agagatccgc
3121 catcgtgttt tctacaaatc caagagtggc atgcgaaagc aacgtcaaga agaacgccga
3181 cagcttggat tggttacagg cactgaaatc agaaaacgca agcccataga ttggacacca
3241 cccaagaatg actggtcaga agacaccaga caggtcaact atgatgagca catcagcttt
3301 gaagccccac cttctatttg gagtagagtg gtcaaatttg gcagtggatg gggtttttgg
3361 gtgagtccaa cagtttttat tacaaccaca cacgtcgtac caccaagtgc taaagaaatt
3421 tttggggaaa aactttcaga tatagcaata cacagagttg gggagttcac acaatttaga
3481 ttctctaaga aaatgagacc tgacctcagt ggtatggtcc ttgaggaagg ttgcccggag
3541 ggaacggtgt gcactataat ggtgaagaga gattcaggcg aattgctgcc tctggctgtg
3601 cgtatgggag ctgtcgcgtc catgaagata caaggtaagc tcatgcatgg acagtctggt
3661 atgttgctaa ccggtgcaaa tgcaaaggga atggacctgg gcaccatccc tggtgactgt
3721 ggagctccat acgtgcataa gaggggaaat gactgggtgg tgtgtggagt gcacgcagcc
3781 gcaaccaagt cgggcaacac cgtagtgtgt gcaatacagt caggagaagg tgaagctacc
3841 cttgaagggg gcgggcaaaa caaagggcat tatgcaggcc acccaatttt aaggtatggc
3901 aatggaccct ctctctccac aaaaaccaaa ttctggaaat caacccccca gccacttccg
3961 cctggaacct atgaaccagc ttacctaggt gggcgtgacc ctagggtaga cggtggtcca
4021 tcccttcaac aagtcctacg tgaccaactc aagccatttg ctgagccccg tggtagacta
4081 ccagaaccga gtttgcttga agcagctgtg gagactgtca caaatgtttt agaacaaacc
4141 atggacacac ctgtgccatg gagctacagt gatgcctgta tgtcacttga taagaccacc
4201 agctcgggct ttccacacca caaacgcaag aatgacgatt ggaacggaag tgcgtttgtg
4261 cgcgagcttg gagaacaggc ggcccatgcc aataacatgt atgagttggg caaatcagtc
4321 aaaccggttt ataccgcagc actcaaggac gaactggtga aacccgagaa agtgtacaca
4381 aaaataaaga agagactgct ttggggcgca gaccttggca cagttattcg agccgcccga
4441 gcctttggcc cattctgtga agccataaaa ccacatgtga taaaactgcc aatcaaagtt
4501 ggcatgaatg caattgagga cggccctctc atatatgctg aacatgcaaa gtataaatat
4561 cactttgatg cagactacac agcttgggac tcaactcaaa atagagaaat catgttagaa
4621 tccttcaaca tcatgtgcaa actcacggct aatccatcac tggctgccgt cgtggctcaa
4681 gacctgttat ccccatcaga aatggacgtg ggtgactacg tgatcagtgt caaggatggc
4741 cttccctcag ggttcccatg cacctcacaa gtcaatagca taaaccattg gatatacact
4801 ttgtgtgctc tgtcggaggt cacaggccta gcccctgacg ttctgcaggc ccaatcctac
4861 ttctccttct acggggatga tgaaattgtc tcgactgatg tggaatttga cccaataaag
4921 ctcacccaag tgcttaagga atatggcttg aagcccaccc ggcctgacaa atcagaggga
4981 cccatcatag tgaaacaaca ggtagatggg ctagtcttcc tgaggcgcac catatcgaaa
5041 gatgctgtcg gctaccaagg acgcctggac cgtaactcca ttgaaagaca attatggtgg
5101 actcggggcc caaaccatga tgatcccttt gagacattga taccccatca acaaagaaaa
5161 atccaattaa tttccctgct tggtgaagcc gcactccatg gagaaaagtt ctataggaag
5221 attgccaaca gagttataca ggaagttaag gagggggggc ttgagctcta tataccgggt
5281 tggcaggcca tgttccgctg gatgcgattc catgacttga gtatgtggac aggagatcgc
5341 aatctcttgc ccgattatgt aaatgatgat ggcgtctaag gacgccccct caaacatgga
5401 tggcactagt ggtgccggtc agctggtccc agaggttaat gcagctgaac ctttacccct
5461 tgaaccggta gtcggcgccg caactgcggt tgccactgct ggacaggtta atttaataga
5521 cccctggatt atgaataatt ttgttcaagc ccctgagggt gagtttacca tctcacctaa
5581 taacacccct ggagatattc tgtttgattt gcatctagga ccacacctta atccctttct
5641 acagcatttg tcccaaatgt ataatggttg ggtgggcaat atgagagtta gagttatgct
5701 tgcagggaat gcgttcactg ctggtaagat tataatttgt tgtgtcccac ctggctttgc
5761 atcccaaaat atatcaattg gtcaggctac tatgttccca cacgtcatag ctgatgtgag
5821 ggtgctggag cctatagaaa tccctcttga tgatgtgcgt aatgtcttgt tccatactaa
5881 tgagaaccgc cctaccatgc ggttactttg catgctatac acacccctcc gtgctggtgg
5941 tgcttcatcg ggcacggacc cctttgtcat tgcgggtcgt gtactaactt gccccgcccc
6001 tgattttaat tttctgttcc ttgtaccccc tagtgtagag cagaaaacca ggcagttgac
6061 tgtgcccaac atacccctga acaatatggc caattccaga gtgcccgcaa tgataaacaa
6121 gatgacagtt tctgctgatc aaaaccaggt ggtccaattc cagaatggtc gttgcacact
6181 tgaaggacag ctcttaggca caactccagt ttcagctagt caagtggccc gcatacgtgg
6241 caaagtcttt tccaccgcat ctgggaaagg actcaatctg actgaattgg atggaactcc
6301 ttaccacgca tttgagagcc cagcccccct tggtttccct gacatcggag cctgtgattg
6361 gcatgtgtca acctttaagg tggatcaaaa cctttcagga gatcctatgt ccaggttaga
6421 tataaaacaa aatgccccgt ttgcaccaca ccttggttcc attgaattca cctctgatca
6481 ggacccaact ggggatcaat tgggaacatt ggcctgggtt tccccttcca ctagtggaac
6541 tagggtagac ccctggaaaa ttccatcata tggttcaaca gtgacagaat ccactcatct
6601 ggcaccaccc atatttccac caggctttgg cgaggccata gtttacttta tgtcagattt
6661 tcccattgtc tcaggcaaca ccgcccaagt cccctgcact ctgccccaag aatttgtctc
6721 acactttgtg gagcaacagg caccgattcg aggtgaagct gccctacttc attatgtgga
6781 cccagacacc catcgtaatc tgggagagtt caaattgtac cctgatggat ttatcacctg
6841 tgtgccaaac acaggtggtg gtcctcaaaa tttacctata aatggagtct ttatcttttc
6901 ttcctgggtt tctaggtatt atcaattaaa gcctgtggga acagccggtc cggctaggag
6961 gcttggtgtc agaagagtat aatggcccaa gccattatag gagctattgc cgccaccgct
7021 gctggcagcg ccgtgggggc aggtatccag gctgggacag aagcagccct tcaataccag
7081 agatttcaac aagaccttac cctgcaggag aactcattta aacatgatga aagaatgcta
7141 ggtttgcaga ttgagggatc taacgctcta ctacaaaaga atctctctac tcgctataat
7201 cttttggttg gtgcaggcct ttcttcagct gatgctgcaa gatccatcgt tggggcccct
7261 gtgacaaaaa ttgtggactg gaacggagtg aggattgctg cccctacgtc cactgccacc
7321 acactccgat ctggcaactt tatgaatata ccagttacac tcaaaaagga gcctcaaaac
7381 ttaccattgc gctctacggg cttatctaat cctaattatg actcatctac aatgatttct
7441 aggacaactc agtgggtgga gtcacagaat tcaatcagga atttatcacc tttccataat
7501 tcagccctga ggaccacctg ggtgacccct cctggttcta cttctacctc cactttttct
7561 actgtttctt ctgcgccacg gttcttcaat accgagcgcc ttcctctgtt cgcaaacaat
7621 aggaaatag
//